Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 50 of 410
Found at i:12868961 original size:21 final size:21
Alignment explanation
Indices: 12868937--12868976 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
12868927 GAGTTTCTGT
**
12868937 TCAGCTCTTTTGAGCTTCTAC
1 TCAGCTCTTACGAGCTTCTAC
12868958 TCAGCTCTTACGAGCTTCT
1 TCAGCTCTTACGAGCTTCT
12868977 GATTGGCGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.15, C:0.30, G:0.15, T:0.40
Consensus pattern (21 bp):
TCAGCTCTTACGAGCTTCTAC
Found at i:12875861 original size:21 final size:21
Alignment explanation
Indices: 12875813--12875882 Score: 79
Period size: 21 Copynumber: 3.3 Consensus size: 21
12875803 GTGTTTTACT
*
12875813 TTTTGTTCAGCTCTTATGAG-
1 TTTTGTTCAGCTCTTACGAGC
12875833 TTTCTGTTCAGCTCTTACGAGC
1 TTT-TGTTCAGCTCTTACGAGC
* * *
12875855 TTTTGTTTAGGTCTTTCGAGC
1 TTTTGTTCAGCTCTTACGAGC
*
12875876 TTCTGTT
1 TTTTGTT
12875883 TAGATTTTGA
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
20 3 0.07
21 37 0.86
22 3 0.07
ACGTcount: A:0.11, C:0.19, G:0.20, T:0.50
Consensus pattern (21 bp):
TTTTGTTCAGCTCTTACGAGC
Found at i:12879070 original size:20 final size:18
Alignment explanation
Indices: 12879037--12879073 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
12879027 TGTGATGTTG
12879037 ATATGTTTAATTTAATTA
1 ATATGTTTAATTTAATTA
12879055 ATATGGTTTAAATTTAATT
1 ATAT-GTTT-AATTTAATT
12879074 TGTGTTAGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 4 0.24
20 9 0.53
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (18 bp):
ATATGTTTAATTTAATTA
Found at i:12880176 original size:23 final size:23
Alignment explanation
Indices: 12880142--12880199 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 23
12880132 TTGCTAAAAG
* *
12880142 ATAATATACCATAATAATATCTT
1 ATAATATCCCATAATAATATCTC
*
12880165 ATAATATCCCATAATAATGTCTC
1 ATAATATCCCATAATAATATCTC
12880188 ATAATATCCCAT
1 ATAATATCCCAT
12880200 TAAAAATCAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.36
Consensus pattern (23 bp):
ATAATATCCCATAATAATATCTC
Found at i:12883013 original size:68 final size:68
Alignment explanation
Indices: 12882901--12883195 Score: 322
Period size: 68 Copynumber: 4.3 Consensus size: 68
12882891 AAGTTTAATA
* * * * *
12882901 TGTAAGACCATAGCTTGGCTATGGCAACAAAGGGAGTCTACTAGGACGTTAAACATGAGTTCATA
1 TGTAAGACCATAGCTCGGCTATGACAACAAAGAGAGTCTGCTAGGACGTTAAACATGGGTTCATA
12882966 CTG
66 CTG
* * * * *
12882969 TGTAAGACCATAGCTCGGCAATGACAACAAATAGAGTCTGCTAGGACATTAAACATGGGCTCCTA
1 TGTAAGACCATAGCTCGGCTATGACAACAAAGAGAGTCTGCTAGGACGTTAAACATGGGTTCATA
*
12883034 TTG
66 CTG
* * * * * *
12883037 TGTAAGATCATAGCTCGACTATGGA-AACAAAGGGAGTCTGTTAGGAAGTTAAACATGGGTTCTT
1 TGTAAGACCATAGCTCGGCTAT-GACAACAAAGAGAGTCTGCTAGGACGTTAAACATGGGTTCAT
12883101 ACTG
65 ACTG
** ** * * * *
12883105 TACAAGACCATAGCTCGGCTATGGTAACAAAGAGAGTTTTCCAGGACGTTAAACATGGGTTTATA
1 TGTAAGACCATAGCTCGGCTATGACAACAAAGAGAGTCTGCTAGGACGTTAAACATGGGTTCATA
*
12883170 CTA
66 CTG
* *
12883173 TATAAGACCATAGCTCGGATATG
1 TGTAAGACCATAGCTCGGCTATG
12883196 GCGTCAGGAA
Statistics
Matches: 187, Mismatches: 38, Indels: 4
0.82 0.17 0.02
Matches are distributed among these distances:
67 1 0.01
68 184 0.98
69 2 0.01
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (68 bp):
TGTAAGACCATAGCTCGGCTATGACAACAAAGAGAGTCTGCTAGGACGTTAAACATGGGTTCATA
CTG
Found at i:12883151 original size:136 final size:136
Alignment explanation
Indices: 12882901--12883163 Score: 355
Period size: 136 Copynumber: 1.9 Consensus size: 136
12882891 AAGTTTAATA
* * * *
12882901 TGTAAGACCATAGCTTGGCTATGGCAACAAAGGGAGTCTACTAGGACGTTAAACATGAGTTCATA
1 TGTAAGACCATAGCTCGACTATGGAAACAAAGGGAGTCTACTAGGAAGTTAAACATGAGTTCATA
** * *
12882966 CTGTGTAAGACCATAGCTCGGCAATGACAACAAATAGAGTCTGCTAGGACATTAAACATGGGCTC
66 CTGTACAAGACCATAGCTCGGCAATGACAACAAAGAGAGTCTGCCAGGACATTAAACATGGGCTC
12883031 CTATTG
131 CTATTG
* ** * *
12883037 TGTAAGATCATAGCTCGACTATGGAAACAAAGGGAGTCTGTTAGGAAGTTAAACATGGGTTCTTA
1 TGTAAGACCATAGCTCGACTATGGAAACAAAGGGAGTCTACTAGGAAGTTAAACATGAGTTCATA
* ** * * *
12883102 CTGTACAAGACCATAGCTCGGCTATGGTAACAAAGAGAGTTTTCCAGGACGTTAAACATGGG
66 CTGTACAAGACCATAGCTCGGCAATGACAACAAAGAGAGTCTGCCAGGACATTAAACATGGG
12883164 TTTATACTAT
Statistics
Matches: 108, Mismatches: 19, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
136 108 1.00
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (136 bp):
TGTAAGACCATAGCTCGACTATGGAAACAAAGGGAGTCTACTAGGAAGTTAAACATGAGTTCATA
CTGTACAAGACCATAGCTCGGCAATGACAACAAAGAGAGTCTGCCAGGACATTAAACATGGGCTC
CTATTG
Found at i:12894128 original size:16 final size:17
Alignment explanation
Indices: 12894104--12894135 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
12894094 AAAACAACAG
12894104 AAAATAAAATTTAAAAT
1 AAAATAAAATTTAAAAT
12894121 AAAA-AAAATTTAAAA
1 AAAATAAAATTTAAAA
12894136 GTGAAGTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (17 bp):
AAAATAAAATTTAAAAT
Found at i:12897309 original size:21 final size:19
Alignment explanation
Indices: 12897232--12897315 Score: 62
Period size: 21 Copynumber: 4.0 Consensus size: 19
12897222 TTATTTTATT
12897232 AAATAAAAAAAT-TTAAAAA
1 AAATAAAAAAATATT-AAAA
12897251 TATAATAAATCAAATATATTTAAAA
1 -A-AATAAA--AAA-ATA-TTAAAA
*
12897276 ACATAAAAAAATATTAAAA
1 AAATAAAAAAATATTAAAA
*
12897295 CAAATAAAAAGAATACTAAAA
1 -AAATAAAAA-AATATTAAAA
12897316 TAATTCTTAA
Statistics
Matches: 53, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
19 6 0.11
20 12 0.23
21 18 0.34
23 8 0.15
24 3 0.06
25 4 0.08
26 2 0.04
ACGTcount: A:0.70, C:0.05, G:0.01, T:0.24
Consensus pattern (19 bp):
AAATAAAAAAATATTAAAA
Found at i:12899405 original size:23 final size:23
Alignment explanation
Indices: 12899379--12899424 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
12899369 ATTTACATTC
*
12899379 CTCTGTCTTTTGACACGCTTTCT
1 CTCTATCTTTTGACACGCTTTCT
12899402 CTCTATCTTTTGACACGCTTTCT
1 CTCTATCTTTTGACACGCTTTCT
12899425 GTTTTTCTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.11, C:0.30, G:0.11, T:0.48
Consensus pattern (23 bp):
CTCTATCTTTTGACACGCTTTCT
Found at i:12904939 original size:23 final size:24
Alignment explanation
Indices: 12904913--12904957 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
12904903 TTTCTGTTTC
12904913 CTTTTTCTTTCTG-TTTTGTTTTT
1 CTTTTTCTTTCTGTTTTTGTTTTT
* *
12904936 CTTTTTTTTTTTGTTTTTGTTT
1 CTTTTTCTTTCTGTTTTTGTTT
12904958 GGTTCATGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.00, C:0.09, G:0.09, T:0.82
Consensus pattern (24 bp):
CTTTTTCTTTCTGTTTTTGTTTTT
Found at i:12904941 original size:24 final size:24
Alignment explanation
Indices: 12904909--12904957 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
12904899 GATGTTTCTG
12904909 TTTCCTTTTTCTTTCTG-TTTTGTT
1 TTTCCTTTTT-TTTCTGTTTTTGTT
* *
12904933 TTTCTTTTTTTTTTTGTTTTTGTT
1 TTTCCTTTTTTTTCTGTTTTTGTT
12904957 T
1 T
12904958 GGTTCATGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 5 0.23
24 17 0.77
ACGTcount: A:0.00, C:0.10, G:0.08, T:0.82
Consensus pattern (24 bp):
TTTCCTTTTTTTTCTGTTTTTGTT
Found at i:12904946 original size:17 final size:18
Alignment explanation
Indices: 12904903--12904953 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 18
12904893 GAGGATGATG
**
12904903 TTTCTGTTTCCTTTTTC-
1 TTTCTGTTTTGTTTTTCT
12904920 TTTCTGTTTTGTTTTTCT
1 TTTCTGTTTTGTTTTTCT
* *
12904938 TTTTTTTTTTGTTTTT
1 TTTCTGTTTTGTTTTT
12904954 GTTTGGTTCA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
17 15 0.52
18 14 0.48
ACGTcount: A:0.00, C:0.12, G:0.08, T:0.80
Consensus pattern (18 bp):
TTTCTGTTTTGTTTTTCT
Found at i:12911931 original size:54 final size:54
Alignment explanation
Indices: 12911849--12911960 Score: 224
Period size: 54 Copynumber: 2.1 Consensus size: 54
12911839 AATCAAGTGG
12911849 TTGTCACCCAAGACTCTGACCGACGAGGCTCCTTCGCTTCTTCGCTTTGCTCCT
1 TTGTCACCCAAGACTCTGACCGACGAGGCTCCTTCGCTTCTTCGCTTTGCTCCT
12911903 TTGTCACCCAAGACTCTGACCGACGAGGCTCCTTCGCTTCTTCGCTTTGCTCCT
1 TTGTCACCCAAGACTCTGACCGACGAGGCTCCTTCGCTTCTTCGCTTTGCTCCT
12911957 TTGT
1 TTGT
12911961 TAGTGCCTCT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 58 1.00
ACGTcount: A:0.12, C:0.36, G:0.19, T:0.33
Consensus pattern (54 bp):
TTGTCACCCAAGACTCTGACCGACGAGGCTCCTTCGCTTCTTCGCTTTGCTCCT
Found at i:12924303 original size:42 final size:43
Alignment explanation
Indices: 12924211--12924358 Score: 144
Period size: 43 Copynumber: 3.5 Consensus size: 43
12924201 CAATGTCGAC
* **
12924211 GTCCCAGAC-GTGGTCTTACATGTAATTCAATATCGATGCCTCT
1 GTCCCAGACAG-GGTCTTACATGTAAATCAATATCGATGCCGAT
12924254 GTCCCAGACAGGGTCTTACATG-AAATCAGATA-CGATGCCGAT
1 GTCCCAGACAGGGTCTTACATGTAAATCA-ATATCGATGCCGAT
* * * * *
12924296 GTCCCAGACATGGTCTTATACGTAAATCTCA-ATCGAGGCCTG-T
1 GTCCCAGACAGGGTCTTACATGTAAATC-AATATCGATGCC-GAT
*
12924339 GTCCCAGATAGGGTCTTACA
1 GTCCCAGACAGGGTCTTACA
12924359 CGATGTCTCA
Statistics
Matches: 88, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
42 33 0.38
43 53 0.60
44 2 0.02
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.27
Consensus pattern (43 bp):
GTCCCAGACAGGGTCTTACATGTAAATCAATATCGATGCCGAT
Found at i:12925898 original size:6 final size:6
Alignment explanation
Indices: 12925887--12925927 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
12925877 GGAATACACT
* *
12925887 GTAACA GTAACA GTAACA GTAACA GTAATA GTAATA GTAAC
1 GTAACA GTAACA GTAACA GTAACA GTAACA GTAACA GTAAC
12925928 GGTACACAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.49, C:0.12, G:0.17, T:0.22
Consensus pattern (6 bp):
GTAACA
Found at i:12933292 original size:13 final size:13
Alignment explanation
Indices: 12933276--12933308 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
12933266 TTTGATTAAA
*
12933276 TTAGTTAATTAGT
1 TTAGATAATTAGT
12933289 TTAGATAATTAGT
1 TTAGATAATTAGT
12933302 TTA-ATAA
1 TTAGATAA
12933309 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:12938706 original size:6 final size:6
Alignment explanation
Indices: 12938695--12938746 Score: 54
Period size: 6 Copynumber: 9.0 Consensus size: 6
12938685 AATCCTCCTA
* * * *
12938695 TTTTAT TTTTA- TTTTA- TTTTAT TCTTAT TTTTCT TTTTCT TTTAAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
12938741 TTTTAT
1 TTTTAT
12938747 ATTCATTTCA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
5 10 0.26
6 29 0.74
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTAT
Found at i:12938709 original size:11 final size:11
Alignment explanation
Indices: 12938693--12938731 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
12938683 TGAATCCTCC
12938693 TATTTTATTTT
1 TATTTTATTTT
12938704 TATTTTA-TTT
1 TATTTTATTTT
12938714 TATTCTTATTTT
1 TATT-TTATTTT
*
12938726 TCTTTT
1 TATTTT
12938732 TCTTTTAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
10 7 0.28
11 12 0.48
12 6 0.24
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.79
Consensus pattern (11 bp):
TATTTTATTTT
Found at i:12938714 original size:16 final size:16
Alignment explanation
Indices: 12938693--12938725 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
12938683 TGAATCCTCC
*
12938693 TATTTTATTTTTATTT
1 TATTTTATTCTTATTT
12938709 TATTTTATTCTTATTT
1 TATTTTATTCTTATTT
12938725 T
1 T
12938726 TCTTTTTCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (16 bp):
TATTTTATTCTTATTT
Found at i:12943462 original size:13 final size:13
Alignment explanation
Indices: 12943446--12943478 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
12943436 TTTGATTAAA
*
12943446 TTAGTTAATTAGT
1 TTAGATAATTAGT
12943459 TTAGATAATTAGT
1 TTAGATAATTAGT
12943472 TTA-ATAA
1 TTAGATAA
12943479 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:12945367 original size:28 final size:29
Alignment explanation
Indices: 12945300--12945400 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
12945290 ATAGTGAATC
*
12945300 CGCACACTTAGTGCTATATACATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
12945329 CGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
12945357 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
12945387 CGCACACTTAGTGC
1 CGCACACTTAGTGC
12945401 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.36
29 20 0.31
30 19 0.30
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:12952384 original size:21 final size:21
Alignment explanation
Indices: 12952355--12952394 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
12952345 GTTTTTATAT
*
12952355 TTTGGTTCAACTTAAGTATTA
1 TTTGATTCAACTTAAGTATTA
12952376 TTTGATTCAACTTAAGTAT
1 TTTGATTCAACTTAAGTAT
12952395 GAATTAGTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.10, G:0.12, T:0.47
Consensus pattern (21 bp):
TTTGATTCAACTTAAGTATTA
Found at i:12954330 original size:372 final size:372
Alignment explanation
Indices: 12953423--12954707 Score: 2518
Period size: 372 Copynumber: 3.5 Consensus size: 372
12953413 CTTGTCCATT
*
12953423 AAAATTACAACAATAGCTGACTTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
1 AAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
12953488 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
66 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
12953553 GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTGTATCGAGC
131 GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTGTATCGAGC
12953618 TCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTA
196 TCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTA
12953683 CGATTCTTTTTTGATATTATTATATTCAAATTACTATTTTTTATATTAATAATGTTTTATTTTAA
261 CGATTCTTTTTTGATATTATTATATTCAAATTACTATTTTTTATATTAATAATGTTTTATTTTAA
12953748 -ATTTAATATTTTTAAATTTCTTTAAAAGTTATAACTACTTTTTATC
326 TATTTAATATTTTTAAATTTCTTTAAAAGTTATAACTACTTTTTATC
12953794 AAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
1 AAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
*
12953859 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATAGATCCTCCCTAGGT
66 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
12953924 GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTGTATCGAGC
131 GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTGTATCGAGC
12953989 TCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTA
196 TCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTA
12954054 CGATTCTTTTTTGATATTATTATATTCAAATTACTATTTTTTATATTAATAATGTTTTATTTTAA
261 CGATTCTTTTTTGATATTATTATATTCAAATTACTATTTTTTATATTAATAATGTTTTATTTTAA
12954119 TATTTAATATTTTTAAATTTCTTTAAAAGTTATAACTACTTTTTATC
326 TATTTAATATTTTTAAATTTCTTTAAAAGTTATAACTACTTTTTATC
*
12954166 AAAATTACAATAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
1 AAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
12954231 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
66 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
*
12954296 GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGC
131 GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTGTATCGAGC
12954361 TCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTA
196 TCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTA
12954426 CGATTCTTTTTTGATATTATTATATTCAAATTACTATTTTTTTATATTAATAATGTTTTATTTTA
261 CGATTCTTTTTTGATATTATTATATTCAAATTACTA-TTTTTTATATTAATAATGTTTTATTTTA
12954491 ATATTTAATATTTTTAAATTTCTTTAAAAGTTATAACTACTTTTTATC
325 ATATTTAATATTTTTAAATTTCTTTAAAAGTTATAACTACTTTTTATC
12954539 AAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
1 AAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
12954604 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
66 ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
12954669 GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAA
131 GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAA
12954708 TGTTTCAATT
Statistics
Matches: 906, Mismatches: 6, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
371 323 0.36
372 339 0.37
373 244 0.27
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.39
Consensus pattern (372 bp):
AAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTAT
ATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGT
GTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTGTATCGAGC
TCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTA
CGATTCTTTTTTGATATTATTATATTCAAATTACTATTTTTTATATTAATAATGTTTTATTTTAA
TATTTAATATTTTTAAATTTCTTTAAAAGTTATAACTACTTTTTATC
Found at i:12954822 original size:24 final size:24
Alignment explanation
Indices: 12954795--12954862 Score: 102
Period size: 24 Copynumber: 2.8 Consensus size: 24
12954785 ATTATTATTG
*
12954795 AAATATTCTCGTCCGTTTTATCAC
1 AAATATTATCGTCCGTTTTATCAC
*
12954819 AAATATTATTC-TCCGTTTTATTAC
1 AAATATTA-TCGTCCGTTTTATCAC
12954843 AAATATTATCGTCCGTTTTA
1 AAATATTATCGTCCGTTTTA
12954863 CCATTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
23 2 0.05
24 36 0.90
25 2 0.05
ACGTcount: A:0.28, C:0.19, G:0.07, T:0.46
Consensus pattern (24 bp):
AAATATTATCGTCCGTTTTATCAC
Found at i:12955083 original size:15 final size:15
Alignment explanation
Indices: 12955039--12955094 Score: 73
Period size: 15 Copynumber: 3.8 Consensus size: 15
12955029 AACGACATGT
12955039 ATATTATTTAATTAAA
1 ATATTATTTAATT-AA
12955055 ATAATT-TTT-A-TAA
1 AT-ATTATTTAATTAA
12955068 ATATTATTTAATTAA
1 ATATTATTTAATTAA
12955083 ATATTATTTAAT
1 ATATTATTTAAT
12955095 CCCGCTACTT
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
12 3 0.08
13 7 0.19
14 2 0.06
15 16 0.44
16 5 0.14
17 3 0.08
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
ATATTATTTAATTAA
Found at i:12955211 original size:9 final size:9
Alignment explanation
Indices: 12955199--12955415 Score: 134
Period size: 9 Copynumber: 23.6 Consensus size: 9
12955189 TATTTGATAT
*
12955199 CATAATTTA
1 CATAACTTA
12955208 CATAACTTA
1 CATAACTTA
* *
12955217 TATAACATA
1 CATAACTTA
*
12955226 TATAACTTA
1 CATAACTTA
12955235 CATAACTTA
1 CATAACTTA
* *
12955244 TATAACATA
1 CATAACTTA
12955253 CATAACTTA
1 CATAACTTA
*
12955262 TATAACTTA
1 CATAACTTA
* *
12955271 GATAA-ATA
1 CATAACTTA
*
12955279 TATAACTTA
1 CATAACTTA
12955288 CATAACTTA
1 CATAACTTA
12955297 CATAATACTTA
1 CAT-A-ACTTA
* *
12955308 AATATATTTTATA
1 CATA-A--CT-TA
*
12955321 TCATAATTTA
1 -CATAACTTA
12955331 CATAACTTA
1 CATAACTTA
12955340 CATAACTTA
1 CATAACTTA
*
12955349 TATAACTTA
1 CATAACTTA
* *
12955358 GATAA-ATA
1 CATAACTTA
* *
12955366 TATAATTTA
1 CATAACTTA
*
12955375 CATAA-ATA
1 CATAACTTA
* * *
12955383 TATATCATA
1 CATAACTTA
*
12955392 TCATAAATTA
1 -CATAACTTA
12955402 CATAACTTA
1 CATAACTTA
12955411 CATAA
1 CATAA
12955416 TACTTAAATA
Statistics
Matches: 165, Mismatches: 33, Indels: 20
0.76 0.15 0.09
Matches are distributed among these distances:
8 17 0.10
9 121 0.73
10 11 0.07
11 9 0.05
12 1 0.01
13 3 0.02
14 3 0.02
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.38
Consensus pattern (9 bp):
CATAACTTA
Found at i:12955221 original size:18 final size:18
Alignment explanation
Indices: 12955199--12955415 Score: 162
Period size: 18 Copynumber: 12.3 Consensus size: 18
12955189 TATTTGATAT
* *
12955199 CATAATTTACATAACTTA
1 CATAACTTATATAACTTA
* *
12955217 TATAACATATATAACTTA
1 CATAACTTATATAACTTA
*
12955235 CATAACTTATATAACATA
1 CATAACTTATATAACTTA
12955253 CATAACTTATATAACTTA
1 CATAACTTATATAACTTA
* *
12955271 GATAA-ATATATAACTTA
1 CATAACTTATATAACTTA
*
12955288 CATAACTTACATAATACTTA
1 CATAACTTATAT-A-ACTTA
* *
12955308 AATATA-TTTTAT-A--T-
1 CATA-ACTTATATAACTTA
* *
12955322 CATAATTTACATAACTTA
1 CATAACTTATATAACTTA
12955340 CATAACTTATATAACTTA
1 CATAACTTATATAACTTA
* * *
12955358 GATAA-ATATATAATTTA
1 CATAACTTATATAACTTA
* * *
12955375 CATAA-ATATATATCATA
1 CATAACTTATATAACTTA
* *
12955392 TCATAAATTACATAACTTA
1 -CATAACTTATATAACTTA
12955411 CATAA
1 CATAA
12955416 TACTTAAATA
Statistics
Matches: 156, Mismatches: 32, Indels: 22
0.74 0.15 0.10
Matches are distributed among these distances:
13 1 0.01
14 7 0.04
15 2 0.01
17 40 0.26
18 84 0.54
19 9 0.06
20 12 0.08
21 1 0.01
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.38
Consensus pattern (18 bp):
CATAACTTATATAACTTA
Found at i:12955403 original size:114 final size:114
Alignment explanation
Indices: 12955208--12955439 Score: 297
Period size: 114 Copynumber: 2.0 Consensus size: 114
12955198 TCATAATTTA
* * * * *
12955208 CATAACTTATATAACATATATAACTTACATAACTTATATAACATACATAACTTATATAACTTAGA
1 CATAACTTACATAACATACATAACTTACATAACTTAGATAACATACATAACTTACATAAATTAGA
* * *
12955273 TAAATATATAACTTACATAACTTACATAATACTTAAATATATTTTATAT
66 TAAATATATAAATTACATAACTTACATAATACTTAAATATATATCATAT
* * * * * *
12955322 CATAATTTACATAACTTACATAACTTATATAACTTAGATAA-ATATATAATTTACATAAA-TATA
1 CATAACTTACATAACATACATAACTTACATAACTTAGATAACATACATAACTTACATAAATTAGA
*
12955385 TATCATATCATAAATTACATAACTTACATAATACTTAAATATATATCATAT
66 TA-AATAT-ATAAATTACATAACTTACATAATACTTAAATATATATCATAT
12955436 CATA
1 CATA
12955440 CATAACTAGT
Statistics
Matches: 101, Mismatches: 15, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
112 5 0.05
113 18 0.18
114 78 0.77
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.38
Consensus pattern (114 bp):
CATAACTTACATAACATACATAACTTACATAACTTAGATAACATACATAACTTACATAAATTAGA
TAAATATATAAATTACATAACTTACATAATACTTAAATATATATCATAT
Found at i:12960732 original size:15 final size:17
Alignment explanation
Indices: 12960692--12960725 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
12960682 GTTATGTTGC
*
12960692 ATTTCTTTTTATTATAT
1 ATTTCGTTTTATTATAT
12960709 ATTTCGTTTTATTATAT
1 ATTTCGTTTTATTATAT
12960726 TTCGTTTCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.06, G:0.03, T:0.68
Consensus pattern (17 bp):
ATTTCGTTTTATTATAT
Found at i:12961108 original size:21 final size:21
Alignment explanation
Indices: 12961075--12961125 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
12961065 ACAACTTAGA
*
12961075 GCAGAGGCAGCAGAGAGGGAG
1 GCAGAGGCAGCAGAGAGAGAG
* * *
12961096 GCAGCGGCTGCAGCGAGAGAG
1 GCAGAGGCAGCAGAGAGAGAG
12961117 GCAGAGGCA
1 GCAGAGGCA
12961126 CGAGCGATGG
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.29, C:0.20, G:0.49, T:0.02
Consensus pattern (21 bp):
GCAGAGGCAGCAGAGAGAGAG
Found at i:12961426 original size:31 final size:31
Alignment explanation
Indices: 12961380--12961446 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
12961370 TGGTTGTATT
* *
12961380 TTTTATGTTAAATTTGCTGTTTTTGGCTGCA
1 TTTTATATTAAATTTGCTGTATTTGGCTGCA
* * * *
12961411 TTTTATATTATATTTGTTGTATTTGGTTGGA
1 TTTTATATTAAATTTGCTGTATTTGGCTGCA
12961442 TTTTA
1 TTTTA
12961447 ATGCAGGAAG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.18, C:0.04, G:0.18, T:0.60
Consensus pattern (31 bp):
TTTTATATTAAATTTGCTGTATTTGGCTGCA
Found at i:12961616 original size:43 final size:43
Alignment explanation
Indices: 12961520--12961804 Score: 520
Period size: 43 Copynumber: 6.7 Consensus size: 43
12961510 TGTAAAAAAG
12961520 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTT-CCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTACCACAAA
12961562 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTACCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTACCACAAA
12961605 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTACCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTACCACAAA
12961648 CGCCGCT-AAAGCCTTGACCTTTAGCGGCGCTTTTACCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTACCACAAA
*
12961690 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTACCACAAA
* * *
12961733 CGCCGCTAAAAGCCTTGACCTTTAACGGTGCTTTTCCCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTACCACAAA
12961776 CGCCGCTAAAAGCCTTGACCTTTAGCGGC
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGC
12961805 ATTTTTTTCC
Statistics
Matches: 236, Mismatches: 5, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
42 77 0.33
43 159 0.67
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.24
Consensus pattern (43 bp):
CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTACCACAAA
Found at i:12961659 original size:85 final size:85
Alignment explanation
Indices: 12961520--12961804 Score: 518
Period size: 85 Copynumber: 3.3 Consensus size: 85
12961510 TGTAAAAAAG
12961520 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCACAAACGCCGCTAAAAGCCTTGACCTTT
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCACAAACGCCGCTAAAAGCCTTGACCTTT
12961585 AGCGGCGCTTTTACCACAAA
66 AGCGGCGCTTTTACCACAAA
12961605 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTACCACAAACGCCGCT-AAAGCCTTGACCTT
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTT-CCACAAACGCCGCTAAAAGCCTTGACCTT
12961669 TAGCGGCGCTTTTACCACAAA
65 TAGCGGCGCTTTTACCACAAA
12961690 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCTTGACCTT
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTT-CCACAAACGCCGCTAAAAGCCTTGACCTT
* * *
12961755 TAACGGTGCTTTTCCCACAAA
65 TAGCGGCGCTTTTACCACAAA
12961776 CGCCGCTAAAAGCCTTGACCTTTAGCGGC
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGC
12961805 ATTTTTTTCC
Statistics
Matches: 194, Mismatches: 4, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
85 119 0.61
86 75 0.39
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.24
Consensus pattern (85 bp):
CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCACAAACGCCGCTAAAAGCCTTGACCTTT
AGCGGCGCTTTTACCACAAA
Found at i:12961730 original size:128 final size:128
Alignment explanation
Indices: 12961520--12961804 Score: 518
Period size: 128 Copynumber: 2.2 Consensus size: 128
12961510 TGTAAAAAAG
12961520 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCACAAACGCCGCTAAAAGCCTTGACCTTT
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCACAAACGCCGCTAAAAGCCTTGACCTTT
*
12961585 AGCGGCGCTTTTACCACAAACGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTACCACAAA
66 AGCGGCGCTTTTACCACAAACGCCGCTAAAAGCCTTGACCTTTAACGGCGCTTTTACCACAAA
12961648 CGCCGCT-AAAGCCTTGACCTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAAGCCTTGACCTT
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTT-CCACAAACGCCGCTAAAAGCCTTGACCTT
* * *
12961712 TAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCTTGACCTTTAACGGTGCTTTTCCCACAAA
65 TAGCGGCGCTTTTACCACAAACGCCGCTAAAAGCCTTGACCTTTAACGGCGCTTTTACCACAAA
12961776 CGCCGCTAAAAGCCTTGACCTTTAGCGGC
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGC
12961805 ATTTTTTTCC
Statistics
Matches: 151, Mismatches: 4, Indels: 3
0.96 0.03 0.02
Matches are distributed among these distances:
127 27 0.18
128 103 0.68
129 21 0.14
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.24
Consensus pattern (128 bp):
CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCACAAACGCCGCTAAAAGCCTTGACCTTT
AGCGGCGCTTTTACCACAAACGCCGCTAAAAGCCTTGACCTTTAACGGCGCTTTTACCACAAA
Found at i:12968915 original size:27 final size:27
Alignment explanation
Indices: 12968885--12969025 Score: 164
Period size: 27 Copynumber: 5.2 Consensus size: 27
12968875 CTGACGAAGT
12968885 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATATTGTGGCAGAGC
*
12968912 CACCAGA-ATAGATATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
* * * *
12968939 CACCAGAT-TAGATAATCGTGGCATAAC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
12968966 CACCAGA-ACAGATATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
*
12968993 CACCAGAT-CAGATAATTGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
12969020 CACCAG
1 CACCAG
12969026 GATGCTTCCA
Statistics
Matches: 98, Mismatches: 9, Indels: 14
0.81 0.07 0.12
Matches are distributed among these distances:
26 9 0.09
27 85 0.87
28 4 0.04
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.18
Consensus pattern (27 bp):
CACCAGATACAGATATTGTGGCAGAGC
Found at i:12968960 original size:54 final size:54
Alignment explanation
Indices: 12968885--12969025 Score: 221
Period size: 54 Copynumber: 2.6 Consensus size: 54
12968875 CTGACGAAGT
* *
12968885 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAATAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
* * *
12968939 CACCAGATTAGATAATCGTGGCATAACCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
12968993 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
12969026 GATGCTTCCA
Statistics
Matches: 78, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
53 4 0.05
54 74 0.95
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:12970679 original size:26 final size:26
Alignment explanation
Indices: 12970648--12970754 Score: 153
Period size: 26 Copynumber: 4.2 Consensus size: 26
12970638 TGAAATGCCC
* * *
12970648 ATCATGGAATATTTACTTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
12970674 ATCAT-GAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
12970699 TTCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
12970725 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
12970751 ATCA
1 ATCA
12970755 ATTTGTACCA
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
25 21 0.30
26 50 0.70
ACGTcount: A:0.36, C:0.22, G:0.07, T:0.36
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:12970708 original size:51 final size:52
Alignment explanation
Indices: 12970649--12970750 Score: 179
Period size: 51 Copynumber: 2.0 Consensus size: 52
12970639 GAAATGCCCA
*
12970649 TCATGGAATATTTACTTAAACCATTATCAT-GAACATTTACCTAACCCATTT
1 TCATGGAATATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATTT
*
12970700 TCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
1 TCATGGAATATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
12970751 ATCAATTTGT
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
51 28 0.58
52 20 0.42
ACGTcount: A:0.34, C:0.23, G:0.07, T:0.36
Consensus pattern (52 bp):
TCATGGAATATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATTT
Found at i:12977417 original size:26 final size:26
Alignment explanation
Indices: 12977381--12977541 Score: 270
Period size: 26 Copynumber: 6.2 Consensus size: 26
12977371 TGATACAAAT
12977381 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
12977407 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
12977433 TGATAATGGGTTAGGTAAATGTT-CA
1 TGATAATAGGTTAGGTAAATGTTCCA
12977458 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
12977484 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
12977510 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
12977536 TGATAA
1 TGATAA
12977542 GAATTTCATG
Statistics
Matches: 130, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
25 24 0.18
26 106 0.82
ACGTcount: A:0.34, C:0.06, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:12977469 original size:77 final size:78
Alignment explanation
Indices: 12977381--12977541 Score: 297
Period size: 77 Copynumber: 2.1 Consensus size: 78
12977371 TGATACAAAT
12977381 TGATAATAGGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTA
12977446 GGTAAATG-TTCA
66 GGTAAATGTTTCA
* *
12977458 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCATGATAATGGGTTA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTA
12977523 GGTAAATGTTTCA
66 GGTAAATGTTTCA
12977536 TGATAA
1 TGATAA
12977542 GAATTTCATG
Statistics
Matches: 81, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
77 71 0.88
78 10 0.12
ACGTcount: A:0.34, C:0.06, G:0.25, T:0.36
Consensus pattern (78 bp):
TGATAATAGGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTA
GGTAAATGTTTCA
Found at i:12983279 original size:26 final size:26
Alignment explanation
Indices: 12983243--12983403 Score: 270
Period size: 26 Copynumber: 6.2 Consensus size: 26
12983233 TGATACAAAT
12983243 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
12983269 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
12983295 TGATAATGGGTTAGGTAAATGTT-CA
1 TGATAATAGGTTAGGTAAATGTTCCA
12983320 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
12983346 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
12983372 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
12983398 TGATAA
1 TGATAA
12983404 GAATTTCATG
Statistics
Matches: 130, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
25 24 0.18
26 106 0.82
ACGTcount: A:0.34, C:0.06, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:12983331 original size:77 final size:78
Alignment explanation
Indices: 12983243--12983403 Score: 297
Period size: 77 Copynumber: 2.1 Consensus size: 78
12983233 TGATACAAAT
12983243 TGATAATAGGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTA
12983308 GGTAAATG-TTCA
66 GGTAAATGTTTCA
* *
12983320 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCATGATAATGGGTTA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTA
12983385 GGTAAATGTTTCA
66 GGTAAATGTTTCA
12983398 TGATAA
1 TGATAA
12983404 GAATTTCATG
Statistics
Matches: 81, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
77 71 0.88
78 10 0.12
ACGTcount: A:0.34, C:0.06, G:0.25, T:0.36
Consensus pattern (78 bp):
TGATAATAGGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTA
GGTAAATGTTTCA
Found at i:12984914 original size:26 final size:26
Alignment explanation
Indices: 12984885--12984937 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
12984875 TTTACAGTTT
12984885 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
12984911 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
12984937 T
1 T
12984938 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:12998088 original size:3 final size:3
Alignment explanation
Indices: 12998070--12998102 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
12998060 TGGGATTTTT
*
12998070 ATA ATA GTA A-A ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
12998103 ACAAGAGATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:13007603 original size:3 final size:3
Alignment explanation
Indices: 13007595--13007619 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
13007585 CTGTAATATA
13007595 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
13007620 GGTAAACGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:13014772 original size:22 final size:24
Alignment explanation
Indices: 13014736--13014783 Score: 66
Period size: 22 Copynumber: 2.1 Consensus size: 24
13014726 AATTCTATGC
13014736 TAAATTGATAAAGAT-TAA-TATA
1 TAAATTGATAAAGATATAATTATA
13014758 TAAATT-ATAATAGATATAATTATA
1 TAAATTGATAA-AGATATAATTATA
13014782 TA
1 TA
13014784 TTAAAGATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 4 0.17
22 10 0.43
23 3 0.13
24 6 0.26
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (24 bp):
TAAATTGATAAAGATATAATTATA
Found at i:13014900 original size:22 final size:20
Alignment explanation
Indices: 13014863--13014909 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 20
13014853 CCTAAAATTG
13014863 ATAATGATTAATATATATT-
1 ATAATGATTAATATATATTA
13014882 ATAATAGATATAATTATATATTA
1 ATAAT-GAT-TAA-TATATATTA
13014905 ATAAT
1 ATAAT
13014910 TATCATTGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.21
20 3 0.12
21 3 0.12
22 8 0.33
23 5 0.21
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (20 bp):
ATAATGATTAATATATATTA
Found at i:13019200 original size:27 final size:28
Alignment explanation
Indices: 13019144--13019213 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
13019134 AAAATTGTAC
13019144 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
13019172 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
13019199 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
13019214 GACTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:13019224 original size:27 final size:27
Alignment explanation
Indices: 13019144--13019225 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 27
13019134 AAAATTGTAC
* *
13019144 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
13019172 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
*
13019199 AGCACTGAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
13019226 GCTTTTGAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
26 1 0.02
27 29 0.60
28 18 0.38
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:13027132 original size:27 final size:28
Alignment explanation
Indices: 13027076--13027145 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
13027066 AAAATTGTAC
13027076 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
13027104 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
13027131 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
13027146 GACTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:13027156 original size:27 final size:27
Alignment explanation
Indices: 13027076--13027157 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 27
13027066 AAAATTGTAC
* *
13027076 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
13027104 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
*
13027131 AGCACTGAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
13027158 GCTTTTGAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
26 1 0.02
27 29 0.60
28 18 0.38
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:13033486 original size:40 final size:40
Alignment explanation
Indices: 13033441--13033607 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
13033431 CGGAATATAA
13033441 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
13033481 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
13033521 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
13033561 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
13033600 CCGGATAT
1 CCGGATAT
13033608 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:13033591 original size:80 final size:79
Alignment explanation
Indices: 13033441--13033607 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
13033431 CGGAATATAA
* *
13033441 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
13033506 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
13033521 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
13033583 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
13033600 CCGGATAT
1 CCGGATAT
13033608 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:13034453 original size:17 final size:19
Alignment explanation
Indices: 13034430--13034475 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
13034420 AAGAAGCATG
13034430 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
13034448 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
13034466 AATCATGCTC
1 AATCATGCTC
13034476 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:13046450 original size:2 final size:2
Alignment explanation
Indices: 13046443--13046472 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
13046433 AGTAATAGTA
13046443 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13046473 CTTGTTTTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13057607 original size:3 final size:3
Alignment explanation
Indices: 13057599--13057624 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
13057589 AAATGAAATA
13057599 ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG AT
13057625 AATAATAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.31, T:0.35
Consensus pattern (3 bp):
ATG
Found at i:13057629 original size:3 final size:3
Alignment explanation
Indices: 13057623--13057761 Score: 167
Period size: 3 Copynumber: 47.0 Consensus size: 3
13057613 GATGATGATG
13057623 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
13057671 ATA ATA ATA ATA A-A CA-A AGA ATA ATA A-C ATA ATA ATA ATA GTA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
** * * * *
13057714 ATA ATA ATA AGC ATG ATA GTA ATA ATA ATA GTA AAA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
13057762 GTAAAATTAA
Statistics
Matches: 117, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
2 3 0.03
3 114 0.97
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:13058488 original size:13 final size:13
Alignment explanation
Indices: 13058456--13058494 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
13058446 TGAAGGAGGA
*
13058456 AAATAAAAGAGAAG
1 AAATAAAATA-AAG
*
13058470 AAATAAAATAAAT
1 AAATAAAATAAAG
13058483 AAATAAAATAAA
1 AAATAAAATAAA
13058495 AATAAAGACC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 14 0.61
14 9 0.39
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (13 bp):
AAATAAAATAAAG
Found at i:13059504 original size:45 final size:45
Alignment explanation
Indices: 13059121--13059790 Score: 352
Period size: 45 Copynumber: 14.9 Consensus size: 45
13059111 GACCTGTAGT
* ** ** *
13059121 TTCAATCTACTCTGCTGCAACTTCAAAGAGATAAGA-TAGCTATC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATC
* * * ** *
13059165 TTCAGTCTACTCCACTGCAACTTCAGGGGGATAAGATTTTTTTATA
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTTGCTATC
* * * * **
13059211 TTTAACCTGCTCCACTACAACTTCA-GG-G--AAGGTTTG-TGGC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATC
* * * * *
13059251 TTTAATCTACTCCATTGCAACTTCAAGGAGATAAGATTCGCCATGATAAC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-C-T-AT--C
* * * * * * *
13059301 TTCAATCTGCTCCACTGAAAATTCAAGAAGATAAAACTTG-TAAC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATC
* * *
13059345 TTCAACCTGCTCCACTGCAACTTCAAGGAGATAAGCTTTGC---C
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATC
* * * * * * **
13059387 AT-GATCTACTCTATTGCAACTTCAGAGAGATAAGATCTGTAATTTATAGC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-T-T--GCTAT--C
* * *
13059437 TTCAATTTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATC
** *
13059482 TTCAATCTGCTCCACTATAACTTCAGGGAGATAAGATTCGCTATC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATC
* * * * *
13059527 TTTAGTCTGCTCCACTGCAACTTTAGGGAGATAAGACTT--TAAC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATC
* * * * *
13059570 TTCAACCTGCTCCACTGCTACTTCAGGGAGATAAGGTTTGTTATGA
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTAT-C
* * ** *
13059616 TT-TA-CT-CT--ACTGCAACTTCAGAGAGATAAGATGTGTAATTTATAGT
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-T-T--GCTAT--C
** * * *
13059662 TTCAATCTATTCCACTACAACTTCAAGGAAATAAGATTTGCTATC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATC
* * * * * **
13059707 TTTAGTCTGCTCCATTGCAACTTCAAGGAGATAAGGTTTAG-TGGC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTT-GCTATC
*
13059752 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTT
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTT
13059791 TCCATTATAA
Statistics
Matches: 470, Mismatches: 119, Indels: 73
0.71 0.18 0.11
Matches are distributed among these distances:
40 22 0.05
41 52 0.11
42 8 0.02
43 39 0.08
44 73 0.16
45 149 0.32
46 31 0.07
47 9 0.02
48 2 0.00
49 3 0.01
50 36 0.08
51 46 0.10
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (45 bp):
TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATC
Found at i:13059602 original size:225 final size:226
Alignment explanation
Indices: 13059254--13059787 Score: 694
Period size: 225 Copynumber: 2.3 Consensus size: 226
13059244 TTGTGGCTTT
* * * * *
13059254 AATCTACTCCATTGCAACTTCAAGGAGATAAGATTCGCCATGATAACTTCAATCTGCTCCACTGA
1 AATCTGCTCCACTACAACTTCAAGGAGATAAGATTCG-C-T-AT--CTTTAATCTGCTCCACTGC
* * * *
13059319 AAATTCAAGAAGATAAAACTTGTAACTTCAACCTGCTCCACTGCAACTTCAAGGAGATAAGCTTT
61 AACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTCAAGGAGATAAGCTTT
* * *
13059384 GCCATGATCTACTCTATTGCAACTTCAGAGAGATAAGATCTGTAATTTATAGCTTCAATTTGTTC
126 GCCATGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTATAGCTTCAATCTATTC
* *
13059449 CACTGCAACTTCAGGGAAATAAGATTTGCTATCTTC
191 CACTACAACTTCAAGGAAATAAGATTTGCTATCTTC
* * *
13059485 AATCTGCTCCACTATAACTTCAGGGAGATAAGATTCGCTATCTTTAGTCTGCTCCACTGCAACTT
1 AATCTGCTCCACTACAACTTCAAGGAGATAAGATTCGCTATCTTTAATCTGCTCCACTGCAACTT
* * * * **
13059550 TAGGGAGATAAGACTT-TAACTTCAACCTGCTCCACTGCTACTTCAGGGAGATAAGGTTTGTTAT
66 CAGGGAGATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTCAAGGAGATAAGCTTTGCCAT
* * *
13059614 GATTTACTCTACTGCAACTTCAGAGAGATAAGATGTGTAATTTATAGTTTCAATCTATTCCACTA
131 GATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTATAGCTTCAATCTATTCCACTA
*
13059679 CAACTTCAAGGAAATAAGATTTGCTATCTTT
196 CAACTTCAAGGAAATAAGATTTGCTATCTTC
* * * * * **
13059710 AGTCTGCTCCATTGCAACTTCAAGGAGATAAGGTTTAG-TGGCTTTAATCTGCTCCACTGCAACT
1 AATCTGCTCCACTACAACTTCAAGGAGATAA-GATTCGCTATCTTTAATCTGCTCCACTGCAACT
13059774 TCAGGGAGATAAGA
65 TCAGGGAGATAAGA
13059788 TTTTCCATTA
Statistics
Matches: 264, Mismatches: 38, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
225 192 0.73
226 36 0.14
228 2 0.01
229 1 0.00
230 1 0.00
231 32 0.12
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (226 bp):
AATCTGCTCCACTACAACTTCAAGGAGATAAGATTCGCTATCTTTAATCTGCTCCACTGCAACTT
CAGGGAGATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTCAAGGAGATAAGCTTTGCCAT
GATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTATAGCTTCAATCTATTCCACTA
CAACTTCAAGGAAATAAGATTTGCTATCTTC
Found at i:13060245 original size:46 final size:46
Alignment explanation
Indices: 13060194--13060334 Score: 192
Period size: 46 Copynumber: 3.1 Consensus size: 46
13060184 GTTTTTTTCC
* * * *
13060194 ATCCATCCCACTGCAACTCAGGGGTACAGGATCTGTATCATCTTTA
1 ATCCATCCCACTGCAACTCAGGGGTATAGGATTTGTATCTTCTTCA
* * * *
13060240 TTCCATCCCACTGCAGCTTAGGGGTATAGGATTTATATCTTCTTCA
1 ATCCATCCCACTGCAACTCAGGGGTATAGGATTTGTATCTTCTTCA
* *
13060286 ATCCATCCCACTACAACTCGGGGGTATAGGATTTGTATCTTCTTCA
1 ATCCATCCCACTGCAACTCAGGGGTATAGGATTTGTATCTTCTTCA
13060332 ATC
1 ATC
13060335 AATTTGATCT
Statistics
Matches: 81, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
46 81 1.00
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.33
Consensus pattern (46 bp):
ATCCATCCCACTGCAACTCAGGGGTATAGGATTTGTATCTTCTTCA
Found at i:13062005 original size:40 final size:40
Alignment explanation
Indices: 13061954--13062194 Score: 308
Period size: 40 Copynumber: 6.0 Consensus size: 40
13061944 GATTTAGCCA
* *
13061954 GATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCG
1 GATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCG
*
13061994 GATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCG
1 GATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCG
* * * * *
13062034 GATATAATC-ACTAGCATAAATGTCTTCGGGACATAGCCCG
1 GATAT-AGCAACTCGCACAAATGCCTTCGGGACTTAGCCCG
13062074 GATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCG
1 GATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCG
* * * * *
13062114 AATATAGTAACTCGCACAAATGCCTTTGGGGCTTAGCCTG
1 GATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCG
*
13062154 GA-ATTAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCCG
1 GATA-TAG-CAACTCGCACAAATGCCTTCGGGACTTAGCCCG
13062194 G
1 G
13062195 TTATCATCCG
Statistics
Matches: 174, Mismatches: 23, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
39 3 0.02
40 169 0.97
41 2 0.01
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (40 bp):
GATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCG
Found at i:13062167 original size:120 final size:120
Alignment explanation
Indices: 13061954--13062194 Score: 367
Period size: 120 Copynumber: 2.0 Consensus size: 120
13061944 GATTTAGCCA
* *
13061954 GATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGCCT
1 GATATAACAACTCGCACAAATGCCTTCGGGACTTAGCCCGAATATAGCAACTCGCACAAATGCCT
* * *
13062019 TCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGTCTTCGGGACATAGCCCG
66 TCGGGGCTTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGACATAGCCCG
* *
13062074 GATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCT
1 GATATAACAACTCGCACAAATGCCTTCGGGACTTAGCCCGAATATAGCAACTCGCACAAATGCCT
* * * *
13062139 TTGGGGCTTAGCCTGGA-ATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCG
66 TCGGGGCTTAGCCCGGATA-TAATCACTAGCACAAATGCCTTCGGGACATAGCCCG
13062194 G
1 G
13062195 TTATCATCCG
Statistics
Matches: 109, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
119 1 0.01
120 108 0.99
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (120 bp):
GATATAACAACTCGCACAAATGCCTTCGGGACTTAGCCCGAATATAGCAACTCGCACAAATGCCT
TCGGGGCTTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGACATAGCCCG
Found at i:13069246 original size:40 final size:40
Alignment explanation
Indices: 13069179--13069434 Score: 333
Period size: 40 Copynumber: 6.5 Consensus size: 40
13069169 ATCCAAGTAT
* *
13069179 CTTCGGGATTTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGC
*
13069218 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGC
* * * * *
13069258 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGT
1 CTTCGGGACTTAGCCCGGATAT-AGCAACTCGCACAAATGC
*
13069298 CTTCGGGACATAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
13069338 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATAC
1 CTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
13069378 CTTCGGG-CTTAGCCTGGA-ATTAGTC-ACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATA-TAG-CAACTCGCACAAATGC
13069417 CTTCGGGACTTAGCCCGG
1 CTTCGGGACTTAGCCCGG
13069435 TTATCATCCG
Statistics
Matches: 190, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
38 1 0.01
39 45 0.24
40 142 0.75
41 2 0.01
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.23
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:13070821 original size:17 final size:16
Alignment explanation
Indices: 13070801--13070843 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
13070791 TTTTCAGCTT
13070801 AAAACCCTTTTGGTCTC
1 AAAACCCTTTT-GTCTC
*
13070818 AAAACGCCATTTGTCTC
1 AAAAC-CCTTTTGTCTC
13070835 AAAACCCTT
1 AAAACCCTT
13070844 GGCCTCTCCT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 3 0.13
17 15 0.65
18 5 0.22
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.30
Consensus pattern (16 bp):
AAAACCCTTTTGTCTC
Found at i:13073864 original size:19 final size:20
Alignment explanation
Indices: 13073849--13073894 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
13073839 TATGAAATTT
*
13073849 AATGCATATG-ATGAAATGC
1 AATGCAAATGCATGAAATGC
13073868 AATGCAAATGCATGAAATG-
1 AATGCAAATGCATGAAATGC
13073887 AATGCAAA
1 AATGCAAA
13073895 AAAGAGATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 17 0.68
20 8 0.32
ACGTcount: A:0.48, C:0.11, G:0.20, T:0.22
Consensus pattern (20 bp):
AATGCAAATGCATGAAATGC
Found at i:13075776 original size:8 final size:8
Alignment explanation
Indices: 13075763--13075788 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
13075753 AGCTAATTGT
13075763 AAAATAAA
1 AAAATAAA
13075771 AAAATAAA
1 AAAATAAA
13075779 AAAATAAA
1 AAAATAAA
13075787 AA
1 AA
13075789 TAAAATAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAATAAA
Found at i:13075779 original size:5 final size:5
Alignment explanation
Indices: 13075762--13075818 Score: 51
Period size: 5 Copynumber: 10.6 Consensus size: 5
13075752 AAGCTAATTG
* *
13075762 TAAAA TAAAA AAATAA AAAAA TAAAAA TAAAA TAAAA TATTAAA TAAAA
1 TAAAA TAAAA TAA-AA TAAAA T-AAAA TAAAA TAAAA TA--AAA TAAAA
*
13075811 CAAAA TAA
1 TAAAA TAA
13075819 GAAATGATAA
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
5 29 0.66
6 10 0.23
7 5 0.11
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (5 bp):
TAAAA
Found at i:13075805 original size:27 final size:28
Alignment explanation
Indices: 13075762--13075815 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
13075752 AAGCTAATTG
*
13075762 TAAAATAAAAAAATAAA-AAAATAAAAA
1 TAAAATAAAAAAATAAATAAAACAAAAA
* *
13075789 TAAAATAAAATATTAAATAAAACAAAA
1 TAAAATAAAAAAATAAATAAAACAAAA
13075816 TAAGAAATGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 15 0.65
28 8 0.35
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.19
Consensus pattern (28 bp):
TAAAATAAAAAAATAAATAAAACAAAAA
Found at i:13075806 original size:12 final size:11
Alignment explanation
Indices: 13075763--13075849 Score: 61
Period size: 12 Copynumber: 7.6 Consensus size: 11
13075753 AGCTAATTGT
13075763 AAAATAAAA-A
1 AAAATAAAATA
*
13075773 AATAAAAAAATA
1 AA-AATAAAATA
13075785 AAAATAAAATA
1 AAAATAAAATA
*
13075796 AAATATTAAAT-
1 AAA-ATAAAATA
*
13075807 AAAACAAAATA
1 AAAATAAAATA
*
13075818 AGAAATGATAATA
1 A-AAAT-AAAATA
*
13075831 ATAATAATAATA
1 AAAATAA-AATA
*
13075843 ATAATAA
1 AAAATAA
13075850 GAATTATAAT
Statistics
Matches: 61, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
10 7 0.11
11 22 0.36
12 26 0.43
13 6 0.10
ACGTcount: A:0.75, C:0.01, G:0.02, T:0.22
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:13075833 original size:3 final size:3
Alignment explanation
Indices: 13075825--13075881 Score: 71
Period size: 3 Copynumber: 19.0 Consensus size: 3
13075815 ATAAGAAATG
* * *
13075825 ATA ATA ATA ATA ATA ATA ATA ATA AGA ATT ATA ATT ATA ATTA A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA
13075870 ATA ATA ATA ATA
1 ATA ATA ATA ATA
13075882 TAAATTTTGA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
2 2 0.04
3 41 0.89
4 3 0.07
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:13075876 original size:12 final size:12
Alignment explanation
Indices: 13075785--13075877 Score: 52
Period size: 12 Copynumber: 7.9 Consensus size: 12
13075775 TAAAAAAATA
13075785 AAAATAA-AA-T
1 AAAATAATAATT
* *
13075795 AAAATATTAAAT
1 AAAATAATAATT
* *
13075807 AAAACAA-AATA
1 AAAATAATAATT
*
13075818 AGAAATGATAA-T
1 A-AAATAATAATT
13075830 AATAATAATAA-T
1 AA-AATAATAATT
*
13075842 AATAATAAGAATT
1 AA-AATAATAATT
* *
13075855 ATAATTATAATT
1 AAAATAATAATT
13075867 AAAATAATAAT
1 AAAATAATAAT
13075878 AATATAAATT
Statistics
Matches: 62, Mismatches: 15, Indels: 10
0.71 0.17 0.11
Matches are distributed among these distances:
10 6 0.10
11 6 0.10
12 46 0.74
13 4 0.06
ACGTcount: A:0.67, C:0.01, G:0.03, T:0.29
Consensus pattern (12 bp):
AAAATAATAATT
Found at i:13076061 original size:3 final size:3
Alignment explanation
Indices: 13076053--13076151 Score: 146
Period size: 3 Copynumber: 32.7 Consensus size: 3
13076043 TGAAACAATG
13076053 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
13076101 ATA ATA ATA ATA ATA ATA ATA ATG ATA A-A ATTA ATTA ATT TTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA A-TA ATA ATA ATA
13076147 ATA AT
1 ATA AT
13076152 GTGGCTAAAT
Statistics
Matches: 88, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
2 2 0.02
3 80 0.91
4 6 0.07
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:13079915 original size:2 final size:2
Alignment explanation
Indices: 13079908--13079934 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
13079898 AACAATCATC
13079908 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
13079935 CCATGGTAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:13082147 original size:14 final size:14
Alignment explanation
Indices: 13082128--13082186 Score: 59
Period size: 14 Copynumber: 4.2 Consensus size: 14
13082118 AGATCAAATC
13082128 AAAATTTCATATAT
1 AAAATTTCATATAT
*
13082142 AAAATTTCATAAAATT
1 AAAATTTCAT-ATA-T
13082158 AAAATTT-ATATAT
1 AAAATTTCATATAT
* *
13082171 ACAATTACATAT-T
1 AAAATTTCATATAT
13082184 AAA
1 AAA
13082187 CTATAATTCA
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
13 9 0.24
14 16 0.43
15 4 0.11
16 8 0.22
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (14 bp):
AAAATTTCATATAT
Found at i:13082181 original size:29 final size:30
Alignment explanation
Indices: 13082108--13082181 Score: 89
Period size: 29 Copynumber: 2.5 Consensus size: 30
13082098 ATTAATTATT
* *
13082108 TATA-AAAATTAGATCAAATCAAAATTTCA
1 TATATAAAATTACATAAAATCAAAATTTCA
* *
13082137 TATATAAAATTTCATAAAATTAAAATTT-A
1 TATATAAAATTACATAAAATCAAAATTTCA
*
13082166 TATATACAATTACATA
1 TATATAAAATTACATA
13082182 TTAAACTATA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 19 0.50
30 19 0.50
ACGTcount: A:0.54, C:0.08, G:0.01, T:0.36
Consensus pattern (30 bp):
TATATAAAATTACATAAAATCAAAATTTCA
Found at i:13082200 original size:31 final size:29
Alignment explanation
Indices: 13082128--13082203 Score: 80
Period size: 29 Copynumber: 2.5 Consensus size: 29
13082118 AGATCAAATC
* *
13082128 AAAATTTCATATATAAAATTTCATAAAATT
1 AAAA-TTCATATATAAAATTACATAAAACT
* *
13082158 AAAATTTATATATACAATTACATATTAAACT
1 AAAATTCATATATAAAATTACATA--AAACT
*
13082189 ATAATTCATATATAA
1 AAAATTCATATATAA
13082204 TTTTAAGATT
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
29 17 0.46
30 4 0.11
31 16 0.43
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.39
Consensus pattern (29 bp):
AAAATTCATATATAAAATTACATAAAACT
Found at i:13088004 original size:2 final size:2
Alignment explanation
Indices: 13087997--13088021 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13087987 AAGTCTTAAT
13087997 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
13088022 TTAATCAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:13090189 original size:46 final size:45
Alignment explanation
Indices: 13090116--13090291 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 45
13090106 TATTTGGGCA
13090116 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * * * *
13090162 TTCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAA-T--G
* *
13090207 CATCCGAGCTCGTTGAGTTGATTCCGAGTTCACTTATGGATGTGAACG
1 --TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
*
13090255 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
13090292 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.58
47 26 0.24
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.31
Consensus pattern (45 bp):
TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATG
Found at i:13090271 original size:93 final size:93
Alignment explanation
Indices: 13090112--13090283 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
13090102 GGAATATTTG
* **
13090112 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
13090177 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * *
13090205 GGCATCCGAGCTCGTTGAGTTGATTCCGAGTTCACTTATGGATGTGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
13090270 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
13090284 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (93 bp):
GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:13097807 original size:13 final size:13
Alignment explanation
Indices: 13097789--13097815 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
13097779 GCTCAATAGG
13097789 GACACGCCCGTGT
1 GACACGCCCGTGT
13097802 GACACGCCCGTGT
1 GACACGCCCGTGT
13097815 G
1 G
13097816 CGATTACTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:13101583 original size:27 final size:26
Alignment explanation
Indices: 13101527--13101583 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
13101517 CAACCTTAAC
* * *
13101527 CCTAGGGGTATATCAGTAATTTTGCT
1 CCTAGGGGTAAATCAGTAATTTTCCA
*
13101553 CCTAGGGGTAAATCTGTAAATTTTCCA
1 CCTAGGGGTAAATCAGT-AATTTTCCA
13101580 CCTA
1 CCTA
13101584 TAAAGGTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 15 0.58
27 11 0.42
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.35
Consensus pattern (26 bp):
CCTAGGGGTAAATCAGTAATTTTCCA
Found at i:13105865 original size:49 final size:50
Alignment explanation
Indices: 13105792--13106020 Score: 309
Period size: 49 Copynumber: 4.6 Consensus size: 50
13105782 ATCTATTGTG
13105792 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * * *
13105842 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TT
* * * * **
13105892 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* *
13105942 AGGTCATGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* *
13105992 -GGTCGCATGTGTAGTACTAAGTGCAGGCT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCT
13106021 GCAATGCGTA
Statistics
Matches: 154, Mismatches: 23, Indels: 5
0.85 0.13 0.03
Matches are distributed among these distances:
49 69 0.45
50 46 0.30
51 39 0.25
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (50 bp):
AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
Found at i:13105983 original size:101 final size:98
Alignment explanation
Indices: 13105795--13106020 Score: 326
Period size: 100 Copynumber: 2.3 Consensus size: 98
13105785 TATTGTGAGG
*
13105795 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTGTAGTACT
13105860 AAGTGCAGGCTACTATGCGTACCCGATAACTTCGA
66 AAGTGCAGGCTACTATGCGTACCCGATAA-TT-GA
* ** **
13105895 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCATGTGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACATGTGTAGTAC
* * *
13105960 TAAGTGCAGGCTACTATGTGTACCGGATAATTGG
65 TAAGTGCAGGCTACTATGCGTACCCGATAATTGA
* *
13105994 TCGCATGTGTAGTACTAAGTGCAGGCT
1 TCACGTGTGTAGTACTAAGTGCAGGCT
13106021 GCAATGCGTA
Statistics
Matches: 114, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
99 26 0.23
100 45 0.39
101 43 0.38
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (98 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTGTAGTACT
AAGTGCAGGCTACTATGCGTACCCGATAATTGA
Found at i:13108623 original size:42 final size:42
Alignment explanation
Indices: 13108541--13108636 Score: 102
Period size: 42 Copynumber: 2.3 Consensus size: 42
13108531 ACGGCCAGAG
* * ****
13108541 ACACGGACGTGTCAATAGCTGTATGAGGCACATGGTCTGTTC
1 ACACGGGCGTGTCAATAGCCGTATGAGGCACACAACCTGTTC
**
13108583 ACACGGGCGTGTCTGTAGCCGTATGAGGCACACAACCTGTTC
1 ACACGGGCGTGTCAATAGCCGTATGAGGCACACAACCTGTTC
* *
13108625 AAACGAGCGTGT
1 ACACGGGCGTGT
13108637 GACCTCTGTA
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.23
Consensus pattern (42 bp):
ACACGGGCGTGTCAATAGCCGTATGAGGCACACAACCTGTTC
Found at i:13116048 original size:66 final size:64
Alignment explanation
Indices: 13115947--13116087 Score: 176
Period size: 66 Copynumber: 2.2 Consensus size: 64
13115937 GTCTCACACG
* *
13115947 CGGGCGTGTGACTGGCCATGTGGTACAAGTTAGTATACCCCCTA-ATTGGCACACAGCCTAGCAC
1 CGGGCGTGTGACTGGCCATGTGGCACAAGTTAGTATACCCCATAGATTGG--CACAGCCTAGCAC
13116011 A
64 A
* * * *
13116012 CGGGCGTGTGACTTGTCCATGTGGCATAAGTTAGTATACCCTATAGGTTTGGCACAGCCTAGCAC
1 CGGGCGTGTGAC-TGGCCATGTGGCACAAGTTAGTATACCCCATA-GATTGGCACAGCCTAGCAC
13116077 A
64 A
*
13116078 CGAGCGTGTG
1 CGGGCGTGTG
13116088 TGGCCACTTC
Statistics
Matches: 66, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
65 12 0.18
66 50 0.76
68 4 0.06
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (64 bp):
CGGGCGTGTGACTGGCCATGTGGCACAAGTTAGTATACCCCATAGATTGGCACAGCCTAGCACA
Found at i:13117218 original size:18 final size:18
Alignment explanation
Indices: 13117191--13117226 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
13117181 AATATGAAAT
* *
13117191 AAAAATAAAAATAAGAAG
1 AAAAAGAAAAAGAAGAAG
13117209 AAAAAGAAAAAGAAGAAG
1 AAAAAGAAAAAGAAGAAG
13117227 TGTTGAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.06
Consensus pattern (18 bp):
AAAAAGAAAAAGAAGAAG
Found at i:13138710 original size:43 final size:43
Alignment explanation
Indices: 13138625--13138710 Score: 102
Period size: 43 Copynumber: 2.0 Consensus size: 43
13138615 AAATCGTACA
* * **
13138625 ATGCCAATGTCCCGGACATGGTCTTACATGTAGCCACATATCG
1 ATGCCAATGTCCCAGACAGGGTCTTACATGTAAACACATATCG
* *
13138668 ATGCCACTGTCCCAGACAGGGTCTTAC-TCGTAAACACTTATCG
1 ATGCCAATGTCCCAGACAGGGTCTTACAT-GTAAACACATATCG
13138711 GAATCACAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
42 1 0.03
43 35 0.97
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.26
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACAGGGTCTTACATGTAAACACATATCG
Found at i:13146341 original size:70 final size:70
Alignment explanation
Indices: 13146183--13146468 Score: 243
Period size: 70 Copynumber: 4.1 Consensus size: 70
13146173 TACAACACGA
* * ** *
13146183 AAGTTCAATTCCGCAG-CTTCAAAAGTAGTTAATGAGAACTCAGGCTCCCAGCTATAATCTTAAG
1 AAGTTCAATACCGCAGCCTCCAAAA-TAGTTAGCGAGAACTCAGGCTCCCAACTATAATCTTAAG
*
13146247 GATCAC
65 GCTCAC
* * * ** * * * *
13146253 ACGTTTAGTATTGTAGCCTCTAAAATAGTTAGCGAGATCT-AGAGCTCCCAACTGTAATCTTAAG
1 AAGTTCAATACCGCAGCCTCCAAAATAGTTAGCGAGAACTCAG-GCTCCCAACTATAATCTTAAG
*
13146317 GCTCGC
65 GCTCAC
* * * * * * * * *
13146323 AAGTTCAATACCGCAGCCTCCAAAACAGTTAGCAAGATCTAAAGTTCCTAGCTACAATCTTAAGG
1 AAGTTCAATACCGCAGCCTCCAAAATAGTTAGCGAGAACTCAGGCTCCCAACTATAATCTTAAGG
13146388 CTCAC
66 CTCAC
** * * * *
13146393 GGGTTGAATACCGCAGCCTCCAAAATAGTTAGTGAGAACTCAGGCTCCCAACTGTAATCTTCAGG
1 AAGTTCAATACCGCAGCCTCCAAAATAGTTAGCGAGAACTCAGGCTCCCAACTATAATCTTAAGG
**
13146458 CTTGC
66 CTCAC
13146463 AAGTTC
1 AAGTTC
13146469 GAACAATGTG
Statistics
Matches: 161, Mismatches: 52, Indels: 6
0.74 0.24 0.03
Matches are distributed among these distances:
69 2 0.01
70 152 0.94
71 7 0.04
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (70 bp):
AAGTTCAATACCGCAGCCTCCAAAATAGTTAGCGAGAACTCAGGCTCCCAACTATAATCTTAAGG
CTCAC
Found at i:13152457 original size:46 final size:44
Alignment explanation
Indices: 13152403--13152512 Score: 139
Period size: 44 Copynumber: 2.5 Consensus size: 44
13152393 ACAGAACAGA
*
13152403 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGAAAGG
1 AATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAGAAAGG
* * *
13152449 ATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAGAAAGG
* **
13152493 AATAATTCATGTAAGTCCAT
1 AATGAGCCATGTAAGTCCAT
13152513 GTCAAAGACA
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
44 34 0.61
46 22 0.39
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.29
Consensus pattern (44 bp):
AATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAGAAAGG
Found at i:13152504 original size:44 final size:45
Alignment explanation
Indices: 13152407--13152531 Score: 135
Period size: 44 Copynumber: 2.8 Consensus size: 45
13152397 AACAGAAATG
* * *
13152407 AGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGAAAGGATTG
1 AGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGAAAGGAATA
* *
13152453 AGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGGAATA
1 AGCCATGTAAGTCCATATTAAAATATGGCATTGGAGAAAGGAATA
** * * *
13152497 ATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
13152532 CAGGATATTG
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
44 35 0.53
45 1 0.02
46 30 0.45
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AGCCATGTAAGTCCATATTAAAATATGGCATTGGAGAAAGGAATA
Found at i:13161614 original size:24 final size:24
Alignment explanation
Indices: 13161569--13161614 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
13161559 AAAAAAATTA
*
13161569 AATACATAAATACATTAGATTAGT
1 AATACATAAATACATTAAATTAGT
13161593 AATACA-AAATACATTACAATTA
1 AATACATAAATACATTA-AATTA
13161615 TTTATCATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.54, C:0.11, G:0.04, T:0.30
Consensus pattern (24 bp):
AATACATAAATACATTAAATTAGT
Found at i:13166959 original size:14 final size:13
Alignment explanation
Indices: 13166930--13166964 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
13166920 ATTATTGAAA
*
13166930 AATATTCAATATT
1 AATATTTAATATT
13166943 AATATTTAATAATT
1 AATATTTAAT-ATT
13166957 AATATTTA
1 AATATTTA
13166965 TTACAATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 9 0.45
14 11 0.55
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (13 bp):
AATATTTAATATT
Found at i:13167855 original size:14 final size:14
Alignment explanation
Indices: 13167836--13167862 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
13167826 TAGAAGTAAG
13167836 TCATTTTCCAAAAA
1 TCATTTTCCAAAAA
13167850 TCATTTTCCAAAA
1 TCATTTTCCAAAA
13167863 GCCATTTTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.22, G:0.00, T:0.37
Consensus pattern (14 bp):
TCATTTTCCAAAAA
Found at i:13167868 original size:14 final size:14
Alignment explanation
Indices: 13167837--13167871 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
13167827 AGAAGTAAGT
*
13167837 CATTTTCCAAAAAT
1 CATTTTCCAAAAAC
*
13167851 CATTTTCCAAAAGC
1 CATTTTCCAAAAAC
13167865 CATTTTC
1 CATTTTC
13167872 AATAAAACAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.34, C:0.26, G:0.03, T:0.37
Consensus pattern (14 bp):
CATTTTCCAAAAAC
Found at i:13178415 original size:18 final size:18
Alignment explanation
Indices: 13178370--13178416 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
13178360 TCGATTTGGG
13178370 AGGAGCTGGAGTTGAGGC
1 AGGAGCTGGAGTTGAGGC
*
13178388 AGCAGCTGGAGTTG-GAGC
1 AGGAGCTGGAGTTGAG-GC
*
13178406 AGGAGGTGGAG
1 AGGAGCTGGAG
13178417 CAGATGGGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 1 0.04
18 24 0.96
ACGTcount: A:0.23, C:0.11, G:0.51, T:0.15
Consensus pattern (18 bp):
AGGAGCTGGAGTTGAGGC
Found at i:13184655 original size:17 final size:17
Alignment explanation
Indices: 13184633--13184678 Score: 83
Period size: 17 Copynumber: 2.7 Consensus size: 17
13184623 TATACTAAGT
13184633 ATCAAATTCACATTTAA
1 ATCAAATTCACATTTAA
13184650 ATCAAATTCACATTTAA
1 ATCAAATTCACATTTAA
*
13184667 ATCAATTTCACA
1 ATCAAATTCACA
13184679 AAAATCTGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.46, C:0.20, G:0.00, T:0.35
Consensus pattern (17 bp):
ATCAAATTCACATTTAA
Found at i:13189883 original size:80 final size:80
Alignment explanation
Indices: 13189799--13189947 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
13189789 TATGGTAACC
* * * *
13189799 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
13189863 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
13189879 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
13189944 CCGG
66 CCGG
13189948 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:13189889 original size:40 final size:38
Alignment explanation
Indices: 13189840--13189947 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
13189830 ATCACGATTT
*
13189840 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
13189880 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
13189920 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
13189948 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:13200756 original size:30 final size:29
Alignment explanation
Indices: 13200662--13200763 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
13200652 TATAGTGAAT
* * *
13200662 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
13200691 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
13200719 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
13200749 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
13200764 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:13211720 original size:20 final size:20
Alignment explanation
Indices: 13211695--13211744 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
13211685 AATTTAGAAT
**
13211695 CATACAACAACATTGGTTTG
1 CATACAACAACACAGGTTTG
* *
13211715 CATACAATAATACAGGTTTG
1 CATACAACAACACAGGTTTG
13211735 CATACTAACA
1 CATAC-AACA
13211745 CTCTTTATAG
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 21 0.88
21 3 0.12
ACGTcount: A:0.40, C:0.20, G:0.12, T:0.28
Consensus pattern (20 bp):
CATACAACAACACAGGTTTG
Found at i:13214546 original size:22 final size:23
Alignment explanation
Indices: 13214511--13214571 Score: 63
Period size: 24 Copynumber: 2.6 Consensus size: 23
13214501 TACTTTATCC
*
13214511 ATTTTTATTGTTATTGTAATT-TA
1 ATTTTTCTT-TTATTGTAATTATA
*
13214534 ATTTTGT-TTTTATTTTAATTACTA
1 ATTTT-TCTTTTATTGTAATTA-TA
13214558 ATTTTTCTTTTATT
1 ATTTTTCTTTTATT
13214572 TGCTTCTGGC
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
22 10 0.30
23 8 0.24
24 15 0.45
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.69
Consensus pattern (23 bp):
ATTTTTCTTTTATTGTAATTATA
Found at i:13230569 original size:18 final size:18
Alignment explanation
Indices: 13230542--13230581 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
13230532 TTTCACTTTG
*
13230542 TTTTACTTTTCCTTTTAT
1 TTTTACTTTTACTTTTAT
* *
13230560 TTTTATTTTTATTTTTAT
1 TTTTACTTTTACTTTTAT
13230578 TTTT
1 TTTT
13230582 CAAGTTTTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.12, C:0.07, G:0.00, T:0.80
Consensus pattern (18 bp):
TTTTACTTTTACTTTTAT
Found at i:13230581 original size:6 final size:6
Alignment explanation
Indices: 13230554--13230581 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
13230544 TTACTTTTCC
13230554 TTTTAT TTTTAT TTTTAT TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTT
13230582 CAAGTTTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTAT
Found at i:13235223 original size:25 final size:25
Alignment explanation
Indices: 13235181--13235255 Score: 107
Period size: 25 Copynumber: 3.0 Consensus size: 25
13235171 CTTACCAGCC
*
13235181 ATAATCGATAAGCTCATACGAGCTG
1 ATAATCGGTAAGCTCATACGAGCTG
*
13235206 A-AATACGGTAAGCTCATACGAGCTA
1 ATAAT-CGGTAAGCTCATACGAGCTG
*
13235231 ATAATTGGTAAGCTCATACGAGCTG
1 ATAATCGGTAAGCTCATACGAGCTG
13235256 TGGTGAGTCC
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
24 3 0.07
25 38 0.86
26 3 0.07
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (25 bp):
ATAATCGGTAAGCTCATACGAGCTG
Found at i:13247506 original size:33 final size:33
Alignment explanation
Indices: 13247464--13247529 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
13247454 GCATATAGTA
* * *
13247464 ACAGTCTGGGCCTGGGCCCTATTCAGTATCAGT
1 ACAGTCTGGGCCTGAGCCCTATACAGTAACAGT
*
13247497 ACAGTCTGGGCCTTAGCCCTATACAGTAACAGT
1 ACAGTCTGGGCCTGAGCCCTATACAGTAACAGT
13247530 GTGAGCCTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (33 bp):
ACAGTCTGGGCCTGAGCCCTATACAGTAACAGT
Found at i:13249246 original size:24 final size:23
Alignment explanation
Indices: 13249210--13249259 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
13249200 CTGCAACTTC
*
13249210 AAAATGCCAAAAA-AAAACTAGAG
1 AAAATGCCAAAAACAAAA-AAGAG
*
13249233 AAAATTGCCGAAAACAAAAAAGAG
1 AAAA-TGCCAAAAACAAAAAAGAG
13249257 AAA
1 AAA
13249260 CAAGCAACAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 4 0.17
24 15 0.65
25 4 0.17
ACGTcount: A:0.66, C:0.12, G:0.14, T:0.08
Consensus pattern (23 bp):
AAAATGCCAAAAACAAAAAAGAG
Found at i:13250387 original size:27 final size:27
Alignment explanation
Indices: 13250300--13250570 Score: 195
Period size: 27 Copynumber: 10.1 Consensus size: 27
13250290 AACCACCTTC
* *
13250300 GCGAGCTTGGCTCGCCAAAAGACATCT
1 GCGAGCTTGGCTCGCCAAAACATATCT
* * *
13250327 GCAAG-TATGGCTCGCTAAAACATATTT
1 GCGAGCT-TGGCTCGCCAAAACATATCT
* *
13250354 GTGAGCTTAGCTCGCCAAAACATATCT
1 GCGAGCTTGGCTCGCCAAAACATATCT
* * * *
13250381 GCAAGCTTGGCTCGCCAATATATACCT
1 GCGAGCTTGGCTCGCCAAAACATATCT
* *
13250408 GCGATCTTGGCTCGCCAAAGCATATCT
1 GCGAGCTTGGCTCGCCAAAACATATCT
* * * ** * *
13250435 ACCAGCATATCTCGTCAATACATATCT
1 GCGAGCTTGGCTCGCCAAAACATATCT
* * * *** *
13250462 GTGAACGTGGCTTAACAAAACATATTT
1 GCGAGCTTGGCTCGCCAAAACATATCT
* *
13250489 ACGAGCTTGGCTTGCCAAAACATATCT
1 GCGAGCTTGGCTCGCCAAAACATATCT
* * *
13250516 GCGATCTTGGCTCGCCAAAGCATATTT
1 GCGAGCTTGGCTCGCCAAAACATATCT
* * **
13250543 GCGAGCATGACTCATCAAAA-ATATCT
1 GCGAGCTTGGCTCGCCAAAACATATCT
13250569 GC
1 GC
13250571 ATCTCATGTT
Statistics
Matches: 180, Mismatches: 62, Indels: 5
0.73 0.25 0.02
Matches are distributed among these distances:
26 8 0.04
27 171 0.95
28 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (27 bp):
GCGAGCTTGGCTCGCCAAAACATATCT
Found at i:13254065 original size:50 final size:50
Alignment explanation
Indices: 13253985--13254082 Score: 187
Period size: 50 Copynumber: 2.0 Consensus size: 50
13253975 TATATTTCTT
13253985 TCGGAACTCCTGTTGAAAGAATTCCCATATGACCCTTTCTTTCGGAACCA
1 TCGGAACTCCTGTTGAAAGAATTCCCATATGACCCTTTCTTTCGGAACCA
*
13254035 TCGGAACTCCTGTTGAAAGAATTCCTATATGACCCTTTCTTTCGGAAC
1 TCGGAACTCCTGTTGAAAGAATTCCCATATGACCCTTTCTTTCGGAAC
13254083 TACCGAAACT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.32
Consensus pattern (50 bp):
TCGGAACTCCTGTTGAAAGAATTCCCATATGACCCTTTCTTTCGGAACCA
Found at i:13255132 original size:21 final size:20
Alignment explanation
Indices: 13255103--13255141 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
13255093 ACTAGTTTAA
*
13255103 TAAGTTAATCATTAATTATT
1 TAAGTTAATCACTAATTATT
*
13255123 TAAGATTAATTACTAATTA
1 TAAG-TTAATCACTAATTA
13255142 AGTTAAGTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (20 bp):
TAAGTTAATCACTAATTATT
Found at i:13270184 original size:29 final size:29
Alignment explanation
Indices: 13270142--13270242 Score: 107
Period size: 29 Copynumber: 3.5 Consensus size: 29
13270132 GACAAGATTG
* *
13270142 GCACTAAGTGTGCGGGTTAAAATTGTACA
1 GCACTAAGTGTGCGGGTTAAAATTATATA
* ** *
13270171 GCACTAAGTGTGCGAGTT-TGATTCTATA
1 GCACTAAGTGTGCGGGTTAAAATTATATA
* *
13270199 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCG-GGTTAAAATTATATA
13270228 GCACTAAGTGTGCGG
1 GCACTAAGTGTGCGG
13270243 ATTCACTATA
Statistics
Matches: 59, Mismatches: 11, Indels: 5
0.79 0.15 0.07
Matches are distributed among these distances:
28 21 0.36
29 37 0.63
30 1 0.02
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.28
Consensus pattern (29 bp):
GCACTAAGTGTGCGGGTTAAAATTATATA
Found at i:13278045 original size:30 final size:30
Alignment explanation
Indices: 13278009--13278109 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
13277999 GACAAGATTG
* * *
13278009 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
13278039 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
13278067 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
13278096 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
13278110 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:13278121 original size:29 final size:28
Alignment explanation
Indices: 13278038--13278113 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
13278028 AAAATTGTAC
* *
13278038 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
13278066 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
13278095 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
13278114 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:13284881 original size:27 final size:27
Alignment explanation
Indices: 13284843--13285071 Score: 280
Period size: 27 Copynumber: 8.4 Consensus size: 27
13284833 AACGCCAGAA
* * * *
13284843 AAATAGAAGCCTTTATGGTGATCTAAA
1 AAATGGAAGCCTTTGTGGCGATCTAAG
*
13284870 AAATGGATGCCTTTGTGGCGATCTAAG
1 AAATGGAAGCCTTTGTGGCGATCTAAG
*
13284897 AAATGGAAGCCTTTGTGGCAATCTAAG
1 AAATGGAAGCCTTTGTGGCGATCTAAG
* ** *
13284924 AAATGAAAGCCTTCATGGCAATCTAAG
1 AAATGGAAGCCTTTGTGGCGATCTAAG
*
13284951 AAATGGAAG-CTTTAGTGGCAATCTAAG
1 AAATGGAAGCCTTT-GTGGCGATCTAAG
*
13284978 AAATGGAAGCCTTTGTGGCGATCTAAAAA
1 AAATGGAAGCCTTTGTGGCGATCT--AAG
* *
13285007 AAATGGAAGCCTTTGTGGTGATCTAAAA
1 AAATGGAAGCCTTTGTGGCGATCT-AAG
*
13285035 AAATGGAAGCCTCTGTGGCGATCTAAG
1 AAATGGAAGCCTTTGTGGCGATCTAAG
13285062 AAATGGAAGC
1 AAATGGAAGC
13285072 TTTCATGGAA
Statistics
Matches: 179, Mismatches: 19, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
26 3 0.02
27 121 0.68
28 30 0.17
29 25 0.14
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (27 bp):
AAATGGAAGCCTTTGTGGCGATCTAAG
Found at i:13285123 original size:111 final size:108
Alignment explanation
Indices: 13284863--13285123 Score: 280
Period size: 111 Copynumber: 2.4 Consensus size: 108
13284853 CTTTATGGTG
* *
13284863 ATCTAAAAAATGGATGCCTTTGTGGCGATCT-AAGAAATGGAAGCCTTTGTGGCAATCTAAGAAA
1 ATCTAAGAAATGGATGCCTTTGTGGCGATCTAAAG-AATGGAAGCCTTTGTGGCAATCTAAAAAA
*
13284927 TGAAAGCCTTCATGGCAATCTAAGAAATGGAAGCTTTAGTGGCA
65 TGAAAGCCTTCATGGCAATCTAAGAAATGGAAGCTTTAGTGGAA
* * **
13284971 ATCTAAGAAATGGAAGCCTTTGTGGCGATCTAAAAAAAATGGAAGCCTTTGTGGTGATCTAAAAA
1 ATCTAAGAAATGGATGCCTTTGTGGCGATCT--AAAGAATGGAAGCCTTTGTGGCAATCT-AAAA
* * *
13285036 AATGGAAGCC-TCTGTGGCGATCTAAGAAATGGAAGCTTTCA-TGGAAA
63 AATGAAAGCCTTC-ATGGCAATCTAAGAAATGGAAGCTTT-AGTGG-AA
* * *
13285083 ATCT-TGTAAA-GGATGCCTTTATGGTGCACTCTAAAGAATGG
1 ATCTAAG-AAATGGATGCCTTTGTGGCG-A-TCTAAAGAATGG
13285124 CCCTTGTGGC
Statistics
Matches: 128, Mismatches: 15, Indels: 17
0.80 0.09 0.11
Matches are distributed among these distances:
108 29 0.23
110 23 0.18
111 63 0.49
112 10 0.08
113 3 0.02
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.26
Consensus pattern (108 bp):
ATCTAAGAAATGGATGCCTTTGTGGCGATCTAAAGAATGGAAGCCTTTGTGGCAATCTAAAAAAT
GAAAGCCTTCATGGCAATCTAAGAAATGGAAGCTTTAGTGGAA
Found at i:13290380 original size:22 final size:22
Alignment explanation
Indices: 13290354--13290396 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
13290344 TTTAAGAATT
13290354 TAATTTATATATTTT-TATTTTA
1 TAATTTATAT-TTTTCTATTTTA
*
13290376 TAATTTTTATTTTTCTATTTT
1 TAATTTATATTTTTCTATTTT
13290397 TTTCAAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (22 bp):
TAATTTATATTTTTCTATTTTA
Found at i:13290381 original size:14 final size:15
Alignment explanation
Indices: 13290352--13290397 Score: 60
Period size: 14 Copynumber: 3.2 Consensus size: 15
13290342 AATTTAAGAA
*
13290352 TTTAATTTATATATT
1 TTTATTTTATATATT
13290367 TTTATTTTATA-ATT
1 TTTATTTTATATATT
*
13290381 TTTATTTT-TCTATT
1 TTTATTTTATATATT
13290395 TTT
1 TTT
13290398 TTCAAATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
13 1 0.04
14 17 0.61
15 10 0.36
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTATTTTATATATT
Found at i:13302099 original size:40 final size:40
Alignment explanation
Indices: 13302033--13302199 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
13302023 AAATTGAATG
* * *
13302033 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
13302072 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
13302112 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
13302152 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
13302192 ATATCCGG
1 ATATCCGG
13302200 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:13321116 original size:24 final size:24
Alignment explanation
Indices: 13321069--13321186 Score: 154
Period size: 23 Copynumber: 5.0 Consensus size: 24
13321059 GCTTTATCAT
*
13321069 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
13321094 ATAACTGGGGCA-AAGCCCTTTTTA
1 ATAACTGGGGCATAAGCCC-TTTTA
13321118 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* *
13321141 ATAATTAGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
13321164 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
13321187 GCACTTCCTC
Statistics
Matches: 84, Mismatches: 5, Indels: 9
0.86 0.05 0.09
Matches are distributed among these distances:
23 43 0.51
24 27 0.32
25 14 0.17
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:13321264 original size:20 final size:20
Alignment explanation
Indices: 13321232--13321302 Score: 97
Period size: 20 Copynumber: 3.5 Consensus size: 20
13321222 GCATTTATGA
* *
13321232 ACATCTCATGTGCATATGAT
1 ACATATCATGTGCATATCAT
*
13321252 ACATATCAGGTGCATATCAT
1 ACATATCATGTGCATATCAT
* *
13321272 ACATGTCATGTGCATATCAC
1 ACATATCATGTGCATATCAT
13321292 ACATATCATGT
1 ACATATCATGT
13321303 TTATCAAATC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.32
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Done.