Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 28 of 313
Found at i:9577673 original size:31 final size:31
Alignment explanation
Indices: 9577627--9577707 Score: 126
Period size: 31 Copynumber: 2.6 Consensus size: 31
9577617 TTGCATTCAC
*
9577627 ATTCTGATTTTTGATTCTGTTACCTGATACTG
1 ATTCTGA-TTTTGATTCTGTTACCTGATACTA
*
9577659 ATTCTGATTTTGATTCTGTTACTTGATACTA
1 ATTCTGATTTTGATTCTGTTACCTGATACTA
*
9577690 ATTCTGATTCTGATTCTG
1 ATTCTGATTTTGATTCTG
9577708 ATTCTAGTTC
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
31 39 0.85
32 7 0.15
ACGTcount: A:0.20, C:0.15, G:0.15, T:0.51
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTA
Found at i:9591278 original size:44 final size:41
Alignment explanation
Indices: 9591181--9591280 Score: 114
Period size: 40 Copynumber: 2.4 Consensus size: 41
9591171 CAATAGTATT
*
9591181 TGGCACTAAGTGTGCGATTTAAACTAGCTTCAGCTATATGA
1 TGGCACTAAGTGTGCGATCTAAACTAGCTTCAGCTATATGA
* * *
9591222 -GGCACTAAGTGTGCGATACTGAATTAGCTTCGGCTA-ATTGATA
1 TGGCACTAAGTGTGCGAT-CTAAACTAGCTTCAGCTATA-TG--A
9591265 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
9591281 GAATCGTTCT
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
40 18 0.36
41 16 0.32
43 1 0.02
44 15 0.30
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (41 bp):
TGGCACTAAGTGTGCGATCTAAACTAGCTTCAGCTATATGA
Found at i:9604939 original size:17 final size:18
Alignment explanation
Indices: 9604907--9604940 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
9604897 CCGGGCCAGA
9604907 ATGGGCTATGTGGGCCCG
1 ATGGGCTATGTGGGCCCG
9604925 ATGGGCTAT-TGGGCCC
1 ATGGGCTATGTGGGCCC
9604941 ATAATAGGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.12, C:0.24, G:0.41, T:0.24
Consensus pattern (18 bp):
ATGGGCTATGTGGGCCCG
Found at i:9605045 original size:29 final size:29
Alignment explanation
Indices: 9605001--9605106 Score: 169
Period size: 29 Copynumber: 3.7 Consensus size: 29
9604991 AAGCATGAAC
9605001 ATGAATGTGATTTGGGCCTAATGGGCCAT
1 ATGAATGTGATTTGGGCCTAATGGGCCAT
*
9605030 ACGAATGTGATTTGGGCCTAATGGGCCAT
1 ATGAATGTGATTTGGGCCTAATGGGCCAT
*
9605059 ATGAATGTGATTTGGGCCTAACGGGCCAT
1 ATGAATGTGATTTGGGCCTAATGGGCCAT
**
9605088 ATGAATAAGA-TTGGGCCTA
1 ATGAATGTGATTTGGGCCTA
9605107 GTTGGCAATA
Statistics
Matches: 72, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
28 9 0.12
29 63 0.88
ACGTcount: A:0.26, C:0.15, G:0.30, T:0.28
Consensus pattern (29 bp):
ATGAATGTGATTTGGGCCTAATGGGCCAT
Found at i:9608742 original size:42 final size:40
Alignment explanation
Indices: 9608581--9608734 Score: 152
Period size: 42 Copynumber: 3.7 Consensus size: 40
9608571 ATGAGTTCAT
*
9608581 GTGTAAGACCATATCTGGGATATGGCATC-ATTATGAGATTTC
1 GTGTAAGACCATGTCTGGGATATGGCATCGA-TATGAGA--TC
*
9608623 GTGTAAGACCATGTCTGGG-TCATGGGATCGATATGAGAATC
1 GTGTAAGACCATGTCTGGGAT-ATGGCATCGATATGAG-ATC
* *
9608664 GTGTAAGACTATAGT-TGGGTTATTGGCATCGATATGAGATCCC
1 GTGTAAGACCAT-GTCTGGGATA-TGGCATCGATATGAGAT--C
**
9608707 ACGTAAGACCATGTCTGGGATATGGCAT
1 GTGTAAGACCATGTCTGGGATATGGCAT
9608735 TGGTATGATT
Statistics
Matches: 95, Mismatches: 8, Indels: 18
0.79 0.07 0.15
Matches are distributed among these distances:
41 21 0.22
42 56 0.59
43 18 0.19
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (40 bp):
GTGTAAGACCATGTCTGGGATATGGCATCGATATGAGATC
Found at i:9614004 original size:17 final size:18
Alignment explanation
Indices: 9613972--9614005 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
9613962 CCGGGCCAGA
9613972 ATGGGCTATGTGGGCCCG
1 ATGGGCTATGTGGGCCCG
9613990 ATGGGCTAT-TGGGCCC
1 ATGGGCTATGTGGGCCC
9614006 ATAATAGGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.12, C:0.24, G:0.41, T:0.24
Consensus pattern (18 bp):
ATGGGCTATGTGGGCCCG
Found at i:9614110 original size:29 final size:29
Alignment explanation
Indices: 9614066--9614171 Score: 169
Period size: 29 Copynumber: 3.7 Consensus size: 29
9614056 AAGCATGAAC
9614066 ATGAATGTGATTTGGGCCTAATGGGCCAT
1 ATGAATGTGATTTGGGCCTAATGGGCCAT
*
9614095 ACGAATGTGATTTGGGCCTAATGGGCCAT
1 ATGAATGTGATTTGGGCCTAATGGGCCAT
*
9614124 ATGAATGTGATTTGGGCCTAACGGGCCAT
1 ATGAATGTGATTTGGGCCTAATGGGCCAT
**
9614153 ATGAATAAGA-TTGGGCCTA
1 ATGAATGTGATTTGGGCCTA
9614172 GTTGGCAATA
Statistics
Matches: 72, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
28 9 0.12
29 63 0.88
ACGTcount: A:0.26, C:0.15, G:0.30, T:0.28
Consensus pattern (29 bp):
ATGAATGTGATTTGGGCCTAATGGGCCAT
Found at i:9617807 original size:42 final size:40
Alignment explanation
Indices: 9617646--9617799 Score: 152
Period size: 42 Copynumber: 3.7 Consensus size: 40
9617636 ATGAGTTCAT
*
9617646 GTGTAAGACCATATCTGGGATATGGCATC-ATTATGAGATTTC
1 GTGTAAGACCATGTCTGGGATATGGCATCGA-TATGAGA--TC
*
9617688 GTGTAAGACCATGTCTGGG-TCATGGGATCGATATGAGAATC
1 GTGTAAGACCATGTCTGGGAT-ATGGCATCGATATGAG-ATC
* *
9617729 GTGTAAGACTATAGT-TGGGTTATTGGCATCGATATGAGATCCC
1 GTGTAAGACCAT-GTCTGGGATA-TGGCATCGATATGAGAT--C
**
9617772 ACGTAAGACCATGTCTGGGATATGGCAT
1 GTGTAAGACCATGTCTGGGATATGGCAT
9617800 TGGTATGATT
Statistics
Matches: 95, Mismatches: 8, Indels: 18
0.79 0.07 0.15
Matches are distributed among these distances:
41 21 0.22
42 56 0.59
43 18 0.19
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (40 bp):
GTGTAAGACCATGTCTGGGATATGGCATCGATATGAGATC
Found at i:9621560 original size:227 final size:227
Alignment explanation
Indices: 9621162--9621616 Score: 892
Period size: 227 Copynumber: 2.0 Consensus size: 227
9621152 ACAAATGGGC
9621162 AACACACCAACATTATTTCATCCATGCACCATGCGTCCCAAGCTATGCACCTACCTGAATTAAAA
1 AACACACCAACATTATTTCATCCATGCACCATGCGTCCCAAGCTATGCACCTACCTGAATTAAAA
9621227 TCAATTCATTAAATCCCATGTGAACACCTTAAATTCGGCACAAATGTGAACAAACATTCCAAGCA
66 TCAATTCATTAAATCCCATGTGAACACCTTAAATTCGGCACAAATGTGAACAAACATTCCAAGCA
*
9621292 TTAATTCGGTTATTACATAATTAAAACATGTAATGTAAAACACAATTTAATTACTAATGTGAACT
131 TTAATTCGGTTATTACATAATTAAAACATGTAATATAAAACACAATTTAATTACTAATGTGAACT
9621357 TAATTAAAAGCATAATTAATTTATAATAACTA
196 TAATTAAAAGCATAATTAATTTATAATAACTA
9621389 AACACACCAACATTATTTCATCCATGCACCATGCGTCCCAAGCTATGCACCTACCTGAATTAAAA
1 AACACACCAACATTATTTCATCCATGCACCATGCGTCCCAAGCTATGCACCTACCTGAATTAAAA
9621454 TCAATTCATTAAATCCCATGTGAACACCTTAAATTCGGCACAAATGTGAACAAACATTCCAAGCA
66 TCAATTCATTAAATCCCATGTGAACACCTTAAATTCGGCACAAATGTGAACAAACATTCCAAGCA
*
9621519 TTAATTCGGTTATTACATAATTAAAACATGTAATATAAAACATAATTTAATTACTAATGTGAACT
131 TTAATTCGGTTATTACATAATTAAAACATGTAATATAAAACACAATTTAATTACTAATGTGAACT
9621584 TAATTAAAAGCATAATTAATTTATAATAACTA
196 TAATTAAAAGCATAATTAATTTATAATAACTA
9621616 A
1 A
9621617 CTAATGAACT
Statistics
Matches: 226, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
227 226 1.00
ACGTcount: A:0.42, C:0.20, G:0.09, T:0.30
Consensus pattern (227 bp):
AACACACCAACATTATTTCATCCATGCACCATGCGTCCCAAGCTATGCACCTACCTGAATTAAAA
TCAATTCATTAAATCCCATGTGAACACCTTAAATTCGGCACAAATGTGAACAAACATTCCAAGCA
TTAATTCGGTTATTACATAATTAAAACATGTAATATAAAACACAATTTAATTACTAATGTGAACT
TAATTAAAAGCATAATTAATTTATAATAACTA
Found at i:9621753 original size:30 final size:29
Alignment explanation
Indices: 9621719--9621776 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 29
9621709 GCTAAGTCCG
*
9621719 AGCTCGGGAGCTGAAGTTGAGCTGAGAACA
1 AGCTCAGGAGCTGAAGTTGAGCTG-GAACA
* *
9621749 AGCTCATGAGCTGGAGTTGAGCTGGAAC
1 AGCTCAGGAGCTGAAGTTGAGCTGGAAC
9621777 TGAGCTTTCT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 4 0.16
30 21 0.84
ACGTcount: A:0.28, C:0.17, G:0.36, T:0.19
Consensus pattern (29 bp):
AGCTCAGGAGCTGAAGTTGAGCTGGAACA
Found at i:9628022 original size:12 final size:13
Alignment explanation
Indices: 9627986--9628032 Score: 78
Period size: 13 Copynumber: 3.7 Consensus size: 13
9627976 ATGGTTTTGT
9627986 GAAAATTTCATTC
1 GAAAATTTCATTC
9627999 GAAAATTTCATTC
1 GAAAATTTCATTC
9628012 GAAAA-TTCATTC
1 GAAAATTTCATTC
*
9628024 AAAAATTTC
1 GAAAATTTC
9628033 GACGTTTGGG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
12 11 0.34
13 21 0.66
ACGTcount: A:0.43, C:0.15, G:0.06, T:0.36
Consensus pattern (13 bp):
GAAAATTTCATTC
Found at i:9629095 original size:23 final size:23
Alignment explanation
Indices: 9629065--9629110 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
9629055 GGTACAATGA
9629065 CATGTCACTAGTGACTCAAGTGT
1 CATGTCACTAGTGACTCAAGTGT
9629088 CATGTCACTAGTGACTCAAGTGT
1 CATGTCACTAGTGACTCAAGTGT
9629111 AGTACTATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (23 bp):
CATGTCACTAGTGACTCAAGTGT
Found at i:9629224 original size:52 final size:51
Alignment explanation
Indices: 9629104--9629278 Score: 205
Period size: 52 Copynumber: 3.5 Consensus size: 51
9629094 ACTAGTGACT
* * * *
9629104 CAAGTGTAGTACTATGTGAAGGCCACTTTGAGAAG-AGATA-GCTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCTACTTTGTGAAGAAGATAGGTTTGGTCA
*
9629153 TAAGTGTGGTACTATGTGAAGGCTACTTTGTGAAGAAAGATAGGTTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCTACTTTGTGAAG-AAGATAGGTTTGGTCA
* * *
9629205 CAAGTGTGGTACTATGTGAAGG-TCACTTTGTGAAGAAGGTAGCTTT-GACTA
1 CAAGTGTGGTACTATGTGAAGGCT-ACTTTGTGAAGAAGATAGGTTTGGTC-A
* *
9629256 CAAGGGTGGTACTATGTGCAGGC
1 CAAGTGTGGTACTATGTGAAGGC
9629279 CACCAGGTAT
Statistics
Matches: 109, Mismatches: 11, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
49 31 0.28
50 2 0.02
51 36 0.33
52 40 0.37
ACGTcount: A:0.28, C:0.12, G:0.31, T:0.29
Consensus pattern (51 bp):
CAAGTGTGGTACTATGTGAAGGCTACTTTGTGAAGAAGATAGGTTTGGTCA
Found at i:9632622 original size:28 final size:28
Alignment explanation
Indices: 9632581--9632649 Score: 120
Period size: 28 Copynumber: 2.5 Consensus size: 28
9632571 ATTGCATGAC
*
9632581 TATGAATGTTATTGGGGCCGATGGGCCA
1 TATGAATGTGATTGGGGCCGATGGGCCA
9632609 TATGAATGTGATTGGGGCCGATGGGCCA
1 TATGAATGTGATTGGGGCCGATGGGCCA
*
9632637 TATGAAAGTGATT
1 TATGAATGTGATT
9632650 TGGGTATAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.25, C:0.12, G:0.35, T:0.29
Consensus pattern (28 bp):
TATGAATGTGATTGGGGCCGATGGGCCA
Found at i:9637341 original size:28 final size:28
Alignment explanation
Indices: 9637309--9637409 Score: 125
Period size: 28 Copynumber: 3.6 Consensus size: 28
9637299 ATTGCGTGAC
9637309 TATGAATATGATTGGGGCCAATGGGCCA
1 TATGAATATGATTGGGGCCAATGGGCCA
* * * *
9637337 TATGAATGTGATTGGGGCCGATAGGTCA
1 TATGAATATGATTGGGGCCAATGGGCCA
9637365 TATGAA-AGTGATTGGGGCCTAATGGGCCA
1 TATGAATA-TGATTGGGGCC-AATGGGCCA
9637394 TATGAATGA-GATTGGG
1 TATGAAT-ATGATTGGG
9637410 CCTACAGGGG
Statistics
Matches: 61, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
28 41 0.67
29 19 0.31
31 1 0.02
ACGTcount: A:0.28, C:0.11, G:0.35, T:0.27
Consensus pattern (28 bp):
TATGAATATGATTGGGGCCAATGGGCCA
Found at i:9637420 original size:29 final size:28
Alignment explanation
Indices: 9637309--9637429 Score: 122
Period size: 28 Copynumber: 4.2 Consensus size: 28
9637299 ATTGCGTGAC
*
9637309 TATGAATATGATTGGGGCC-AATGGGCCA
1 TATGAATGTGATTGGGGCCTAA-GGGCCA
* *
9637337 TATGAATGTGATTGGGGCCGATA-GGTCA
1 TATGAATGTGATTGGGGCCTA-AGGGCCA
*
9637365 TATGAAAGTGATTGGGGCCTAATGGGCCA
1 TATGAATGTGATTGGGGCCTAA-GGGCCA
*
9637394 TATGAATGAGATT-GGGCCTACAGGGGCCA
1 TATGAATGTGATTGGGGCCTA-A-GGGCCA
*
9637423 AATGAAT
1 TATGAAT
9637430 AAGTATGGAT
Statistics
Matches: 79, Mismatches: 9, Indels: 9
0.81 0.09 0.09
Matches are distributed among these distances:
27 1 0.01
28 48 0.61
29 29 0.37
30 1 0.01
ACGTcount: A:0.29, C:0.13, G:0.33, T:0.25
Consensus pattern (28 bp):
TATGAATGTGATTGGGGCCTAAGGGCCA
Found at i:9650482 original size:275 final size:275
Alignment explanation
Indices: 9649991--9650545 Score: 1065
Period size: 275 Copynumber: 2.0 Consensus size: 275
9649981 TAAGCCCAAA
*
9649991 ATCAGGTTGTTACATTTCTCCCCCTTAGGGGTTTTCGTCCCTGAAAATCTTACCGGTGAATAAGT
1 ATCAGGTTGTTACATTTCTCCCCCTTAGGGGTTTTCGTACCTGAAAATCTTACCGGTGAATAAGT
9650056 TCGGGTATTGATCTCTCATAGTCTACTTGGGTTCCCATGTGGCTTCCTCATCTCCATGTCTATGG
66 TCGGGTATTGATCTCTCATAGTCTACTTGGGTTCCCATGTGGCTTCCTCATCTCCATGTCTATGG
*
9650121 AACAAAACTTTCACGAGTGCTATACTCTTATTCCTTAACTGTTTGACTTCTCGAGCCAAAATCTT
131 AACAAAACTTTCACGAGTGCTATACTCTTATTCCTTAACTATTTGACTTCTCGAGCCAAAATCTT
*
9650186 GACCGGCTCTTCTCCATAAGTCCTATACGGATGAATCTCAACCTCTATTGGCGCAATCACATGTG
196 GACCGGCTCTTCTCCATAAGTCATATACGGATGAATCTCAACCTCTATTGGCGCAATCACATGTG
*
9650251 AAGGGTCTGATTTAT
261 AAGGGTCTAATTTAT
9650266 ATCAGGTTGTTACATTTCTCCCCCTTAGGGGTTTTCGTACCTGAAAATCTTACCGGTGAATAAGT
1 ATCAGGTTGTTACATTTCTCCCCCTTAGGGGTTTTCGTACCTGAAAATCTTACCGGTGAATAAGT
*
9650331 TCGGGTATTGATCTCTCATAGTCTACTTGGGTTCCCATGTGGCTTCCTCATCTCTATGTCTATGG
66 TCGGGTATTGATCTCTCATAGTCTACTTGGGTTCCCATGTGGCTTCCTCATCTCCATGTCTATGG
9650396 AACAAAACTTTCACGAGTGCTATACTCTTATTCCTTAACTATTTGACTTCTCGAGCCAAAATCTT
131 AACAAAACTTTCACGAGTGCTATACTCTTATTCCTTAACTATTTGACTTCTCGAGCCAAAATCTT
9650461 GACCGGCTCTTCTCCATAAGTCATATACGGATGAATCTCAACCTCTATTGGCGCAATCACATGTG
196 GACCGGCTCTTCTCCATAAGTCATATACGGATGAATCTCAACCTCTATTGGCGCAATCACATGTG
9650526 AAGGGTCTAATTTAT
261 AAGGGTCTAATTTAT
9650541 ATCAG
1 ATCAG
9650546 CATAGCATGG
Statistics
Matches: 275, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
275 275 1.00
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.35
Consensus pattern (275 bp):
ATCAGGTTGTTACATTTCTCCCCCTTAGGGGTTTTCGTACCTGAAAATCTTACCGGTGAATAAGT
TCGGGTATTGATCTCTCATAGTCTACTTGGGTTCCCATGTGGCTTCCTCATCTCCATGTCTATGG
AACAAAACTTTCACGAGTGCTATACTCTTATTCCTTAACTATTTGACTTCTCGAGCCAAAATCTT
GACCGGCTCTTCTCCATAAGTCATATACGGATGAATCTCAACCTCTATTGGCGCAATCACATGTG
AAGGGTCTAATTTAT
Found at i:9656883 original size:27 final size:27
Alignment explanation
Indices: 9656863--9657229 Score: 311
Period size: 27 Copynumber: 13.7 Consensus size: 27
9656853 TTTTACACTA
* *
9656863 CAAGGGTATTTGGTTAATTTTACAAAT
1 CAAGGGTATTTCGATAATTTTACAAAT
* *
9656890 CGAGGGTATTTCGATAATTTTACAGAT
1 CAAGGGTATTTCGATAATTTTACAAAT
*
9656917 TAAGGGTATTTCG-TAATTTTACAAAT
1 CAAGGGTATTTCGATAATTTTACAAAT
*
9656943 CAAGGGTGTTTCGATAATTTTACAAAT
1 CAAGGGTATTTCGATAATTTTACAAAT
* * *
9656970 CGAGGGTGTTTCAATAATTTTACAAAT
1 CAAGGGTATTTCGATAATTTTACAAAT
* * * * * *
9656997 CGAGAGTGTTTCGGTAATTTCAAAAAT
1 CAAGGGTATTTCGATAATTTTACAAAT
** *
9657024 TGAGGGTATTTC-AGTAATTTCAC-AAT
1 CAAGGGTATTTCGA-TAATTTTACAAAT
* *
9657050 CAAGGGTATTTCGGTAATTTTATAAAT
1 CAAGGGTATTTCGATAATTTTACAAAT
** *
9657077 TGAGGGTATATCGATAATTTTACAAAT
1 CAAGGGTATTTCGATAATTTTACAAAT
** * *
9657104 TGAGGGTATTTCAATAATTTTA-AAAA
1 CAAGGGTATTTCGATAATTTTACAAAT
**
9657130 CTGGGGGTATTTC-AGTAATTTTACAAAT
1 C-AAGGGTATTTCGA-TAATTTTACAAAT
* *
9657158 C-AGGGTATTT-TAGTAATTTCAC-AAT
1 CAAGGGTATTTCGA-TAATTTTACAAAT
*
9657183 CAAGGGTATTTC-AGTAATTTTACAAAC
1 CAAGGGTATTTCGA-TAATTTTACAAAT
** *
9657210 CGGGGGTATTTTGATAATTT
1 CAAGGGTATTTCGATAATTT
9657230 CTCTTTATTA
Statistics
Matches: 284, Mismatches: 44, Indels: 24
0.81 0.12 0.07
Matches are distributed among these distances:
25 4 0.01
26 84 0.30
27 191 0.67
28 5 0.02
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (27 bp):
CAAGGGTATTTCGATAATTTTACAAAT
Found at i:9656904 original size:54 final size:53
Alignment explanation
Indices: 9656863--9657229 Score: 294
Period size: 53 Copynumber: 6.9 Consensus size: 53
9656853 TTTTACACTA
* *
9656863 CAAGGGTATTTGGTTAATTTTACAAATCGAGGGTATTTCGATAATTTTACAGAT
1 CAAGGGTATTTCG-TAATTTTACAAATCAAGGGTATTTCGATAATTTTACAGAT
* * *
9656917 TAAGGGTATTTCGTAATTTTACAAATCAAGGGTGTTTCGATAATTTTACAAAT
1 CAAGGGTATTTCGTAATTTTACAAATCAAGGGTATTTCGATAATTTTACAGAT
* * * * * * * * * *
9656970 CGAGGGTGTTTCAATAATTTTACAAATCGAGAGTGTTTCGGTAATTTCAAAAAT
1 CAAGGGTATTTC-GTAATTTTACAAATCAAGGGTATTTCGATAATTTTACAGAT
** * * * *
9657024 TGAGGGTATTTCAGTAATTTCAC-AATCAAGGGTATTTCGGTAATTTTATAAAT
1 CAAGGGTATTTC-GTAATTTTACAAATCAAGGGTATTTCGATAATTTTACAGAT
** * ** * * *
9657077 TGAGGGTATATCGATAATTTTACAAATTGAGGGTATTTCAATAATTTTA-AAAA
1 CAAGGGTATTTCG-TAATTTTACAAATCAAGGGTATTTCGATAATTTTACAGAT
** * *
9657130 CTGGGGGTATTTCAGTAATTTTACAAATC-AGGGTATTT-TAGTAATTTCACA-AT
1 C-AAGGGTATTTC-GTAATTTTACAAATCAAGGGTATTTCGA-TAATTTTACAGAT
* ** *
9657183 CAAGGGTATTTCAGTAATTTTACAAACCGGGGGTATTTTGATAATTT
1 CAAGGGTATTTC-GTAATTTTACAAATCAAGGGTATTTCGATAATTT
9657230 CTCTTTATTA
Statistics
Matches: 262, Mismatches: 42, Indels: 19
0.81 0.13 0.06
Matches are distributed among these distances:
52 26 0.10
53 125 0.48
54 110 0.42
55 1 0.00
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (53 bp):
CAAGGGTATTTCGTAATTTTACAAATCAAGGGTATTTCGATAATTTTACAGAT
Found at i:9656947 original size:80 final size:79
Alignment explanation
Indices: 9656863--9657229 Score: 339
Period size: 80 Copynumber: 4.6 Consensus size: 79
9656853 TTTTACACTA
* * *
9656863 CAAGGGTATTTGGTTAATTTTACAAATCGAGGGTATTTCGATAATTTTACAGATTAAGGGTATTT
1 CAAGGGTATTTAG-TAATTTTACAAATCGAGGGTATTTCGATAATTTTACAAATTGAGGGTATTT
*
9656928 CGTAATTTTACAAAT
65 CGTAATTTCACAAAT
* * * * * * *
9656943 CAAGGGTGTTTCGATAATTTTACAAATCGAGGGTGTTTCAATAATTTTACAAATCGAGAGTGTTT
1 CAAGGGTATTTAG-TAATTTTACAAATCGAGGGTATTTCGATAATTTTACAAATTGAGGGTATTT
*
9657008 CGGTAATTTCAAAAAT
65 C-GTAATTTCACAAAT
** * * * * *
9657024 TGAGGGTATTTCAGTAATTTCAC-AATCAAGGGTATTTCGGTAATTTTATAAATTGAGGGTATAT
1 CAAGGGTATTT-AGTAATTTTACAAATCGAGGGTATTTCGATAATTTTACAAATTGAGGGTATTT
*
9657088 CGATAATTTTACAAAT
65 CG-TAATTTCACAAAT
** * * * *
9657104 TGAGGGTATTTCAATAATTTTA-AAAACTGGGGGTATTTC-AGTAATTTTACAAA-TCAGGGTAT
1 CAAGGGTATTT-AGTAATTTTACAAATC-GAGGGTATTTCGA-TAATTTTACAAATTGAGGGTA-
*
9657166 TTTAGTAATTTCAC-AAT
62 TTTCGTAATTTCACAAAT
* * *
9657183 CAAGGGTATTTCAGTAATTTTACAAACCGGGGGTATTTTGATAATTT
1 CAAGGGTATTT-AGTAATTTTACAAATCGAGGGTATTTCGATAATTT
9657230 CTCTTTATTA
Statistics
Matches: 234, Mismatches: 44, Indels: 19
0.79 0.15 0.06
Matches are distributed among these distances:
79 39 0.17
80 143 0.61
81 51 0.22
82 1 0.00
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (79 bp):
CAAGGGTATTTAGTAATTTTACAAATCGAGGGTATTTCGATAATTTTACAAATTGAGGGTATTTC
GTAATTTCACAAAT
Found at i:9656976 original size:107 final size:108
Alignment explanation
Indices: 9656865--9657229 Score: 427
Period size: 107 Copynumber: 3.4 Consensus size: 108
9656855 TTACACTACA
* * * * *
9656865 AGGGTATTTGGTTAATTTTACAAATCGAGGGTATTTCGATAATTTTACAGATTAAGGGTATTTC-
1 AGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCGATAATTTTAAAAATTGAGGGTATTTCA
*
9656929 GTAATTTTACAAATCAAGGGTGTTTCGATAATTTTACAAATCG
66 GTAATTTTACAAATCAAGGGTATTTCGATAATTTTACAAATCG
* * * * * *
9656972 AGGGTGTTTCAATAATTTTACAAATCGAGAGTGTTTCGGTAATTTCAAAAATTGAGGGTATTTCA
1 AGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCGATAATTTTAAAAATTGAGGGTATTTCA
* * * *
9657037 GTAATTTCAC-AATCAAGGGTATTTCGGTAATTTTATAAATTG
66 GTAATTTTACAAATCAAGGGTATTTCGATAATTTTACAAATCG
* * * * *
9657079 AGGGTATATCGATAATTTTACAAATTGAGGGTATTTCAATAATTTTAAAAACTGGGGGTATTTCA
1 AGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCGATAATTTTAAAAATTGAGGGTATTTCA
* * *
9657144 GTAATTTTACAAATC-AGGGTATTT-TAGTAATTTCAC-AATCA
66 GTAATTTTACAAATCAAGGGTATTTCGA-TAATTTTACAAATCG
* * *
9657185 AGGGTATTTC-AGTAATTTTACAAACCGGGGGTATTTTGATAATTT
1 AGGGTATTTCGA-TAATTTTACAAATCGAGGGTATTTCGATAATTT
9657230 CTCTTTATTA
Statistics
Matches: 214, Mismatches: 40, Indels: 9
0.81 0.15 0.03
Matches are distributed among these distances:
105 1 0.00
106 40 0.19
107 160 0.75
108 13 0.06
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.39
Consensus pattern (108 bp):
AGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCGATAATTTTAAAAATTGAGGGTATTTCA
GTAATTTTACAAATCAAGGGTATTTCGATAATTTTACAAATCG
Found at i:9659371 original size:44 final size:44
Alignment explanation
Indices: 9659315--9659520 Score: 148
Period size: 46 Copynumber: 4.5 Consensus size: 44
9659305 CCATGTCCTG
*
9659315 GACATGGTCTTACACTAGCTCAACTCGTAGTC-GATGAATATCCCA
1 GACAT-GTCTTACACTAGCTCAACTCG-AGGCTGATGAATATCCCA
* * * *
9659360 GACATGTCTTACACTGGCTTACATCTCGAGGCTGATGCATGTCCCA
1 GACATGTCTTACACTAGC-T-CAACTCGAGGCTGATGAATATCCCA
** * * * *
9659406 GACATGTCTTACACTAGCTCTCGTCTCAATGCTGATGCCATGTCCCA
1 GACATGTCTTACACTAG--CTCAACTCGAGGCTGATG-AATATCCCA
* * * *
9659453 GACATGGTCTTACACTGGCTCTCGTAA-T-GTGGCTGATGCATATACCA
1 GACAT-GTCTTACACTAG--CTC--AACTCGAGGCTGATGAATATCCCA
9659500 GACATGTCTTACACTAGCTCA
1 GACATGTCTTACACTAGCTCA
9659521 CAATAATCCA
Statistics
Matches: 134, Mismatches: 18, Indels: 21
0.77 0.10 0.12
Matches are distributed among these distances:
42 1 0.01
44 15 0.11
45 9 0.07
46 57 0.43
47 27 0.20
48 24 0.18
49 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (44 bp):
GACATGTCTTACACTAGCTCAACTCGAGGCTGATGAATATCCCA
Found at i:9659410 original size:46 final size:46
Alignment explanation
Indices: 9659355--9659519 Score: 199
Period size: 46 Copynumber: 3.5 Consensus size: 46
9659345 TCGATGAATA
*
9659355 TCCCAGACATGTCTTACACTGGCT-TACATCTCGAGGCTGATGCATG
1 TCCCAGACATGTCTTACACTGGCTCT-CGTCTCGAGGCTGATGCATG
* * *
9659401 TCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGCTGATGCCATG
1 TCCCAGACATGTCTTACACTGGCTCTCGTCTCGAGGCTGATG-CATG
* * *
9659448 TCCCAGACATGGTCTTACACTGGCTCTCGTAAT-GTGGCTGATGCATA
1 TCCCAGACAT-GTCTTACACTGGCTCTCGT-CTCGAGGCTGATGCATG
* *
9659495 TACCAGACATGTCTTACACTAGCTC
1 TCCCAGACATGTCTTACACTGGCTC
9659520 ACAATAATCC
Statistics
Matches: 103, Mismatches: 12, Indels: 8
0.84 0.10 0.07
Matches are distributed among these distances:
46 50 0.49
47 27 0.26
48 25 0.24
49 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.19, T:0.29
Consensus pattern (46 bp):
TCCCAGACATGTCTTACACTGGCTCTCGTCTCGAGGCTGATGCATG
Found at i:9661142 original size:49 final size:51
Alignment explanation
Indices: 9661062--9661203 Score: 216
Period size: 52 Copynumber: 2.8 Consensus size: 51
9661052 GTGACTCAAA
* *
9661062 TGTGGTACTACGTGAAGGCCACTTTGAGAAG-AGATAGCTT-GGTCACAAG
1 TGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTGGGTCACAAG
*
9661111 TGTGGTACTATGTGAAGGCCACATTGTGAAGAAAGATAGCTTGGGTCACAAG
1 TGTGGTACTATGTGAAGGCCACTTTGTGAAG-AAGATAGCTTGGGTCACAAG
* *
9661163 TGTGGTACTATGTAAAGGCCACTTTGTGAAGAAGGTAGCTT
1 TGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTT
9661204 TGACTACAAG
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
49 28 0.33
51 18 0.21
52 38 0.45
ACGTcount: A:0.29, C:0.14, G:0.30, T:0.27
Consensus pattern (51 bp):
TGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTGGGTCACAAG
Found at i:9661223 original size:51 final size:51
Alignment explanation
Indices: 9661053--9661234 Score: 192
Period size: 52 Copynumber: 3.6 Consensus size: 51
9661043 ATGTCACTAG
* * *
9661053 TGACT-CAAATGTGGTACTACGTGAAGGCCACTTTGAGAAG-AGATAGCTT
1 TGACTACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTT
* * *
9661102 GGTC-ACAAGTGTGGTACTATGTGAAGGCCACATTGTGAAGAAAGATAGC-T
1 TGACTACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAG-AAGATAGCTT
** * *
9661152 TGGGTCACAAGTGTGGTACTATGTAAAGGCCACTTTGTGAAGAAGGTAGCTT
1 TGACT-ACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTT
* ** *
9661204 TGACTACAAGGGTACTACTATGTGCAGGCCA
1 TGACTACAAGTGTGGTACTATGTGAAGGCCA
9661235 TTGGGTATTC
Statistics
Matches: 108, Mismatches: 19, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
49 33 0.31
50 2 0.02
51 35 0.32
52 38 0.35
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.26
Consensus pattern (51 bp):
TGACTACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTT
Found at i:9669642 original size:25 final size:25
Alignment explanation
Indices: 9669598--9669692 Score: 127
Period size: 25 Copynumber: 3.8 Consensus size: 25
9669588 CTATACATGT
* *
9669598 ATGCTCATAAGAGCTGTGAATCAAA
1 ATGCTCACACGAGCTGTGAATCAAA
* * *
9669623 ATGTTCACGCGAGCTGTGAATCAGA
1 ATGCTCACACGAGCTGTGAATCAAA
*
9669648 ATGCTCACACGAGTTGTGAATCAAA
1 ATGCTCACACGAGCTGTGAATCAAA
*
9669673 ATGCTCACACAAGCTGTGAA
1 ATGCTCACACGAGCTGTGAA
9669693 AATGGTCCTG
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 59 1.00
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (25 bp):
ATGCTCACACGAGCTGTGAATCAAA
Found at i:9672198 original size:21 final size:22
Alignment explanation
Indices: 9672151--9672206 Score: 55
Period size: 21 Copynumber: 2.6 Consensus size: 22
9672141 AGAAGAAAAA
* *
9672151 ATTAAACTAATCACAATAATAAT
1 ATTAAACTAA-CAAAATAATAAC
*
9672174 ATTAAACTAA-AAAATGATAAC
1 ATTAAACTAACAAAATAATAAC
9672195 ATT-AA-TAACAAA
1 ATTAAACTAACAAA
9672207 CTAGCAATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
19 3 0.10
20 5 0.17
21 11 0.38
23 10 0.34
ACGTcount: A:0.61, C:0.11, G:0.02, T:0.27
Consensus pattern (22 bp):
ATTAAACTAACAAAATAATAAC
Found at i:9672361 original size:22 final size:22
Alignment explanation
Indices: 9672328--9672382 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
9672318 ACAAAAACAT
* *
9672328 ATAACTAA-AACAAATAACTATA
1 ATAA-TAATAACAAACAACAATA
*
9672350 ATAATAATAACAAACAAGAATA
1 ATAATAATAACAAACAACAATA
9672372 ATAAATAATAA
1 AT-AATAATAA
9672383 ATATAAAAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 3 0.11
22 17 0.61
23 8 0.29
ACGTcount: A:0.67, C:0.09, G:0.02, T:0.22
Consensus pattern (22 bp):
ATAATAATAACAAACAACAATA
Found at i:9679955 original size:22 final size:24
Alignment explanation
Indices: 9679913--9679968 Score: 73
Period size: 22 Copynumber: 2.4 Consensus size: 24
9679903 TCATTTCCTA
9679913 AGAGCTTACTATTCTCAACTCAT-
1 AGAGCTTACTATTCTCAACTCATC
*
9679936 ATGAGCTTACTA-T-TCAACTCGTC
1 A-GAGCTTACTATTCTCAACTCATC
9679959 AGAGCTTACT
1 AGAGCTTACT
9679969 GTTTTAGCTC
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
22 17 0.57
23 3 0.10
24 10 0.33
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.34
Consensus pattern (24 bp):
AGAGCTTACTATTCTCAACTCATC
Found at i:9680742 original size:19 final size:19
Alignment explanation
Indices: 9680718--9680766 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
9680708 GGGCGCAGGA
** *
9680718 ACACGCCCGTTTGCCCTGG
1 ACACGCCCGTGAGCCCTAG
9680737 ACACGCCCGTGAGCCCTAG
1 ACACGCCCGTGAGCCCTAG
9680756 ACACGCCCGTG
1 ACACGCCCGTG
9680767 TCCTTAGACC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.16, C:0.43, G:0.27, T:0.14
Consensus pattern (19 bp):
ACACGCCCGTGAGCCCTAG
Found at i:9682653 original size:48 final size:48
Alignment explanation
Indices: 9682586--9682705 Score: 143
Period size: 48 Copynumber: 2.5 Consensus size: 48
9682576 CATGTATCGT
* * * ** *
9682586 TGCCATATCCCGGATATGGTCTTATATAAGGTCTCATGTCAGTG-CTGA
1 TGCCATGTCCCAGACATGGTCTTATATAAGCACACATGTCAGTGTC-GA
* *
9682634 TGCCATGTCCCAGACATGGTCTTATATTAGCACACATGTCATTGTCGA
1 TGCCATGTCCCAGACATGGTCTTATATAAGCACACATGTCAGTGTCGA
*
9682682 TGCCATGTCCCAGACATGATCTTA
1 TGCCATGTCCCAGACATGGTCTTA
9682706 AACAGGCACA
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
48 61 0.98
49 1 0.02
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (48 bp):
TGCCATGTCCCAGACATGGTCTTATATAAGCACACATGTCAGTGTCGA
Found at i:9682724 original size:48 final size:48
Alignment explanation
Indices: 9682632--9682724 Score: 118
Period size: 48 Copynumber: 1.9 Consensus size: 48
9682622 TGTCAGTGCT
* ** *
9682632 GATGCCATGTCCCAGACATGGTCTTATATTAGCACACATGTCATTGTC
1 GATGCCATGTCCCAGACATGATCTTATAACAGCACACATATCATTGTC
9682680 GATGCCATGTCCCAGACATGATCTTA-AACAGGCACA-ATTATCATT
1 GATGCCATGTCCCAGACATGATCTTATAACA-GCACACA-TATCATT
9682725 ATTCACAGTG
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
47 3 0.08
48 36 0.92
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGATCTTATAACAGCACACATATCATTGTC
Found at i:9687443 original size:23 final size:22
Alignment explanation
Indices: 9687413--9687456 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
9687403 GAGAATGTGT
9687413 ATTGACTAAAAGCAACTAAATAA
1 ATTGACTAAAAGCAAC-AAATAA
* *
9687436 ATTGACTATAAGGAACAAATA
1 ATTGACTAAAAGCAACAAATA
9687457 CTCTTTACCG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.55, C:0.11, G:0.11, T:0.23
Consensus pattern (22 bp):
ATTGACTAAAAGCAACAAATAA
Found at i:9691540 original size:46 final size:46
Alignment explanation
Indices: 9691473--9691780 Score: 201
Period size: 46 Copynumber: 6.6 Consensus size: 46
9691463 GGTAGTTTGT
9691473 GAGCCAGTGTAAGACATGTCTGGGACAT-GCATCAGCCACATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGGCATCAGCC-CATTATGA
*
9691519 GAGCCAGTGTAAGACATGTCTGGGATAT-GCATCAG--CATTGA-GACAA
1 GAGCCAGTGTAAGACATGTCTGGGACATGGCATCAGCCCATT-ATG---A
* * *
9691565 GAGCTAGTGTAAGACATGTCTGGGACAT-GCATCGGACTCGGGA-TAT-A
1 GAGCCAGTGTAAGACATGTCTGGGACATGGCATCAG-C-C--CATTATGA
* * * *
9691612 CAAGCTAGTGTAAGACCTGTCTGGGACATGGCATCAG--C-TTATTGT
1 -GAGCCAGTGTAAGACATGTCTGGGACATGGCATCAGCCCATTA-TGA
* ** * *
9691657 GTGTTAGTATAAGACATGTCTGGGACATGGCATC-GACACCGATAGATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGGCATCAG-C-CC-AT-TATGA
* *
9691706 GAGCCAGTGTAAGACCTGTCTGGGACATGGCATCA-CCTCGATATATAA
1 GAGCCAGTGTAAGACATGTCTGGGACATGGCATCAGCC-C-AT-TATGA
* * *
9691754 AAGTCAGTGTAAGACCTGTCTGGGACA
1 GAGCCAGTGTAAGACATGTCTGGGACA
9691781 CGGTATCAAC
Statistics
Matches: 211, Mismatches: 26, Indels: 48
0.74 0.09 0.17
Matches are distributed among these distances:
43 8 0.04
44 31 0.15
46 67 0.32
47 3 0.01
48 60 0.28
49 38 0.18
50 2 0.01
51 1 0.00
52 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGGCATCAGCCCATTATGA
Found at i:9691724 original size:93 final size:96
Alignment explanation
Indices: 9691473--9691740 Score: 286
Period size: 92 Copynumber: 2.9 Consensus size: 96
9691463 GGTAGTTTGT
* * * *
9691473 GAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCA-C-AT-TATGAGAGCCAGTGTAAGACA
1 GAGCTAGTATAAGACATGTCTGGGACATGCATCAGACACCGATATATGAGAGCCAGTGTAAGACC
*
9691535 TGTCTGGGATAT-GCATCAGCATTGAGACAA
66 TGTCTGGGACATGGCATCAGCATTGAGACAA
* * * * * *
9691565 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGACTCGGGATATA-CA-AGCTAGTGTAAGAC
1 GAGCTAGTATAAGACATGTCTGGGACATGCATCAGACAC-CGATATATGAGAGCCAGTGTAAGAC
****
9691628 CTGTCTGGGACATGGCATCAGC-TT-A-TTGT
65 CTGTCTGGGACATGGCATCAGCATTGAGACAA
* * *
9691657 GTGTTAGTATAAGACATGTCTGGGACATGGCATC-GACACCGATAGATGAGAGCCAGTGTAAGAC
1 GAGCTAGTATAAGACATGTCTGGGACAT-GCATCAGACACCGATATATGAGAGCCAGTGTAAGAC
9691721 CTGTCTGGGACATGGCATCA
65 CTGTCTGGGACATGGCATCA
9691741 CCTCGATATA
Statistics
Matches: 147, Mismatches: 21, Indels: 15
0.80 0.11 0.08
Matches are distributed among these distances:
91 5 0.03
92 64 0.44
93 39 0.27
94 26 0.18
95 11 0.07
96 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.24
Consensus pattern (96 bp):
GAGCTAGTATAAGACATGTCTGGGACATGCATCAGACACCGATATATGAGAGCCAGTGTAAGACC
TGTCTGGGACATGGCATCAGCATTGAGACAA
Found at i:9691767 original size:48 final size:46
Alignment explanation
Indices: 9691477--9691780 Score: 198
Period size: 48 Copynumber: 6.5 Consensus size: 46
9691467 GTTTGTGAGC
* *
9691477 CAGTGTAAGACATGTCTGGGACATGCATCAGCCAC-AT-TATGAGAG
1 CAGTGTAAGACATGTCTGGGACATGCATCA-CCTCGATATATAAGAG
* * * * *
9691522 CCAGTGTAAGACATGTCTGGGATATGCATCAGCATTG--AGACAAGAG
1 -CAGTGTAAGACATGTCTGGGACATGCATCA-CCTCGATATATAAGAG
**
9691568 CTAGTGTAAGACATGTCTGGGACATGCATCGGA-CTCGGGATATACA-AG
1 C-AGTGTAAGACATGTCTGGGACATGCATC--ACCTCGATATATA-AGAG
* * ** *
9691616 CTAGTGTAAGACCTGTCTGGGACATGGCATCAGCT---TAT-TGTGTG
1 C-AGTGTAAGACATGTCTGGGACAT-GCATCACCTCGATATATAAGAG
* * * *
9691660 TTAGTATAAGACATGTCTGGGACATGGCATCGACAC-CGATAGATGAGAG
1 -CAGTGTAAGACATGTCTGGGACAT-GCATC-AC-CTCGATATATAAGAG
* *
9691709 CCAGTGTAAGACCTGTCTGGGACATGGCATCACCTCGATATATAAAAG
1 -CAGTGTAAGACATGTCTGGGACAT-GCATCACCTCGATATATAAGAG
*
9691757 TCAGTGTAAGACCTGTCTGGGACA
1 -CAGTGTAAGACATGTCTGGGACA
9691781 CGGTATCAAC
Statistics
Matches: 207, Mismatches: 32, Indels: 36
0.75 0.12 0.13
Matches are distributed among these distances:
44 29 0.14
45 4 0.02
46 66 0.32
47 2 0.01
48 69 0.33
49 37 0.18
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (46 bp):
CAGTGTAAGACATGTCTGGGACATGCATCACCTCGATATATAAGAG
Found at i:9693099 original size:20 final size:21
Alignment explanation
Indices: 9693060--9693099 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
9693050 GTCAACAGGG
9693060 CCACACGGGCGTGTTGCCCTT
1 CCACACGGGCGTGTTGCCCTT
*
9693081 CCACATGGGCGTG-TGCCCT
1 CCACACGGGCGTGTTGCCCT
9693100 GTTTCAAGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.10, C:0.38, G:0.30, T:0.23
Consensus pattern (21 bp):
CCACACGGGCGTGTTGCCCTT
Found at i:9703486 original size:6 final size:6
Alignment explanation
Indices: 9703468--9703576 Score: 84
Period size: 6 Copynumber: 17.8 Consensus size: 6
9703458 AAGAAACATT
* *
9703468 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAGA ATTAGT ATCAGGTA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A
*
9703518 A-CAGA ATCA-A TATCAGA ATCA-A TATCAGGTA A-CAGA ATCAAA ATCAGA
1 ATCAGA ATCAGA -ATCAGA ATCAGA -ATCA-G-A ATCAGA ATCAGA ATCAGA
*
9703566 ATCAGT ATCAG
1 ATCAGA ATCAG
9703577 GTAACATAAT
Statistics
Matches: 84, Mismatches: 7, Indels: 24
0.73 0.06 0.21
Matches are distributed among these distances:
5 7 0.08
6 67 0.80
7 7 0.08
8 2 0.02
9 1 0.01
ACGTcount: A:0.48, C:0.16, G:0.16, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:9703526 original size:31 final size:31
Alignment explanation
Indices: 9703488--9703599 Score: 170
Period size: 31 Copynumber: 3.6 Consensus size: 31
9703478 GAATCAGAAT
* *
9703488 CAGAATCAGAATCAGAATTAGTATCAGGTAA
1 CAGAATCAAAATCAGAATCAGTATCAGGTAA
* *
9703519 CAGAATCAATATCAGAATCAATATCAGGTAA
1 CAGAATCAAAATCAGAATCAGTATCAGGTAA
9703550 CAGAATCAAAATCAGAATCAGTATCAGGTAA
1 CAGAATCAAAATCAGAATCAGTATCAGGTAA
*
9703581 CATAATCAAAAATCAGAAT
1 CAGAATC-AAAATCAGAAT
9703600 GTGAATGCAA
Statistics
Matches: 73, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
31 62 0.85
32 11 0.15
ACGTcount: A:0.49, C:0.15, G:0.14, T:0.21
Consensus pattern (31 bp):
CAGAATCAAAATCAGAATCAGTATCAGGTAA
Found at i:9707458 original size:27 final size:27
Alignment explanation
Indices: 9707428--9708352 Score: 442
Period size: 27 Copynumber: 34.3 Consensus size: 27
9707418 NNGTATTTCA
*
9707428 GTAATTTCACAAATCAGGGGTATTTTG
1 GTAATTTTACAAATCAGGGGTATTTTG
*
9707455 GTAATTTTATAAA-CTAGGGGTATTTTG
1 GTAATTTTACAAATC-AGGGGTATTTTG
* *
9707482 ATAATTTTACAAACCAGGGGTATTTTG
1 GTAATTTTACAAATCAGGGGTATTTTG
* *
9707509 GTAATTTTACAAACCAGAGGTATTTTG
1 GTAATTTTACAAATCAGGGGTATTTTG
***
9707536 GTAATTTTATTGATC-GAGGGTATTTTG
1 GTAATTTTACAAATCAG-GGGTATTTTG
** * * **
9707563 GTAATTTTGTAAACCAAGGGTATTTCA
1 GTAATTTTACAAATCAGGGGTATTTTG
** * ***
9707590 GTAATTTTGTAAATC-GATGGTAAAATG
1 GTAATTTTACAAATCAG-GGGTATTTTG
* ***
9707617 GTAATTTTATAAATC-GAGGGTAAAATG
1 GTAATTTTACAAATCAG-GGGTATTTTG
* ** * * **
9707644 GTAATTCTATCTTA-CATGAGTATTTCA
1 GTAATTTTA-CAAATCAGGGGTATTTTG
* *
9707671 GTAATTTTGCAAA-CTGAGGGTATTTTG
1 GTAATTTTACAAATCAG-GGGTATTTTG
* * *
9707698 ATAATTTTACAAATC-GAGGATATTTAG
1 GTAATTTTACAAATCAG-GGGTATTTTG
* *
9707725 GTAATTTTATAAATC-GAGGGTACTTTG
1 GTAATTTTACAAATCAG-GGGTATTTTG
* **
9707752 GTAATTTTACAAGTC-GAGGGTATTTCA
1 GTAATTTTACAAATCAG-GGGTATTTTG
* ** **
9707779 ATAATTTTACAGGTC-GAGGGTATTTCA
1 GTAATTTTACAAATCAG-GGGTATTTTG
*
9707806 GTAATTTCACAAATCAGGGGTATTTTG
1 GTAATTTTACAAATCAGGGGTATTTTG
*
9707833 GTAATTTTATAAA-CTAGGGGTATTTTG
1 GTAATTTTACAAATC-AGGGGTATTTTG
* *
9707860 ATAATTTTACAAACCAGGGGTATTTTG
1 GTAATTTTACAAATCAGGGGTATTTTG
* *
9707887 GTAATTTTACAAACCAGAGGTATTTTG
1 GTAATTTTACAAATCAGGGGTATTTTG
***
9707914 GTAATTTTATTGATC-GAGGGTATTTTG
1 GTAATTTTACAAATCAG-GGGTATTTTG
** * * **
9707941 GTAATTTTGTAAACCAAGGGTATTTCA
1 GTAATTTTACAAATCAGGGGTATTTTG
** * ***
9707968 GTAATTTTGTAAATC-GATGGTAAAATG
1 GTAATTTTACAAATCAG-GGGTATTTTG
* ***
9707995 GTAATTTTATAAATC-GAGGGTAAAATG
1 GTAATTTTACAAATCAG-GGGTATTTTG
* ** * * **
9708022 GTAATTCTATCTTA-CATGAGTATTTCA
1 GTAATTTTA-CAAATCAGGGGTATTTTG
* *
9708049 GTAATTTTGCAAA-CTGAGGGTATTTTG
1 GTAATTTTACAAATCAG-GGGTATTTTG
* * *
9708076 ATAATTTTACAAATC-GAGGATATTTAG
1 GTAATTTTACAAATCAG-GGGTATTTTG
* ***
9708103 GTAATTTTATAAATC-GAGGGTAAAATG
1 GTAATTTTACAAATCAG-GGGTATTTTG
* ** * * **
9708130 GTAATTCTATCTTA-CATGAGTATTTCA
1 GTAATTTTA-CAAATCAGGGGTATTTTG
* *
9708157 GTAATTTTGCAAA-CTGAGGGTATTTTG
1 GTAATTTTACAAATCAG-GGGTATTTTG
* * *
9708184 ATAATTTTACAAATC-GAGGATATTTAG
1 GTAATTTTACAAATCAG-GGGTATTTTG
* *
9708211 GTAATTTTATAAATC-GAGGGTACTTTG
1 GTAATTTTACAAATCAG-GGGTATTTTG
* **
9708238 GTAATTTTACAAGTC-GAGGGTATTTCA
1 GTAATTTTACAAATCAG-GGGTATTTTG
* ** **
9708265 ATAATTTTACAGGTCGAGGGG-ATTTCA
1 GTAATTTTACAAATC-AGGGGTATTTTG
*
9708292 GTAATTTCACAAATCAGGGGTATTTTG
1 GTAATTTTACAAATCAGGGGTATTTTG
*
9708319 GTAATTTTACAAA-CTAGAGGTATTTTG
1 GTAATTTTACAAATC-AGGGGTATTTTG
9708346 GTAATTT
1 GTAATTT
9708353 GGTAAACTAA
Statistics
Matches: 698, Mismatches: 173, Indels: 54
0.75 0.19 0.06
Matches are distributed among these distances:
26 19 0.03
27 666 0.95
28 12 0.02
29 1 0.00
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.39
Consensus pattern (27 bp):
GTAATTTTACAAATCAGGGGTATTTTG
Found at i:9707557 original size:81 final size:81
Alignment explanation
Indices: 9707428--9708352 Score: 597
Period size: 81 Copynumber: 11.4 Consensus size: 81
9707418 NNGTATTTCA
* * *
9707428 GTAATTTCACAAATC-AGGGGTATTTTGGTAATTTTATAAA-CTAGGGGTATTTTGATAATTTTA
1 GTAATTTTACAAATCGA-GGGTATTTTGGTAATTTTATAAATCGA-GGGTATTTTGGTAATTTTA
*
9707491 CAAACCAGGGGTATTTTG
64 CAAATCAGGGGTATTTTG
* ** **
9707509 GTAATTTTACAAA-CCAGAGGTATTTTGGTAATTTTATTGATCGAGGGTATTTTGGTAATTTTGT
1 GTAATTTTACAAATCGAG-GGTATTTTGGTAATTTTATAAATCGAGGGTATTTTGGTAATTTTAC
* * **
9707573 AAACCAAGGGTATTTCA
65 AAATCAGGGGTATTTTG
** * *** *** *
9707590 GTAATTTTGTAAATCGATGGTAAAATGGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTATC
1 GTAATTTTACAAATCGAGGGTATTTTGGTAATTTTATAAATCGAGGGTATTTTGGTAATTTTA-C
** * * **
9707655 TTA-CATGAGTATTTCA
65 AAATCAGGGGTATTTTG
* * * * * *
9707671 GTAATTTTGCAAA-CTGAGGGTATTTTGATAATTTTACAAATCGAGGATATTTAGGTAATTTTAT
1 GTAATTTTACAAATC-GAGGGTATTTTGGTAATTTTATAAATCGAGGGTATTTTGGTAATTTTAC
*
9707735 AAATC-GAGGGTACTTTG
65 AAATCAG-GGGTATTTTG
* *** * ** ** *
9707752 GTAATTTTACAAGTCGAGGGTATTTCAATAATTTTACAGGTCGAGGGTATTTCAGTAATTTCACA
1 GTAATTTTACAAATCGAGGGTATTTTGGTAATTTTATAAATCGAGGGTATTTTGGTAATTTTACA
9707817 AATCAGGGGTATTTTG
66 AATCAGGGGTATTTTG
* * * * *
9707833 GTAATTTTATAAA-CTAGGGGTATTTTGATAATTTTACAAA-CCAGGGGTATTTTGGTAATTTTA
1 GTAATTTTACAAATCGA-GGGTATTTTGGTAATTTTATAAATCGA-GGGTATTTTGGTAATTTTA
* *
9707896 CAAACCAGAGGTATTTTG
64 CAAATCAGGGGTATTTTG
*** * * * ** **
9707914 GTAATTTTATTGATCGAGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTCAGTAATTTTGTA
1 GTAATTTTACAAATCGAGGGTATTTTGGTAATTTTATAAATCGAGGGTATTTTGGTAATTTTACA
* ***
9707979 AATC-GATGGTAAAATG
66 AATCAG-GGGTATTTTG
* *** * * **
9707995 GTAATTTTATAAATCGAGGGTAAAATGGTAATTCTATCTTACAT-GA--GTATTTCAGTAATTTT
1 GTAATTTTACAAATCGAGGGTATTTTGGTAATT-T-T-ATAAATCGAGGGTATTTTGGTAATTTT
* *
9708057 GCAAA-CTGAGGGTATTTTG
63 ACAAATCAG-GGGTATTTTG
* * * *** *
9708076 ATAATTTTACAAATCGAGGATATTTAGGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTATC
1 GTAATTTTACAAATCGAGGGTATTTTGGTAATTTTATAAATCGAGGGTATTTTGGTAATTTTA-C
** * * **
9708141 TTA-CATGAGTATTTCA
65 AAATCAGGGGTATTTTG
* * * * * *
9708157 GTAATTTTGCAAA-CTGAGGGTATTTTGATAATTTTACAAATCGAGGATATTTAGGTAATTTTAT
1 GTAATTTTACAAATC-GAGGGTATTTTGGTAATTTTATAAATCGAGGGTATTTTGGTAATTTTAC
*
9708221 AAATC-GAGGGTACTTTG
65 AAATCAG-GGGTATTTTG
* *** * ** * ** *
9708238 GTAATTTTACAAGTCGAGGGTATTTCAATAATTTTACAGGTCGAGGGGATTTCAGTAATTTCACA
1 GTAATTTTACAAATCGAGGGTATTTTGGTAATTTTATAAATCGAGGGTATTTTGGTAATTTTACA
9708303 AATCAGGGGTATTTTG
66 AATCAGGGGTATTTTG
*
9708319 GTAATTTTACAAA-CTAGAGGTATTTTGGTAATTT
1 GTAATTTTACAAATCGAG-GGTATTTTGGTAATTT
9708353 GGTAAACTAA
Statistics
Matches: 649, Mismatches: 166, Indels: 58
0.74 0.19 0.07
Matches are distributed among these distances:
78 4 0.01
79 3 0.00
80 16 0.02
81 604 0.93
82 17 0.03
83 2 0.00
84 3 0.00
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.39
Consensus pattern (81 bp):
GTAATTTTACAAATCGAGGGTATTTTGGTAATTTTATAAATCGAGGGTATTTTGGTAATTTTACA
AATCAGGGGTATTTTG
Found at i:9719485 original size:21 final size:20
Alignment explanation
Indices: 9719460--9719498 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
9719450 TACGAAATTT
9719460 ATTTTAAAATATATAAAAATC
1 ATTTTAAAATAT-TAAAAATC
9719481 ATTTTAAAATATTAAAAA
1 ATTTTAAAATATTAAAAA
9719499 GTTGTAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (20 bp):
ATTTTAAAATATTAAAAATC
Found at i:9719518 original size:11 final size:11
Alignment explanation
Indices: 9719504--9719528 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
9719494 AAAAAGTTGT
9719504 AAAAATTATTA
1 AAAAATTATTA
9719515 AAAAATTATTA
1 AAAAATTATTA
9719526 AAA
1 AAA
9719529 TTTAAAAATT
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
AAAAATTATTA
Found at i:9719528 original size:20 final size:18
Alignment explanation
Indices: 9719460--9719536 Score: 75
Period size: 20 Copynumber: 4.0 Consensus size: 18
9719450 TACGAAATTT
9719460 ATTTTAAAATATATAAAAA
1 ATTTTAAAATAT-TAAAAA
9719479 TCATTTTAAAATATTAAAAA
1 --ATTTTAAAATATTAAAAA
* *
9719499 GTTGTAAAAATTATTAAAAA
1 ATT-TTAAAA-TATTAAAAA
9719519 ATTATTAAAAT-TTAAAAA
1 ATT-TTAAAATATTAAAAA
9719537 TTATAATTTT
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
18 9 0.18
19 6 0.12
20 22 0.45
21 12 0.24
ACGTcount: A:0.58, C:0.01, G:0.03, T:0.38
Consensus pattern (18 bp):
ATTTTAAAATATTAAAAA
Found at i:9719944 original size:20 final size:22
Alignment explanation
Indices: 9719921--9719965 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
9719911 TTTACATTTT
*
9719921 AAAAAT-TTACAATTTT-TATA
1 AAAAATATTAAAATTTTATATA
9719941 AAAAATATTAAAATTTTATATA
1 AAAAATATTAAAATTTTATATA
9719963 AAA
1 AAA
9719966 TGTAAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 6 0.27
21 9 0.41
22 7 0.32
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (22 bp):
AAAAATATTAAAATTTTATATA
Found at i:9719973 original size:20 final size:20
Alignment explanation
Indices: 9719934--9719973 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
9719924 AATTTACAAT
*
9719934 TTTTATAAAAAATATTAAAA
1 TTTTATAAAAAATATAAAAA
* *
9719954 TTTTATATAAAATGTAAAAA
1 TTTTATAAAAAATATAAAAA
9719974 AAATTGAAAA
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:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (20 bp):
TTTTATAAAAAATATAAAAA
Found at i:9725156 original size:40 final size:40
Alignment explanation
Indices: 9725050--9725157 Score: 146
Period size: 40 Copynumber: 2.7 Consensus size: 40
9725040 CGTTTGTACA
* * *
9725050 AAAAACGCCGCTATAGATCGACCACTAGCGGCGTTTTTAG
1 AAAAACGCCGCTATAGATCGAACATTAGCGACGTTTTTAG
** *
9725090 AAATGCGCCGCTATAGATCGAGCATTAGCGACGCTTTTT-G
1 AAAAACGCCGCTATAGATCGAACATTAGCGACG-TTTTTAG
9725130 AAAAACGCCGCTATAGATCGAACATTAG
1 AAAAACGCCGCTATAGATCGAACATTAG
9725158 AAAACACCGC
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
40 54 0.92
41 5 0.08
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.23
Consensus pattern (40 bp):
AAAAACGCCGCTATAGATCGAACATTAGCGACGTTTTTAG
Found at i:9725329 original size:98 final size:100
Alignment explanation
Indices: 9725111--9725358 Score: 293
Period size: 98 Copynumber: 2.5 Consensus size: 100
9725101 TATAGATCGA
* *
9725111 GCATTAGCGACGCTTTTTGAAAAACGCCGCTATAGATCGAACATTAGAAAACACCGCAAAATAAT
1 GCATTAGCGACGCTTTTTGAAAAACGCCGCTATAGATCGAGCATTAG-CAACACCGCAAAATAAT
9725176 TCATCAACACGCCGTCGTTTTTTGTTGAGCCTTAGTG
65 TCATCAACACGCCGTCG-TTTTTGTTGAGCCTTAGTG
* * * * ** *** * * *
9725213 TCATCAGTGGCGCTTTTTGAAAAACGCCGCTATAGAT-GAGCATTAGCGGCGTTGTAAATTATTT
1 GCATTAGCGACGCTTTTTGAAAAACGCCGCTATAGATCGAGCATTAGCAACACCGCAAAATAATT
*
9725277 CATCAACACGTCGTC-TTTTTGTTGAGCCTTAGTG
66 CATCAACACGCCGTCGTTTTTGTTGAGCCTTAGTG
* * * *
9725311 GCATTAGCAATGCTTTTTGGAAAACGCCGCTATAGATCGAGCTTTAGC
1 GCATTAGCGACGCTTTTTGAAAAACGCCGCTATAGATCGAGCATTAGC
9725359 TGTGCTTTTT
Statistics
Matches: 122, Mismatches: 23, Indels: 5
0.81 0.15 0.03
Matches are distributed among these distances:
98 49 0.40
99 9 0.07
100 23 0.19
101 8 0.07
102 33 0.27
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (100 bp):
GCATTAGCGACGCTTTTTGAAAAACGCCGCTATAGATCGAGCATTAGCAACACCGCAAAATAATT
CATCAACACGCCGTCGTTTTTGTTGAGCCTTAGTG
Found at i:9725408 original size:40 final size:40
Alignment explanation
Indices: 9725311--9725396 Score: 118
Period size: 40 Copynumber: 2.1 Consensus size: 40
9725301 AGCCTTAGTG
** * *
9725311 GCATTAGCAATGCTTTTTGGAAAACGCCGCTATAGATCGA
1 GCATTAGCTGTGCTTTTTGAAAAACACCGCTATAGATCGA
* *
9725351 GCTTTAGCTGTGCTTTTTGAAAAACACTGCTATAGATCGA
1 GCATTAGCTGTGCTTTTTGAAAAACACCGCTATAGATCGA
9725391 GCATTA
1 GCATTA
9725397 TCGGCATTTT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (40 bp):
GCATTAGCTGTGCTTTTTGAAAAACACCGCTATAGATCGA
Found at i:9725563 original size:114 final size:111
Alignment explanation
Indices: 9725354--9725648 Score: 344
Period size: 114 Copynumber: 2.6 Consensus size: 111
9725344 AGATCGAGCT
* * * * *
9725354 TTAGCTGTGCTTTTTGAAAAACACTGCTATAGATCGAGCATTATC-GGCATTTTTTAAAAACGCC
1 TTAGCGGTGCTTTTTGAAAAACGCTGCTATAGATCGAGCTTTAGCAGGC-TTTTTAAAAAACGCC
* ** *
9725418 TCAAATTAATTCATCAACACGCGGTCATTTTTTGTTGAGCTTTAGTGGCA
65 GCAAATTAATTCATCAACACGCCATCA-TTTTT-TT-AGCCTTAGTGGCA
*
9725468 TTAGCGGTGCTTTTTCG-AAAACGCCGCTATAGATCGAGCTTTAGCAGTGC-TTTTAAAAAACGC
1 TTAGCGGTGCTTTTT-GAAAAACGCTGCTATAGATCGAGCTTTAGCAG-GCTTTTTAAAAAACGC
* *
9725531 CGCAAATTAATTCATCAACACGCCATCGTTTTTTTAGCCTTAGTGGTA
64 CGCAAATTAATTCATCAACACGCCATCATTTTTTTAGCCTTAGTGGCA
* * * * * *
9725579 TTAGCGGCGCTTTTTGAAAAAAGCTGCTATAGATCTAGCTATAGTAGCGCTTTTTCAAAAACGCC
1 TTAGCGGTGCTTTTTGAAAAACGCTGCTATAGATCGAGCTTTAGCAG-GCTTTTTAAAAAACGCC
9725644 GCAAA
65 GCAAA
9725649 AAATATTTTA
Statistics
Matches: 156, Mismatches: 20, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
110 1 0.01
111 52 0.33
112 20 0.13
113 5 0.03
114 74 0.47
115 2 0.01
116 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (111 bp):
TTAGCGGTGCTTTTTGAAAAACGCTGCTATAGATCGAGCTTTAGCAGGCTTTTTAAAAAACGCCG
CAAATTAATTCATCAACACGCCATCATTTTTTTAGCCTTAGTGGCA
Found at i:9725850 original size:79 final size:79
Alignment explanation
Indices: 9725759--9725919 Score: 322
Period size: 79 Copynumber: 2.0 Consensus size: 79
9725749 TGACACATAG
9725759 AAAAAATTTGAAAATAAAAACATATAAAAATATATGTTAAAAATGAAAAAATTAAAATACTATTA
1 AAAAAATTTGAAAATAAAAACATATAAAAATATATGTTAAAAATGAAAAAATTAAAATACTATTA
9725824 TTTAAAATAATTTT
66 TTTAAAATAATTTT
9725838 AAAAAATTTGAAAATAAAAACATATAAAAATATATGTTAAAAATGAAAAAATTAAAATACTATTA
1 AAAAAATTTGAAAATAAAAACATATAAAAATATATGTTAAAAATGAAAAAATTAAAATACTATTA
9725903 TTTAAAATAATTTT
66 TTTAAAATAATTTT
9725917 AAA
1 AAA
9725920 GCTTTTTGGG
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 82 1.00
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.32
Consensus pattern (79 bp):
AAAAAATTTGAAAATAAAAACATATAAAAATATATGTTAAAAATGAAAAAATTAAAATACTATTA
TTTAAAATAATTTT
Found at i:9726049 original size:7 final size:7
Alignment explanation
Indices: 9726037--9726229 Score: 107
Period size: 7 Copynumber: 26.9 Consensus size: 7
9726027 TATAGTCTAA
9726037 GGTTTAT
1 GGTTTAT
*
9726044 GGTTTAG
1 GGTTTAT
*
9726051 GGTATAT
1 GGTTTAT
*
9726058 GGTTTAA
1 GGTTTAT
*
9726065 GGGTTAT
1 GGTTTAT
9726072 GGTTTAT
1 GGTTTAT
*
9726079 GAGTTAAT
1 G-GTTTAT
** *
9726087 ATTTTAG
1 GGTTTAT
9726094 GGTTTAT
1 GGTTTAT
*
9726101 GGATTAT
1 GGTTTAT
*
9726108 GAGTTTAG
1 G-GTTTAT
*
9726116 GGATTAT
1 GGTTTAT
* **
9726123 GGGTTGG
1 GGTTTAT
*
9726130 GGTTTAA
1 GGTTTAT
* *
9726137 GATTTAG
1 GGTTTAT
9726144 GGATTTAT
1 GG-TTTAT
9726152 GGTTTAT
1 GGTTTAT
*
9726159 GAGTTAAT
1 G-GTTTAT
** *
9726167 ATTTTAA
1 GGTTTAT
9726174 GGTTTAT
1 GGTTTAT
*
9726181 GGATTAT
1 GGTTTAT
*
9726188 GGATTAT
1 GGTTTAT
* *
9726195 GGATTGT
1 GGTTTAT
9726202 GGGTTTAT
1 -GGTTTAT
*
9726210 GGATTAT
1 GGTTTAT
9726217 GGTTTAT
1 GGTTTAT
9726224 GGTTTA
1 GGTTTA
9726230 AGGGTTGGGT
Statistics
Matches: 136, Mismatches: 45, Indels: 10
0.71 0.24 0.05
Matches are distributed among these distances:
7 110 0.81
8 26 0.19
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.47
Consensus pattern (7 bp):
GGTTTAT
Found at i:9726119 original size:15 final size:14
Alignment explanation
Indices: 9726094--9726157 Score: 56
Period size: 15 Copynumber: 4.4 Consensus size: 14
9726084 AATATTTTAG
*
9726094 GGTTTATGGATTAT
1 GGTTTAGGGATTAT
9726108 GAGTTTAGGGATTAT
1 G-GTTTAGGGATTAT
* * * *
9726123 GGGTTGGGGTTTAA
1 GGTTTAGGGATTAT
*
9726137 GATTTAGGGATTTAT
1 GGTTTAGGGA-TTAT
9726152 GGTTTA
1 GGTTTA
9726158 TGAGTTAATA
Statistics
Matches: 37, Mismatches: 11, Indels: 3
0.73 0.22 0.06
Matches are distributed among these distances:
14 16 0.43
15 21 0.57
ACGTcount: A:0.22, C:0.00, G:0.34, T:0.44
Consensus pattern (14 bp):
GGTTTAGGGATTAT
Found at i:9726123 original size:51 final size:51
Alignment explanation
Indices: 9726055--9726163 Score: 118
Period size: 51 Copynumber: 2.2 Consensus size: 51
9726045 GTTTAGGGTA
* * *
9726055 TATG-GTTTAAGGGTTATGGTTTATGAG-TTAATATTTTAGGG-TTTATGGAT
1 TATGAGTTTAAGGGTTATGGGTT-GGAGTTTAAGA-TTTAGGGATTTATGGAT
* *
9726105 TATGAGTTT-AGGGATTATGGGTTGGGGTTTAAGATTTAGGGATTTATGGTT
1 TATGAGTTTAAGGG-TTATGGGTTGGAGTTTAAGATTTAGGGATTTATGGAT
9726156 TATGAGTT
1 TATGAGTT
9726164 AATATTTTAA
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
50 17 0.34
51 33 0.66
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.46
Consensus pattern (51 bp):
TATGAGTTTAAGGGTTATGGGTTGGAGTTTAAGATTTAGGGATTTATGGAT
Found at i:9726234 original size:29 final size:29
Alignment explanation
Indices: 9726041--9726235 Score: 97
Period size: 29 Copynumber: 7.0 Consensus size: 29
9726031 GTCTAAGGTT
* * *
9726041 TATGGTTTAGGGTATATGGTTTAAGGG-T
1 TATGGATTATGGTTTATGGTTTAAGGGTT
* * * *
9726069 TATGGTTTATGAGTTAAT-ATTTTAGGGTT
1 TATGGATTATG-GTTTATGGTTTAAGGGTT
*
9726098 TATGGATTAT-G---A--GTTT-AGGGAT
1 TATGGATTATGGTTTATGGTTTAAGGGTT
* ** * *
9726120 TATGGGTTGGGGTTTAAGATTT-AGGGATT
1 TATGGATTATGGTTTATGGTTTAAGGG-TT
* * **
9726149 TATGGTTTATGAGTTAATATTTTAA-GGTT
1 TATGGATTATG-GTTTATGGTTTAAGGGTT
* * **
9726178 TATGGATTATGGATTATGGATTGTGGGTT
1 TATGGATTATGGTTTATGGTTTAAGGGTT
9726207 TATGGATTATGGTTTATGGTTTAAGGGTT
1 TATGGATTATGGTTTATGGTTTAAGGGTT
9726236 GGGTTTAGGA
Statistics
Matches: 123, Mismatches: 32, Indels: 23
0.69 0.18 0.13
Matches are distributed among these distances:
22 12 0.10
23 4 0.03
24 1 0.01
26 1 0.01
27 1 0.01
28 30 0.24
29 64 0.52
30 9 0.07
31 1 0.01
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.46
Consensus pattern (29 bp):
TATGGATTATGGTTTATGGTTTAAGGGTT
Found at i:9726258 original size:7 final size:7
Alignment explanation
Indices: 9726202--9726283 Score: 51
Period size: 7 Copynumber: 11.6 Consensus size: 7
9726192 TATGGATTGT
9726202 GGGTTTA
1 GGGTTTA
* *
9726209 TGGATTA
1 GGGTTTA
*
9726216 TGGTTTA
1 GGGTTTA
*
9726223 TGGTTTAA
1 GGGTTT-A
9726231 GGG-TT-
1 GGGTTTA
9726236 GGGTTTA
1 GGGTTTA
9726243 GGAGTTTA
1 GG-GTTTA
*
9726251 GTGTTTA
1 GGGTTTA
9726258 GGGTTTA
1 GGGTTTA
* *
9726265 AGATTTAA
1 GGGTTT-A
*
9726273 GGGTTAA
1 GGGTTTA
9726280 GGGT
1 GGGT
9726284 GGGTTAAGTG
Statistics
Matches: 59, Mismatches: 11, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
5 3 0.05
6 2 0.03
7 41 0.69
8 13 0.22
ACGTcount: A:0.21, C:0.00, G:0.37, T:0.43
Consensus pattern (7 bp):
GGGTTTA
Found at i:9726337 original size:37 final size:37
Alignment explanation
Indices: 9726287--9726397 Score: 100
Period size: 37 Copynumber: 3.0 Consensus size: 37
9726277 TAAGGGTGGG
* *
9726287 TTAAGTGGACATGGTTTTA-GGGTTAGGGGTTTAAGGA
1 TTAAGAGGACATGG-GTTAGGGGTTAGGGGTTTAAGGA
* * *
9726324 TTAAGAGGGCATGGGTTAGGGGTTAGGGGTTTAGGGG
1 TTAAGAGGACATGGGTTAGGGGTTAGGGGTTTAAGGA
* * * *
9726361 TTAAG-GCATTAAGGGGATAGGGGTTAGGGGTTTAAGG
1 TTAAGAGGA--CATGGGTTAGGGGTTAGGGGTTTAAGG
9726398 TAATTAGTGT
Statistics
Matches: 60, Mismatches: 11, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
36 4 0.07
37 33 0.55
38 23 0.38
ACGTcount: A:0.23, C:0.03, G:0.44, T:0.30
Consensus pattern (37 bp):
TTAAGAGGACATGGGTTAGGGGTTAGGGGTTTAAGGA
Found at i:9726346 original size:7 final size:7
Alignment explanation
Indices: 9726336--9726392 Score: 60
Period size: 7 Copynumber: 7.7 Consensus size: 7
9726326 AAGAGGGCAT
9726336 GGGTTAG
1 GGGTTAG
9726343 GGGTTAG
1 GGGTTAG
9726350 GGGTTTAG
1 GGG-TTAG
9726358 GGGTTAAG
1 GGGTT-AG
**
9726366 GCATTAAG
1 GGGTT-AG
*
9726374 GGGATAG
1 GGGTTAG
9726381 GGGTTAG
1 GGGTTAG
9726388 GGGTT
1 GGGTT
9726393 TAAGGTAATT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
7 25 0.60
8 17 0.40
ACGTcount: A:0.19, C:0.02, G:0.51, T:0.28
Consensus pattern (7 bp):
GGGTTAG
Found at i:9726359 original size:15 final size:15
Alignment explanation
Indices: 9726339--9726392 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
9726329 AGGGCATGGG
9726339 TTAGGGGTTAGGGGT
1 TTAGGGGTTAGGGGT
**
9726354 TTAGGGGTTAAGGCAT
1 TTAGGGGTT-AGGGGT
* *
9726370 TAAGGGGATAGGGG-
1 TTAGGGGTTAGGGGT
9726384 TTAGGGGTT
1 TTAGGGGTT
9726393 TAAGGTAATT
Statistics
Matches: 30, Mismatches: 8, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
14 7 0.23
15 12 0.40
16 11 0.37
ACGTcount: A:0.20, C:0.02, G:0.48, T:0.30
Consensus pattern (15 bp):
TTAGGGGTTAGGGGT
Found at i:9726559 original size:16 final size:16
Alignment explanation
Indices: 9726506--9726559 Score: 57
Period size: 16 Copynumber: 3.8 Consensus size: 16
9726496 ATATTAAATA
*
9726506 ATTTCAAATTTTAAAG
1 ATTTCAAATTTTCAAG
9726522 ATTTCAAATTTTC-A-
1 ATTTCAAATTTTCAAG
9726536 A--T--AATTTTCAAG
1 ATTTCAAATTTTCAAG
9726548 ATTTCAAATTTT
1 ATTTCAAATTTT
9726560 ATCTAATTCT
Statistics
Matches: 31, Mismatches: 1, Indels: 12
0.70 0.02 0.27
Matches are distributed among these distances:
10 7 0.23
11 1 0.03
12 2 0.06
14 2 0.06
15 1 0.03
16 18 0.58
ACGTcount: A:0.39, C:0.09, G:0.04, T:0.48
Consensus pattern (16 bp):
ATTTCAAATTTTCAAG
Found at i:9727368 original size:32 final size:32
Alignment explanation
Indices: 9727330--9727395 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
9727320 TACTTGAATG
9727330 ATGAATAATCTTGGTGATTATGTTATTATGCC
1 ATGAATAATCTTGGTGATTATGTTATTATGCC
9727362 ATGAATAATCTTGGTGATTATGTTATTATGCC
1 ATGAATAATCTTGGTGATTATGTTATTATGCC
9727394 AT
1 AT
9727396 CATATGATAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.29, C:0.09, G:0.18, T:0.44
Consensus pattern (32 bp):
ATGAATAATCTTGGTGATTATGTTATTATGCC
Found at i:9729102 original size:43 final size:44
Alignment explanation
Indices: 9729054--9729151 Score: 128
Period size: 45 Copynumber: 2.2 Consensus size: 44
9729044 ATTTCACCTG
* * *
9729054 CTAGGCTCAAGGATCG-ATA-TCATGTCACCGGCATTATAGCCTA
1 CTAGGCTCAAGGACCGAATAGT-ATCTCACCGGCATAATAGCCTA
*
9729097 CTAGGCTCAAAGGCCCGAATAGTATCTCACCGGCATAATAGCCTA
1 CTAGGCTC-AAGGACCGAATAGTATCTCACCGGCATAATAGCCTA
9729142 CTAGGCTCAA
1 CTAGGCTCAA
9729152 AGGCCTGAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
43 8 0.17
44 8 0.17
45 31 0.65
46 1 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (44 bp):
CTAGGCTCAAGGACCGAATAGTATCTCACCGGCATAATAGCCTA
Found at i:9729220 original size:38 final size:38
Alignment explanation
Indices: 9729160--9729262 Score: 170
Period size: 38 Copynumber: 2.7 Consensus size: 38
9729150 AAAGGCCTGA
* * *
9729160 ATATAATACCAGTACTAGGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
9729198 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
*
9729236 ATATATTACCAGCACGAAGCCTGCGGG
1 ATATAATACCAGCACGAAGCCTGCGGG
9729263 TCTTTAAGCC
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 61 1.00
ACGTcount: A:0.30, C:0.25, G:0.24, T:0.20
Consensus pattern (38 bp):
ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
Found at i:9734243 original size:45 final size:45
Alignment explanation
Indices: 9734143--9734274 Score: 157
Period size: 45 Copynumber: 3.0 Consensus size: 45
9734133 AGACTTTTAT
* *
9734143 TCAT-TCACCGGCATT-TCGCCTGCTAGGCTC-AAGGCTCG-ATA
1 TCATCTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
* * *
9734184 TCATGTCACCGGCATTATAGGCTACTAGGCTCAAAGGCCCGAATA
1 TCATCTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
* *
9734229 GT-ATCTCACCGGCATAATAGCCTGCTAGGCTCAAAGGCCTGAATA
1 -TCATCTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
9734274 T
1 T
9734275 AATACCAGTA
Statistics
Matches: 77, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
41 4 0.05
42 11 0.14
43 12 0.16
44 8 0.10
45 41 0.53
46 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (45 bp):
TCATCTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
Found at i:9734314 original size:38 final size:38
Alignment explanation
Indices: 9734271--9734542 Score: 366
Period size: 38 Copynumber: 7.1 Consensus size: 38
9734261 AAAGGCCTGA
* * * * *
9734271 ATATAATACCAGTACTAGGCCTGCGGGATTCAACCTGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
9734309 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
* * *
9734347 ATATATTACCAGCATGAAGCCTACGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
*
9734385 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
*
9734423 ATATAATACCAGCACGAAGCCTGCGGGTCTTTAAGCCC-G
1 ATATAATACCAGCACGAAGCCTGCGGG-ATTTAA-CCCGG
*
9734462 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
* * * *
9734500 ATATATTACTAGCACGAAGCCCGCGGGTCTTTAAGCCCGG
1 ATATAATACCAGCACGAAGCCTGCGGG-ATTTAA-CCCGG
9734540 ATA
1 ATA
9734543 CACATCAAAT
Statistics
Matches: 212, Mismatches: 17, Indels: 8
0.89 0.07 0.03
Matches are distributed among these distances:
37 3 0.01
38 161 0.76
39 37 0.17
40 11 0.05
ACGTcount: A:0.29, C:0.26, G:0.23, T:0.22
Consensus pattern (38 bp):
ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
Found at i:9734502 original size:77 final size:77
Alignment explanation
Indices: 9734308--9734538 Score: 376
Period size: 77 Copynumber: 3.0 Consensus size: 77
9734298 ATTCAACCTG
* * *
9734308 GATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATTACCAGCATGAAGCCTACGG
1 GATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATTACCAGCACGAAGCCTGCGG
*
9734373 G-ATTTAA-CCC
66 GTCTTTAAGCCC
*
9734383 GGATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACCAGCACGAAGCCTGCG
1 -GATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATTACCAGCACGAAGCCTGCG
9734448 GGTCTTTAAGCCC
65 GGTCTTTAAGCCC
* *
9734461 GATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATTACTAGCACGAAGCCCGCGG
1 GATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATTACCAGCACGAAGCCTGCGG
9734526 GTCTTTAAGCCC
66 GTCTTTAAGCCC
9734538 G
1 G
9734539 GATACACATC
Statistics
Matches: 145, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
76 62 0.43
77 80 0.55
78 3 0.02
ACGTcount: A:0.29, C:0.26, G:0.23, T:0.21
Consensus pattern (77 bp):
GATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATTACCAGCACGAAGCCTGCGG
GTCTTTAAGCCC
Found at i:9743107 original size:79 final size:82
Alignment explanation
Indices: 9742996--9743180 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
9742986 GCTACTCGTT
* *
9742996 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
9743059 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
9743076 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
9743139 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
9743156 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
9743181 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:9743180 original size:40 final size:40
Alignment explanation
Indices: 9742977--9743180 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
9742967 CGGAATTTAA
** *
9742977 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
9743017 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
9743057 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
9743096 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
9743136 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
9743176 CCGGA
1 CCGGA
9743181 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:9751079 original size:39 final size:40
Alignment explanation
Indices: 9750962--9751142 Score: 192
Period size: 40 Copynumber: 4.5 Consensus size: 40
9750952 GCTACTCGTT
*
9750962 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* * *
9751002 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
9751042 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
9751081 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
9751122 CAAA-GCCTTAC-GGACTTAGCC
1 CAAATGCCTT-CGGGACTTAGCC
9751143 TGGACATCAT
Statistics
Matches: 119, Mismatches: 17, Indels: 10
0.82 0.12 0.07
Matches are distributed among these distances:
38 2 0.02
39 32 0.27
40 71 0.60
41 14 0.12
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:9751130 original size:79 final size:79
Alignment explanation
Indices: 9750962--9751142 Score: 188
Period size: 79 Copynumber: 2.3 Consensus size: 79
9750952 GCTACTCGTT
* * *
9750962 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* * *
9751027 ATTTAGTAACTCGCG
65 ATATAGTAACTAGCA
* **
9751042 CAAATGCCTTCGGGCTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCG
1 CAAATGCCTTCGGGCTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
* *
9751105 GATATGGTCACTTAGCA
64 GATATAGTAAC-TAGCA
*
9751122 CAAA-GCCTTACGGACTTAGCC
1 CAAATGCCTT-CGGGCTTAGCC
9751143 TGGACATCAT
Statistics
Matches: 85, Mismatches: 12, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
78 4 0.05
79 50 0.59
80 31 0.36
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGCTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
TATAGTAACTAGCA
Found at i:9758204 original size:52 final size:51
Alignment explanation
Indices: 9758139--9758247 Score: 146
Period size: 51 Copynumber: 2.1 Consensus size: 51
9758129 ATAGAAATGG
* * * *
9758139 TGAAAATGAAGAAATGAGAAATATATGGAAATGATTATGGTTTTCTCCAAAA
1 TGAAAACGAAGAAATGA-AAACATATAGAAATGAATATGGTTTTCTCCAAAA
* * *
9758191 TGAAAACGGAGAAATGAAACCATTTAGAAATGAATATGGTTTTCTCCAAAA
1 TGAAAACGAAGAAATGAAAACATATAGAAATGAATATGGTTTTCTCCAAAA
9758242 TGAAAA
1 TGAAAA
9758248 TGAAAATGAC
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
51 35 0.70
52 15 0.30
ACGTcount: A:0.47, C:0.08, G:0.18, T:0.27
Consensus pattern (51 bp):
TGAAAACGAAGAAATGAAAACATATAGAAATGAATATGGTTTTCTCCAAAA
Found at i:9759735 original size:13 final size:13
Alignment explanation
Indices: 9759717--9759742 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9759707 AATAAGATGT
9759717 CAAATATAAGAAA
1 CAAATATAAGAAA
9759730 CAAATATAAGAAA
1 CAAATATAAGAAA
9759743 AATGTGAACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.08, G:0.08, T:0.15
Consensus pattern (13 bp):
CAAATATAAGAAA
Found at i:9764577 original size:24 final size:24
Alignment explanation
Indices: 9764545--9764599 Score: 92
Period size: 24 Copynumber: 2.3 Consensus size: 24
9764535 CCTTTTAATT
*
9764545 TTTGTATTTGCCATTAGTGAGTCC
1 TTTGTATTTGCCACTAGTGAGTCC
*
9764569 TTTGTATTTGCCACTATTGAGTCC
1 TTTGTATTTGCCACTAGTGAGTCC
9764593 TTTGTAT
1 TTTGTAT
9764600 AAATGCACCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.16, C:0.16, G:0.18, T:0.49
Consensus pattern (24 bp):
TTTGTATTTGCCACTAGTGAGTCC
Found at i:9765674 original size:21 final size:20
Alignment explanation
Indices: 9765645--9765699 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
9765635 TGGCTCCACC
9765645 AAAAAGACATTGGCAATAAA
1 AAAAAGACATTGGCAATAAA
*
9765665 AAAAAGGACATTGAC-ATAAA
1 AAAAA-GACATTGGCAATAAA
*
9765685 AAAAAGACGTTGGCA
1 AAAAAGACATTGGCA
9765700 TTGGAAACTG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 7 0.23
20 15 0.50
21 8 0.27
ACGTcount: A:0.56, C:0.11, G:0.18, T:0.15
Consensus pattern (20 bp):
AAAAAGACATTGGCAATAAA
Found at i:9767815 original size:20 final size:21
Alignment explanation
Indices: 9767787--9767837 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
9767777 GATCAATGGA
*
9767787 ATATGGAAAAGAAAAAAT-AG
1 ATATTGAAAAGAAAAAATAAG
* *
9767807 ATATTGAAAATAAAAACTAAG
1 ATATTGAAAAGAAAAAATAAG
*
9767828 ACATTGAAAA
1 ATATTGAAAA
9767838 ATATACCAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 15 0.58
21 11 0.42
ACGTcount: A:0.63, C:0.04, G:0.14, T:0.20
Consensus pattern (21 bp):
ATATTGAAAAGAAAAAATAAG
Found at i:9771423 original size:6 final size:6
Alignment explanation
Indices: 9771412--9771457 Score: 85
Period size: 6 Copynumber: 7.8 Consensus size: 6
9771402 TAAGTTTTCA
9771412 AAAATG AAAATG AAAATG AAAATG -AAATG AAAATG AAAATG AAAAT
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAAAT
9771458 TTGCAATCCT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
5 5 0.13
6 34 0.87
ACGTcount: A:0.67, C:0.00, G:0.15, T:0.17
Consensus pattern (6 bp):
AAAATG
Found at i:9771441 original size:17 final size:17
Alignment explanation
Indices: 9771412--9771455 Score: 79
Period size: 17 Copynumber: 2.5 Consensus size: 17
9771402 TAAGTTTTCA
9771412 AAAATGAAAATGAAAATG
1 AAAATG-AAATGAAAATG
9771430 AAAATGAAATGAAAATG
1 AAAATGAAATGAAAATG
9771447 AAAATGAAA
1 AAAATGAAA
9771456 ATTTGCAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 20 0.77
18 6 0.23
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (17 bp):
AAAATGAAATGAAAATG
Found at i:9771442 original size:23 final size:23
Alignment explanation
Indices: 9771413--9771457 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
9771403 AAGTTTTCAA
9771413 AAATGAAAATGAAAATGAAAATG
1 AAATGAAAATGAAAATGAAAATG
9771436 AAATGAAAATGAAAATGAAAAT
1 AAATGAAAATGAAAATGAAAAT
9771458 TTGCAATCCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.67, C:0.00, G:0.16, T:0.18
Consensus pattern (23 bp):
AAATGAAAATGAAAATGAAAATG
Found at i:9777773 original size:21 final size:21
Alignment explanation
Indices: 9777744--9777792 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
9777734 TTTTATCTTT
* * * *
9777744 TATTTTTACTTTAATTTATTA
1 TATTATTACATTAACTTAATA
9777765 TATTATTACATTAACTTAATA
1 TATTATTACATTAACTTAATA
9777786 -ATTATTA
1 TATTATTA
9777793 TTATTTCTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 7 0.29
21 17 0.71
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (21 bp):
TATTATTACATTAACTTAATA
Found at i:9778102 original size:33 final size:32
Alignment explanation
Indices: 9778054--9778127 Score: 100
Period size: 33 Copynumber: 2.3 Consensus size: 32
9778044 TATTTATCAT
9778054 ATAA-AAAA-ATCTTTTACTAATTA-ATAATAA
1 ATAATAAAATATCTTTTACTAATTATAT-ATAA
9778084 ATAATAAAATATCTTTTTACTAATTATATATAA
1 ATAATAAAATATC-TTTTACTAATTATATATAA
9778117 ATAATACAAAT
1 ATAATA-AAAT
9778128 TTACTCATTT
Statistics
Matches: 39, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
30 4 0.10
31 4 0.10
32 3 0.08
33 22 0.56
34 6 0.15
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (32 bp):
ATAATAAAATATCTTTTACTAATTATATATAA
Found at i:9784461 original size:29 final size:29
Alignment explanation
Indices: 9784428--9784484 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
9784418 GTCTTTTCTT
*
9784428 AATTT-ATTTCATAATATAATAATATAATC
1 AATTTAATTT-ATAATATAATAAAATAATC
9784457 AATTTAATTTATAATATAATAAAATAAT
1 AATTTAATTTATAATATAATAAAATAAT
9784485 AACAATAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 22 0.85
30 4 0.15
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.44
Consensus pattern (29 bp):
AATTTAATTTATAATATAATAAAATAATC
Found at i:9784515 original size:37 final size:37
Alignment explanation
Indices: 9784438--9784508 Score: 90
Period size: 37 Copynumber: 1.9 Consensus size: 37
9784428 AATTTATTTC
* * *
9784438 ATAATATAATAATATAATCAATTTAATTTATAATATA
1 ATAAAATAATAAAATAATCAATATAATTTATAATATA
*
9784475 ATAAAATAATAACAATAAT-AATATATTTTATAAT
1 ATAAAATAATAA-AATAATCAATATAATTTATAAT
9784509 TAAATAATCA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
37 24 0.83
38 5 0.17
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (37 bp):
ATAAAATAATAAAATAATCAATATAATTTATAATATA
Found at i:9787382 original size:28 final size:29
Alignment explanation
Indices: 9787310--9787410 Score: 91
Period size: 29 Copynumber: 3.6 Consensus size: 29
9787300 AAAATGATTG
* * *
9787310 AAATTATATTTATATTAAATAATATCTTAT
1 AAATTATATTTATATTAAA-AAAATATTAA
**
9787340 AAATTA-AAATA-ATTAAAAAAATATT-A
1 AAATTATATTTATATTAAAAAAATATTAA
* * * *
9787366 AAATTGTATTTATATTAAGAAATTGTTAA
1 AAATTATATTTATATTAAAAAAATATTAA
9787395 AAATTATATTTATATT
1 AAATTATATTTATATT
9787411 GATTAATAAA
Statistics
Matches: 56, Mismatches: 12, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
26 5 0.09
27 9 0.16
28 17 0.30
29 19 0.34
30 6 0.11
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (29 bp):
AAATTATATTTATATTAAAAAAATATTAA
Found at i:9799109 original size:55 final size:56
Alignment explanation
Indices: 9799048--9799155 Score: 173
Period size: 55 Copynumber: 1.9 Consensus size: 56
9799038 GGAGATAGAT
* *
9799048 AAATATTCTATAAGAATATAATAAAATATTAAAAA-ATGTATATGACAATTTTGAC
1 AAATATTCTATAAAAATATAATAAAATATTAAAAATATATATATGACAATTTTGAC
* *
9799103 AAATATTTTATAAAAATATAATAAAATATTAAAAATATATATATGATAATTTT
1 AAATATTCTATAAAAATATAATAAAATATTAAAAATATATATATGACAATTTT
9799156 TTAAAACATC
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
55 33 0.69
56 15 0.31
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.38
Consensus pattern (56 bp):
AAATATTCTATAAAAATATAATAAAATATTAAAAATATATATATGACAATTTTGAC
Found at i:9799175 original size:55 final size:55
Alignment explanation
Indices: 9799056--9799173 Score: 148
Period size: 55 Copynumber: 2.1 Consensus size: 55
9799046 ATAAATATTC
* * * *
9799056 TATAAGAATATAATAAAATATTAAAAAATGTATATGACAATTTTGACAAATATTT
1 TATAAAAATATAATAAAATATTAAAAAATATATATGACAATTTTGACAAACATCT
* *
9799111 TATAAAAATATAATAAAATATTAAAAATATATATATGATAATTTTTTA-AAACATCT
1 TATAAAAATATAATAAAATATTAAAAA-ATATATATGACAA-TTTTGACAAACATCT
*
9799167 TGTAAAA
1 TATAAAA
9799174 TAAAAAAAAA
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
55 26 0.48
56 23 0.43
57 5 0.09
ACGTcount: A:0.54, C:0.03, G:0.05, T:0.37
Consensus pattern (55 bp):
TATAAAAATATAATAAAATATTAAAAAATATATATGACAATTTTGACAAACATCT
Found at i:9799221 original size:2 final size:2
Alignment explanation
Indices: 9799214--9799242 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
9799204 CTAATTCATA
9799214 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9799243 CTCTCAATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9802115 original size:20 final size:19
Alignment explanation
Indices: 9802080--9802121 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
9802070 GCCTTTGTCC
9802080 CCCCTATTGCCATTTTTCT
1 CCCCTATTGCCATTTTTCT
9802099 CCCCTATTGCCATTTTTCT
1 CCCCTATTGCCATTTTTCT
9802118 CCCC
1 CCCC
9802122 CTTACCATAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.10, C:0.43, G:0.05, T:0.43
Consensus pattern (19 bp):
CCCCTATTGCCATTTTTCT
Found at i:9803566 original size:24 final size:24
Alignment explanation
Indices: 9803455--9803568 Score: 74
Period size: 24 Copynumber: 4.8 Consensus size: 24
9803445 TTACTGCAAA
* * *
9803455 AATGAGTTGCTTGTCCACAACAAT
1 AATGAGTGGCTTGACCACAACGAT
* *
9803479 -ATGAGTAGG-TTGTCCACAAAGCA-
1 AATGAGT-GGCTTGACCACAACG-AT
* *
9803502 AACGAGTGACTTGACCACAACGAT
1 AATGAGTGGCTTGACCACAACGAT
* *
9803526 ATTGAGTGGCTTAACCACAACG-T
1 AATGAGTGGCTTGACCACAACGAT
* *
9803549 AAATGATTGGTTTGACCACA
1 -AATGAGTGGCTTGACCACA
9803569 CCGTGCAGTC
Statistics
Matches: 69, Mismatches: 15, Indels: 12
0.72 0.16 0.12
Matches are distributed among these distances:
23 19 0.28
24 50 0.72
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.25
Consensus pattern (24 bp):
AATGAGTGGCTTGACCACAACGAT
Found at i:9810567 original size:20 final size:21
Alignment explanation
Indices: 9810518--9810567 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
9810508 GTGTAACCCC
9810518 TGTTTCCAAAATTTTCAAGTTT
1 TGTTT-CAAAATTTTCAAGTTT
* *
9810540 T-TTCCAAAATTTT-ATGTTT
1 TGTTTCAAAATTTTCAAGTTT
9810559 TGTTTCAAA
1 TGTTTCAAA
9810568 TTGATCCTAG
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 6 0.25
20 15 0.62
21 2 0.08
22 1 0.04
ACGTcount: A:0.28, C:0.12, G:0.08, T:0.52
Consensus pattern (21 bp):
TGTTTCAAAATTTTCAAGTTT
Found at i:9811200 original size:661 final size:660
Alignment explanation
Indices: 9809939--9811242 Score: 2297
Period size: 661 Copynumber: 2.0 Consensus size: 660
9809929 TATTAGGTAA
9809939 GTCATGGTTGAATGGTATGCCTTTGAAAAGGTGGTTGGTATGTTTGATCTAAGTTTATTGAATGA
1 GTCATGGTTGAATGGTATGCCTTTGAAAAGGTGGTTGGTATGTTTGATCTAAGTTTATTGAATGA
*
9810004 ACTTATAATGTTGAATGAGATTATGTTTGGTTTGTGATTTTGGTACCTTTTTCTGGTACATTGGT
66 ACTTATAATGTTGAATGAGATTATGTTTGGTTTGTGATTTTGGTACCTTTTGCTGGTACATTGGT
*
9810069 TAGTCTTATAGGTTGATGGAATTAGTATGTTTTAAGTATGTTTAAAATGTGTTTTGGTCATATGA
131 TAGTCTTATAGGTTGATGGAATTAGTATGTTTTAAGTATGTTTAAAATGTGTTTTGATCATATGA
* * *
9810134 ATGTTTGTAAAAATGGTGTGTCTTGGTGTGCAAGAATTGGGTTTGAAATGGCTTTTTTGGGGGAC
196 ATGTTTATAAAAATGGTGTGTCTTGGTGTGCAAGAATTGGGTTTGAAATGACTTTTTTAGGGGAC
* ** * *
9810199 AATTTATGAAGCACACTGCTTGTGACACGGGATATCAGACAGTCGTGTGCCACACACAGCCACTC
261 AATATAAAAAGCACACGGCTTGGGACACGGGATATCAGACAGTCGTGTGCCACACACAGCCACTC
* *
9810264 TATACAGTCGTGTGTCATTATTATTGTAGGTGCAGGTTTCACACGGTCTGAGACACAGCCTGCGA
326 TATACAGTCGTGTGTCACTATTATTGTAGGTGCAGGTTTCACACAGTCTGAGACACAGCCTGCGA
*
9810329 CACTGTCATGTGTCTCAAGTCAGTATGTAACACGGTCTAGCACACAACCTACGACACTACCACCT
391 CACGGTCATGTGTCTCAAGTCAGTATGTAACACGGTCTAGCACACAACCTACGACACTACCACCT
9810394 GGCCTTATTTCAAATACCCACACGGGTGAACACACGAGCTTGGACAAGGCCGTGTGTCCGTACTT
456 GGCCTTATTTCAAATACCCACACGGGTGAACACACGAGCTTGGACAAGGCCGTGTGTCCGTACTT
*
9810459 CAAATGTCCACACGGTTTGGGCTATGCTACACGCCTTGGCCACGCGGTTGTGTAACCCCTGTTTC
521 CAAATGACCACACGGTTTGGGCTATGCTACACGCCTTGGCCACGCGGTTGTGTAACCCCTGTTTC
*
9810524 CAAAATTTTCAAGTTTTTTCCAAAATTTTATGTTTTGTTTCAAATTGATCCTAGAATGTTTCAAA
586 CAAAATTTCCAAG-TTTTTCCAAAATTTTATGTTTTGTTTCAAATTGATCCTAGAATGTTTCAAA
9810589 TTTTATGTTTT
650 TTTTATGTTTT
* *
9810600 GTCATGGTTGAATGGTATGCTTTTGAAAAGGTTGTTGGTATGTTTGATCTAAGTTTATTGAATGA
1 GTCATGGTTGAATGGTATGCCTTTGAAAAGGTGGTTGGTATGTTTGATCTAAGTTTATTGAATGA
*
9810665 ACTTGTAATGTTGAATGAGATTATGTTTGGTTTGTGATTTTGGTACCTTTTGCTGGTACATTGGT
66 ACTTATAATGTTGAATGAGATTATGTTTGGTTTGTGATTTTGGTACCTTTTGCTGGTACATTGGT
9810730 TAGTCTTATAGGTTGATGGAATTAGTATGTTTTAAGTATGTTTAAAATGTGTTTTGATCATATGA
131 TAGTCTTATAGGTTGATGGAATTAGTATGTTTTAAGTATGTTTAAAATGTGTTTTGATCATATGA
9810795 ATGTTTATAAAAATGGTGTGTCTTGGTGTGCAAGAATTGGGTTTGAAATGACTTGTTTTAGGGG-
196 ATGTTTATAAAAATGGTGTGTCTTGGTGTGCAAGAATTGGGTTTGAAATGACTT-TTTTAGGGGA
* *
9810859 CAATATAAAAAGCACACGGCTTGGGACACGGGCTATCAGACAGTCGTGTGCCACACATAGCCACT
260 CAATATAAAAAGCACACGGCTTGGGACACGGGATATCAGACAGTCGTGTGCCACACACAGCCACT
* * *
9810924 CTATACAGTTGTGTGTCACTATTATTTTAGGTGCAGGTTTCACACAGTCTGAGACACGGCCTGCG
325 CTATACAGTCGTGTGTCACTATTATTGTAGGTGCAGGTTTCACACAGTCTGAGACACAGCCTGCG
* * *
9810989 ATACGG-CTGTGTGTCTCAAGTCAGTATGTAACACGGTCTAGCACACAACCTACGACACTACCGC
390 ACACGGTC-ATGTGTCTCAAGTCAGTATGTAACACGGTCTAGCACACAACCTACGACACTACCAC
* * *
9811053 TTGGCCTTATTTCAAATACCCACACGGGTGAACACATGGGCTTGGACAAGGCCGTGTGTCCGTAC
454 CTGGCCTTATTTCAAATACCCACACGGGTGAACACACGAGCTTGGACAAGGCCGTGTGTCCGTAC
*
9811118 TTCAAATGACCACACGGTTTGGGCTATGTTACACGCCTTGGCCACGCGGTTGTGTAACCCCTGTT
519 TTCAAATGACCACACGGTTTGGGCTATGCTACACGCCTTGGCCACGCGGTTGTGTAACCCCTGTT
9811183 TCCAAAATTTCCAAGTTTTTCCAAAATTTTATGTTTTGTTTCAAATTGATCCTAGAATGT
584 TCCAAAATTTCCAAGTTTTTCCAAAATTTTATGTTTTGTTTCAAATTGATCCTAGAATGT
9811243 CCCCAAACTA
Statistics
Matches: 611, Mismatches: 30, Indels: 5
0.95 0.05 0.01
Matches are distributed among these distances:
660 46 0.08
661 557 0.91
662 8 0.01
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.35
Consensus pattern (660 bp):
GTCATGGTTGAATGGTATGCCTTTGAAAAGGTGGTTGGTATGTTTGATCTAAGTTTATTGAATGA
ACTTATAATGTTGAATGAGATTATGTTTGGTTTGTGATTTTGGTACCTTTTGCTGGTACATTGGT
TAGTCTTATAGGTTGATGGAATTAGTATGTTTTAAGTATGTTTAAAATGTGTTTTGATCATATGA
ATGTTTATAAAAATGGTGTGTCTTGGTGTGCAAGAATTGGGTTTGAAATGACTTTTTTAGGGGAC
AATATAAAAAGCACACGGCTTGGGACACGGGATATCAGACAGTCGTGTGCCACACACAGCCACTC
TATACAGTCGTGTGTCACTATTATTGTAGGTGCAGGTTTCACACAGTCTGAGACACAGCCTGCGA
CACGGTCATGTGTCTCAAGTCAGTATGTAACACGGTCTAGCACACAACCTACGACACTACCACCT
GGCCTTATTTCAAATACCCACACGGGTGAACACACGAGCTTGGACAAGGCCGTGTGTCCGTACTT
CAAATGACCACACGGTTTGGGCTATGCTACACGCCTTGGCCACGCGGTTGTGTAACCCCTGTTTC
CAAAATTTCCAAGTTTTTCCAAAATTTTATGTTTTGTTTCAAATTGATCCTAGAATGTTTCAAAT
TTTATGTTTT
Found at i:9825446 original size:67 final size:67
Alignment explanation
Indices: 9825337--9825469 Score: 194
Period size: 67 Copynumber: 2.0 Consensus size: 67
9825327 GCCTAGACTA
* * * *
9825337 GTAATCCCGCCATAAGATTTGAGGTTCGCGGGAGTGCGTACTTGAGATGATCGCTTTTATAACTT
1 GTAATCCCGCCATAAGATGTGAGGTTCGCGAGAGTGCATACTTGAGATGATCGCTCTTATAACTT
9825402 GG
66 GG
* * * *
9825404 GTAATCCTGCCGTAAGATGTGAGGTTTGCGAGAGTGCATACTTGAGATGATCGCTCTTATGACTT
1 GTAATCCCGCCATAAGATGTGAGGTTCGCGAGAGTGCATACTTGAGATGATCGCTCTTATAACTT
9825469 G
66 G
9825470 ATGGTAAATG
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
67 58 1.00
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.32
Consensus pattern (67 bp):
GTAATCCCGCCATAAGATGTGAGGTTCGCGAGAGTGCATACTTGAGATGATCGCTCTTATAACTT
GG
Found at i:9829189 original size:35 final size:35
Alignment explanation
Indices: 9829139--9829209 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
9829129 TTACAACACC
9829139 ACCAAAGCATAATCATAAACTTGGAGAGGCTATTG
1 ACCAAAGCATAATCATAAACTTGGAGAGGCTATTG
*
9829174 ACCAAAGCATCATCATAAACTTGGAGAGGCTATTG
1 ACCAAAGCATAATCATAAACTTGGAGAGGCTATTG
9829209 A
1 A
9829210 AGACCAAGCT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.23
Consensus pattern (35 bp):
ACCAAAGCATAATCATAAACTTGGAGAGGCTATTG
Found at i:9830079 original size:16 final size:16
Alignment explanation
Indices: 9830055--9830116 Score: 61
Period size: 16 Copynumber: 3.8 Consensus size: 16
9830045 AAATAAAAGG
* *
9830055 GAAAGAAAGAAAGGGA
1 GAAAAAAAGAAAGAGA
*
9830071 GAAAAAAAGAAAGAAAA
1 GAAAAAAAGAAAG-AGA
* *
9830088 GGAAAAAAGAAAAAGA
1 GAAAAAAAGAAAGAGA
*
9830104 GAGAAAAAGAAAG
1 GAAAAAAAGAAAG
9830117 GAAAATCTCT
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
16 24 0.67
17 12 0.33
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (16 bp):
GAAAAAAAGAAAGAGA
Found at i:9830081 original size:20 final size:19
Alignment explanation
Indices: 9830056--9830095 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
9830046 AATAAAAGGG
*
9830056 AAAGAAAGAAAGGGAGAAAA
1 AAAGAAAGAAAAGGA-AAAA
9830076 AAAGAAAGAAAAGGAAAAA
1 AAAGAAAGAAAAGGAAAAA
9830095 A
1 A
9830096 GAAAAAGAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (19 bp):
AAAGAAAGAAAAGGAAAAA
Found at i:9830111 original size:33 final size:36
Alignment explanation
Indices: 9830049--9830121 Score: 98
Period size: 33 Copynumber: 2.1 Consensus size: 36
9830039 TAGCAAAAAT
**
9830049 AAAAGGGAAAGAAAGAAAGGGAGAAAAAAAGAAA-G
1 AAAAGGGAAAGAAAGAAAAAGAGAAAAAAAGAAAGG
*
9830084 AAAA-GGAAA-AAAGAAAAAGAGAGAAAAAGAAAGG
1 AAAAGGGAAAGAAAGAAAAAGAGAAAAAAAGAAAGG
9830118 AAAA
1 AAAA
9830122 TCTCTAATGC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
33 20 0.59
34 10 0.29
35 4 0.12
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (36 bp):
AAAAGGGAAAGAAAGAAAAAGAGAAAAAAAGAAAGG
Found at i:9830405 original size:58 final size:58
Alignment explanation
Indices: 9830306--9830421 Score: 205
Period size: 58 Copynumber: 2.0 Consensus size: 58
9830296 AAGGGAAAAG
* *
9830306 AAAGGTTTGAATTGAAAAGAGAAAGATTAAGTTTAAGTGAAGAGAATAGGTAAGTACT
1 AAAGCTTTAAATTGAAAAGAGAAAGATTAAGTTTAAGTGAAGAGAATAGGTAAGTACT
*
9830364 AAAGCTTTAAATTGAAAAGAGAAAGGTTAAGTTTAAGTGAAGAGAATAGGTAAGTACT
1 AAAGCTTTAAATTGAAAAGAGAAAGATTAAGTTTAAGTGAAGAGAATAGGTAAGTACT
9830422 TAATTGAATT
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 55 1.00
ACGTcount: A:0.47, C:0.03, G:0.25, T:0.26
Consensus pattern (58 bp):
AAAGCTTTAAATTGAAAAGAGAAAGATTAAGTTTAAGTGAAGAGAATAGGTAAGTACT
Found at i:9833800 original size:11 final size:11
Alignment explanation
Indices: 9833775--9833806 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
9833765 GATCACGCAA
9833775 ATATATTTCAC
1 ATATATTTCAC
9833786 --ATATTTCAC
1 ATATATTTCAC
9833795 ATATATTTCAC
1 ATATATTTCAC
9833806 A
1 A
9833807 CATCATACAC
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
9 9 0.47
11 10 0.53
ACGTcount: A:0.38, C:0.19, G:0.00, T:0.44
Consensus pattern (11 bp):
ATATATTTCAC
Found at i:9835918 original size:27 final size:27
Alignment explanation
Indices: 9835866--9835919 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
9835856 TTCAATTATA
*
9835866 ATCATCATTTTACAATTTAGTCCAATT
1 ATCATCATTTTACAATTTAGCCCAATT
9835893 ATCA-CATTTTACTAATTTA-CCACAATT
1 ATCATCATTTTAC-AATTTAGCC-CAATT
9835920 CAATCCATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.35, C:0.20, G:0.02, T:0.43
Consensus pattern (27 bp):
ATCATCATTTTACAATTTAGCCCAATT
Found at i:9850835 original size:47 final size:47
Alignment explanation
Indices: 9850766--9850863 Score: 169
Period size: 47 Copynumber: 2.1 Consensus size: 47
9850756 ACCTAGGGCT
*
9850766 CTGATACCACCAAATGTAACACACTATACCCAGCCAAGTCGCTAAAC
1 CTGATACCACCAAATGTAACACACTATACCCAGCCAAGTCGCCAAAC
* *
9850813 CTGATACCACCAAATGTAACACACTATACCCAGCTAGGTCGCCAAAC
1 CTGATACCACCAAATGTAACACACTATACCCAGCCAAGTCGCCAAAC
9850860 CTGA
1 CTGA
9850864 ATATCAAGAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.37, C:0.34, G:0.12, T:0.17
Consensus pattern (47 bp):
CTGATACCACCAAATGTAACACACTATACCCAGCCAAGTCGCCAAAC
Found at i:9850842 original size:22 final size:22
Alignment explanation
Indices: 9850769--9850842 Score: 80
Period size: 22 Copynumber: 3.2 Consensus size: 22
9850759 TAGGGCTCTG
9850769 ATACCACCAAATGTAACACACT
1 ATACCACCAAATGTAACACACT
*
9850791 ATACCCAGCCAAGTCGCTAA-AC-CT
1 ATA-CCA-CCAAAT-G-TAACACACT
9850815 GATACCACCAAATGTAACACACT
1 -ATACCACCAAATGTAACACACT
9850838 ATACC
1 ATACC
9850843 CAGCTAGGTC
Statistics
Matches: 43, Mismatches: 2, Indels: 14
0.73 0.03 0.24
Matches are distributed among these distances:
21 3 0.07
22 11 0.26
23 10 0.23
24 10 0.23
25 6 0.14
26 3 0.07
ACGTcount: A:0.41, C:0.34, G:0.08, T:0.18
Consensus pattern (22 bp):
ATACCACCAAATGTAACACACT
Found at i:9851936 original size:39 final size:39
Alignment explanation
Indices: 9851893--9852064 Score: 200
Period size: 39 Copynumber: 4.4 Consensus size: 39
9851883 TTCACTTTTG
** * *
9851893 AGCATATATCACCTTACACATATAATCACATAACATTTA
1 AGCATATATCACAATACTCATATAATCACATAACATTCA
* * * **
9851932 AGCATATATCACAATACCCATATAGTTACATAATGTTCA
1 AGCATATATCACAATACTCATATAATCACATAACATTCA
* ** *
9851971 AGCACATGCCACAATACTCATATGATCACATAACATTCA
1 AGCATATATCACAATACTCATATAATCACATAACATTCA
* *
9852010 AGCATATATCGCAATACTCATATAAACACATAACATTCA
1 AGCATATATCACAATACTCATATAATCACATAACATTCA
*
9852049 AGCATATGTCACAATA
1 AGCATATATCACAATA
9852065 TTTAAAAACA
Statistics
Matches: 108, Mismatches: 25, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
39 108 1.00
ACGTcount: A:0.43, C:0.23, G:0.06, T:0.27
Consensus pattern (39 bp):
AGCATATATCACAATACTCATATAATCACATAACATTCA
Found at i:9855764 original size:13 final size:13
Alignment explanation
Indices: 9855746--9855770 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9855736 AGATTTTTGG
9855746 ACTTTTTACAAGA
1 ACTTTTTACAAGA
9855759 ACTTTTTACAAG
1 ACTTTTTACAAG
9855771 CTTTTATTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.08, T:0.40
Consensus pattern (13 bp):
ACTTTTTACAAGA
Found at i:9855800 original size:22 final size:20
Alignment explanation
Indices: 9855775--9855820 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
9855765 TACAAGCTTT
*
9855775 TATTTTTTGGATGTTTATACTC
1 TATTTTTT--ATGTTGATACTC
*
9855797 TATTTTTTCTGTTGATACTC
1 TATTTTTTATGTTGATACTC
9855817 TATT
1 TATT
9855821 ACCTACTACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 14 0.64
22 8 0.36
ACGTcount: A:0.17, C:0.11, G:0.11, T:0.61
Consensus pattern (20 bp):
TATTTTTTATGTTGATACTC
Found at i:9864945 original size:39 final size:38
Alignment explanation
Indices: 9864902--9865004 Score: 127
Period size: 39 Copynumber: 2.7 Consensus size: 38
9864892 GAATCATAAT
* * *
9864902 AATTATAATTACCATAATTATAATAATGTTTGACCGGA-A
1 AATTATAATTACAATAATTATAATAATATTGGACC--ATA
* *
9864941 AATTACAATTACAATAATTATAATAATATTGGATCATA
1 AATTATAATTACAATAATTATAATAATATTGGACCATA
*
9864979 AATTATGATTACAATAATTATAATAA
1 AATTATAATTACAATAATTATAATAA
9865005 GGATTTTGGT
Statistics
Matches: 56, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
37 1 0.02
38 25 0.45
39 30 0.54
ACGTcount: A:0.49, C:0.08, G:0.07, T:0.37
Consensus pattern (38 bp):
AATTATAATTACAATAATTATAATAATATTGGACCATA
Found at i:9874108 original size:31 final size:31
Alignment explanation
Indices: 9874073--9874132 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
9874063 CACAACACCA
9874073 CAACATGTCTTCTAAAATTTAAATCACTCCG
1 CAACATGTCTTCTAAAATTTAAATCACTCCG
*
9874104 CAACATGTCTTCTAAAATTTGAATCACTC
1 CAACATGTCTTCTAAAATTTAAATCACTC
9874133 TTTTCGACTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.35, C:0.25, G:0.07, T:0.33
Consensus pattern (31 bp):
CAACATGTCTTCTAAAATTTAAATCACTCCG
Found at i:9880734 original size:44 final size:44
Alignment explanation
Indices: 9880649--9880738 Score: 139
Period size: 44 Copynumber: 2.0 Consensus size: 44
9880639 TACACAAGTT
*
9880649 CTAACATATCTGTGCCGATGCCATGTCCCAAACATGGTCTTACA
1 CTAACACATCTGTGCCGATGCCATGTCCCAAACATGGTCTTACA
9880693 CTAACACATCTCGTAGCCGATG-CATGTCCCAAACAT-GTCTTACA
1 CTAACACATCT-GT-GCCGATGCCATGTCCCAAACATGGTCTTACA
9880737 CT
1 CT
9880739 GGTTTACGTA
Statistics
Matches: 43, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
44 20 0.47
45 16 0.37
46 7 0.16
ACGTcount: A:0.28, C:0.31, G:0.14, T:0.27
Consensus pattern (44 bp):
CTAACACATCTGTGCCGATGCCATGTCCCAAACATGGTCTTACA
Found at i:9885735 original size:20 final size:20
Alignment explanation
Indices: 9885710--9885759 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
9885700 TTAGGAGCAT
*
9885710 AATATTCACCATCAACATCG
1 AATATTCACCACCAACATCG
9885730 AATATTCACCACCAACATCG
1 AATATTCACCACCAACATCG
*
9885750 AATAATCACC
1 AATATTCACC
9885760 CAAAAACACA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.42, C:0.32, G:0.04, T:0.22
Consensus pattern (20 bp):
AATATTCACCACCAACATCG
Found at i:9887365 original size:14 final size:13
Alignment explanation
Indices: 9887342--9887388 Score: 58
Period size: 14 Copynumber: 3.5 Consensus size: 13
9887332 TATAGGTTTA
9887342 AGGGTTATGATTT
1 AGGGTTATGATTT
9887355 AGGGTTGATGATTT
1 AGGGTT-ATGATTT
**
9887369 ATGTTTTATGATTT
1 A-GGGTTATGATTT
9887383 AGGGTT
1 AGGGTT
9887389 TGAGGTTTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
13 9 0.32
14 16 0.57
15 3 0.11
ACGTcount: A:0.21, C:0.00, G:0.30, T:0.49
Consensus pattern (13 bp):
AGGGTTATGATTT
Found at i:9887404 original size:28 final size:28
Alignment explanation
Indices: 9887346--9887404 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
9887336 GGTTTAAGGG
**
9887346 TTATGATTTAGGGTTGATGATTTATGTT
1 TTATGATTTAGGGTTGATGATTTATAAT
*
9887374 TTATGATTTAGGGTTTGA-GGTTTATAAT
1 TTATGATTTAGGG-TTGATGATTTATAAT
9887402 TTA
1 TTA
9887405 AAATGTTATG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 23 0.85
29 4 0.15
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.53
Consensus pattern (28 bp):
TTATGATTTAGGGTTGATGATTTATAAT
Found at i:9887562 original size:14 final size:14
Alignment explanation
Indices: 9887545--9887574 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
9887535 GTGTTTTAAA
9887545 GTTTATTATTTAGG
1 GTTTATTATTTAGG
9887559 GTTTATTATTTAGG
1 GTTTATTATTTAGG
9887573 GT
1 GT
9887575 CTAAGATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.23, T:0.57
Consensus pattern (14 bp):
GTTTATTATTTAGG
Found at i:9888055 original size:7 final size:7
Alignment explanation
Indices: 9888035--9888084 Score: 55
Period size: 7 Copynumber: 7.1 Consensus size: 7
9888025 GTTTATAGTA
9888035 TGGGGTT
1 TGGGGTT
**
9888042 TATGGTT
1 TGGGGTT
9888049 TGGGGTT
1 TGGGGTT
*
9888056 TGGGATT
1 TGGGGTT
9888063 TGGGGTT
1 TGGGGTT
*
9888070 TGGAGTT
1 TGGGGTT
*
9888077 TAGGGTT
1 TGGGGTT
9888084 T
1 T
9888085 AGTGTTTAAT
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.08, C:0.00, G:0.46, T:0.46
Consensus pattern (7 bp):
TGGGGTT
Found at i:9888059 original size:21 final size:21
Alignment explanation
Indices: 9888035--9888091 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
9888025 GTTTATAGTA
* *
9888035 TGGGGTTTATGGTTTGGGGTT
1 TGGGGTTTAGGGTTTGGAGTT
* *
9888056 TGGGATTTGGGGTTTGGAGTT
1 TGGGGTTTAGGGTTTGGAGTT
* *
9888077 TAGGGTTTAGTGTTT
1 TGGGGTTTAGGGTTT
9888092 AATTTTGGAA
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.09, C:0.00, G:0.44, T:0.47
Consensus pattern (21 bp):
TGGGGTTTAGGGTTTGGAGTT
Found at i:9888085 original size:7 final size:7
Alignment explanation
Indices: 9887990--9888092 Score: 50
Period size: 7 Copynumber: 14.6 Consensus size: 7
9887980 GTTAGGGAGA
9887990 TTTAGGG
1 TTTAGGG
9887997 TTTTAGGG
1 -TTTAGGG
*
9888005 TTTAAGG
1 TTTAGGG
*
9888012 ATT-GGG
1 TTTAGGG
*
9888018 TTTTGTGG
1 TTTAG-GG
**
9888026 TTTATAG
1 TTTAGGG
* *
9888033 TATGGGG
1 TTTAGGG
*
9888040 TTTATGG
1 TTTAGGG
*
9888047 TTTGGGG
1 TTTAGGG
9888054 TTT-GGG
1 TTTAGGG
*
9888060 ATTTGGGG
1 -TTTAGGG
9888068 TTT-GGAG
1 TTTAGG-G
9888075 TTTAGGG
1 TTTAGGG
*
9888082 TTTAGTG
1 TTTAGGG
9888089 TTTA
1 TTTA
9888093 ATTTTGGAAT
Statistics
Matches: 72, Mismatches: 17, Indels: 13
0.71 0.17 0.13
Matches are distributed among these distances:
6 9 0.12
7 46 0.64
8 17 0.24
ACGTcount: A:0.14, C:0.00, G:0.39, T:0.48
Consensus pattern (7 bp):
TTTAGGG
Found at i:9888315 original size:41 final size:39
Alignment explanation
Indices: 9888264--9888358 Score: 102
Period size: 43 Copynumber: 2.4 Consensus size: 39
9888254 TGTTTTTTTC
* **
9888264 AAAAACGCCACAAAA-ATGAGCTATAGTGGCGTTTATAATAA
1 AAAAACGCCACAAAAGATGACCTATACCGGCGTTT-T-A-AA
*
9888305 AAAAACGCCACTAAAAGTTGACCTATACCGGCGTTTTAAA
1 AAAAACGCCAC-AAAAGATGACCTATACCGGCGTTTTAAA
*
9888345 AAAAACGCCGCAAA
1 AAAAACGCCACAAA
9888359 TATTTGAGTT
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
39 3 0.06
40 12 0.26
41 12 0.26
42 5 0.11
43 15 0.32
ACGTcount: A:0.45, C:0.20, G:0.16, T:0.19
Consensus pattern (39 bp):
AAAAACGCCACAAAAGATGACCTATACCGGCGTTTTAAA
Found at i:9889031 original size:24 final size:24
Alignment explanation
Indices: 9889001--9889046 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
9888991 GTCAGGTAAC
9889001 TTTAATTTCTAAGTCTCTGTTTCT
1 TTTAATTTCTAAGTCTCTGTTTCT
9889025 TTTAATTTCTAAGTCTCTGTTT
1 TTTAATTTCTAAGTCTCTGTTT
9889047 ACAAATACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.17, C:0.15, G:0.09, T:0.59
Consensus pattern (24 bp):
TTTAATTTCTAAGTCTCTGTTTCT
Found at i:9889677 original size:24 final size:24
Alignment explanation
Indices: 9889614--9889683 Score: 72
Period size: 24 Copynumber: 2.9 Consensus size: 24
9889604 TTTGTGACTG
*
9889614 TGAAAATCGTATTATAATAATGTTA
1 TGAAAATTGTATTATAAT-ATGTTA
**
9889639 T-ACTATCT-TATTTATAATATGTTA
1 TGAAAAT-TGTA-TTATAATATGTTA
9889663 TGAAAATTGTATTATAATATG
1 TGAAAATTGTATTATAATATG
9889684 CTTTGGTTAG
Statistics
Matches: 36, Mismatches: 5, Indels: 9
0.72 0.10 0.18
Matches are distributed among these distances:
24 23 0.64
25 13 0.36
ACGTcount: A:0.40, C:0.04, G:0.10, T:0.46
Consensus pattern (24 bp):
TGAAAATTGTATTATAATATGTTA
Found at i:9891481 original size:17 final size:17
Alignment explanation
Indices: 9891459--9891500 Score: 84
Period size: 17 Copynumber: 2.5 Consensus size: 17
9891449 CTTTTAAGTA
9891459 CTAAATTCGACAAAAAT
1 CTAAATTCGACAAAAAT
9891476 CTAAATTCGACAAAAAT
1 CTAAATTCGACAAAAAT
9891493 CTAAATTC
1 CTAAATTC
9891501 ATGTGTTAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.50, C:0.19, G:0.05, T:0.26
Consensus pattern (17 bp):
CTAAATTCGACAAAAAT
Found at i:9892533 original size:9 final size:9
Alignment explanation
Indices: 9892471--9892535 Score: 67
Period size: 9 Copynumber: 6.9 Consensus size: 9
9892461 AATAGTATTA
*
9892471 ATAACTCAC
1 ATAACTTAC
9892480 ATAACTTAC
1 ATAACTTAC
*
9892489 ATAATTTAC
1 ATAACTTAC
*
9892498 ATAACTCAC
1 ATAACTTAC
*
9892507 ATAACGTAC
1 ATAACTTAC
9892516 ATAACAACTTAC
1 AT---AACTTAC
9892528 ATAACTTA
1 ATAACTTA
9892536 ACTAATACAT
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
9 38 0.83
12 8 0.17
ACGTcount: A:0.46, C:0.23, G:0.02, T:0.29
Consensus pattern (9 bp):
ATAACTTAC
Found at i:9897850 original size:40 final size:40
Alignment explanation
Indices: 9897726--9897949 Score: 208
Period size: 40 Copynumber: 5.7 Consensus size: 40
9897716 TTGAATGCTG
* * * *
9897726 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAA
**
9897766 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-AGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAA
* * *
9897804 TTCCGGGTTAAGCCCCGAATGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
* * *
9897845 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
* * *
9897885 TCCGGGTTATGTCCCGAAGGCA-TTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
* * *
9897924 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
9897950 AATGAGGAGC
Statistics
Matches: 156, Mismatches: 20, Indels: 16
0.81 0.10 0.08
Matches are distributed among these distances:
38 2 0.01
39 58 0.37
40 84 0.54
41 12 0.08
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
Found at i:9897862 original size:79 final size:79
Alignment explanation
Indices: 9897779--9897949 Score: 202
Period size: 79 Copynumber: 2.2 Consensus size: 79
9897769 GGACTAAGAT
*
9897779 CCGAAGGCATTTGTGC-AGATA-CAAATTCCGGGTTAAGCCCCGAATGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAA-GCCATTGTGCGAGATACT
* *
9897842 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * * * *
9897858 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGCCATTGTGCGAGATACTAA
*
9897923 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
9897937 CCGAAGGCATTTG
1 CCGAAGGCATTTG
9897950 AATGAGGAGC
Statistics
Matches: 77, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
79 54 0.70
80 20 0.26
81 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGCCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Done.