Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
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: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 22 of 205
Found at i:6709709 original size:25 final size:24
Alignment explanation
Indices: 6709534--6709723 Score: 107
Period size: 25 Copynumber: 7.8 Consensus size: 24
6709524 AGCATGTAAT
* **
6709534 CGGGAAGCTCTTTCGAGCCATGTAA
1 CGGGAAGCTCATGAGAGCCAT-TAA
** * *
6709559 CTAGAAGCTCATGTGAGCTATATAA
1 CGGGAAGCTCATGAGAGCCAT-TAA
* *
6709584 CGGGAAGCTCTTGCA-AGCCAATTAT
1 CGGGAAGCTCATG-AGAGCC-ATTAA
** * *
6709609 CAAGAAGCTCA-AACGAGCCATAAA
1 CGGGAAGCTCATGA-GAGCCATTAA
*
6709633 CGGGAAGCTCATAAGAGCCA-TAA
1 CGGGAAGCTCATGAGAGCCATTAA
* * * *
6709656 TCGGAAAGCTCATGCGAGCCAATAT
1 -CGGGAAGCTCATGAGAGCCATTAA
*
6709681 CGGGAAGCTCGTGAGAGCCATGTAA
1 CGGGAAGCTCATGAGAGCCAT-TAA
* *
6709706 CGGGATGCTCATAAGAGC
1 CGGGAAGCTCATGAGAGC
6709724 TAAATAACGG
Statistics
Matches: 123, Mismatches: 34, Indels: 16
0.71 0.20 0.09
Matches are distributed among these distances:
23 3 0.02
24 52 0.42
25 66 0.54
26 2 0.02
ACGTcount: A:0.33, C:0.22, G:0.26, T:0.19
Consensus pattern (24 bp):
CGGGAAGCTCATGAGAGCCATTAA
Found at i:6711993 original size:8 final size:8
Alignment explanation
Indices: 6711980--6712009 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
6711970 AGGAAGAAGC
6711980 AAAAAGGA
1 AAAAAGGA
6711988 AAAAAGGA
1 AAAAAGGA
6711996 AAAAAGGGA
1 AAAAA-GGA
6712005 AAAAA
1 AAAAA
6712010 TAAGCCATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (8 bp):
AAAAAGGA
Found at i:6713274 original size:12 final size:13
Alignment explanation
Indices: 6713257--6713286 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
6713247 AAAGAAATAG
6713257 AAAAAT-AATCTA
1 AAAAATAAATCTA
6713269 AAAAATAAATCTA
1 AAAAATAAATCTA
6713282 AAAAA
1 AAAAA
6713287 CTTATCGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.35
13 11 0.65
ACGTcount: A:0.73, C:0.07, G:0.00, T:0.20
Consensus pattern (13 bp):
AAAAATAAATCTA
Found at i:6721359 original size:20 final size:19
Alignment explanation
Indices: 6721312--6721360 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
6721302 TATGAAAAAT
6721312 AAAATAAAAATAAATTCAA
1 AAAATAAAAATAAATTCAA
* *
6721331 AAATGTAAAAATAAATTTAA
1 AAA-ATAAAAATAAATTCAA
6721351 GAAAATAAAA
1 -AAAATAAAA
6721361 CAAATGGATA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 3 0.12
20 19 0.76
21 3 0.12
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.22
Consensus pattern (19 bp):
AAAATAAAAATAAATTCAA
Found at i:6722248 original size:13 final size:13
Alignment explanation
Indices: 6722230--6722262 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
6722220 CTGCCTAATT
6722230 CTAAATATTATCA
1 CTAAATATTATCA
6722243 CTAAATATTATCA
1 CTAAATATTATCA
6722256 CTAAATA
1 CTAAATA
6722263 ATTCTAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.36
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:6726025 original size:24 final size:24
Alignment explanation
Indices: 6725991--6726067 Score: 136
Period size: 24 Copynumber: 3.2 Consensus size: 24
6725981 ACATAGTCGA
*
6725991 AAAATACACTTACTATACACCTCT
1 AAAATATACTTACTATACACCTCT
6726015 AAAATATACTTACTATACACCTCT
1 AAAATATACTTACTATACACCTCT
*
6726039 AACATATACTTACTATACACCTCT
1 AAAATATACTTACTATACACCTCT
6726063 AAAAT
1 AAAAT
6726068 GTGGCTGGTG
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 50 1.00
ACGTcount: A:0.43, C:0.26, G:0.00, T:0.31
Consensus pattern (24 bp):
AAAATATACTTACTATACACCTCT
Found at i:6728151 original size:46 final size:45
Alignment explanation
Indices: 6728058--6728429 Score: 442
Period size: 46 Copynumber: 8.6 Consensus size: 45
6728048 TACATATGAT
* *
6728058 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAACTAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGGCTAC
*
6728101 CACTTATCACTTTGTCACTTGATCAGATAAGAGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AGGCTAC
* *
6728147 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AGGCTAC
6728193 CACTTATCACTTTGTCACTTGATCAGATAA--GTA--TA-G----
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGGCTAC
* *
6728229 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AGGCTAC
*
6728275 CACTTATCACTTTGTCTCTTGATCAGATAA--GT-G-TA-G----
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGGCTAC
* *
6728311 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAATGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AGGCTAC
* *
6728357 CACTTATCACTTTCTCACTTGATCAAATAAGTGTAGCTAGTGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAG-GCTAC
*
6728403 CACTTATCACTTTATCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
6728430 AGTACTCAAA
Statistics
Matches: 288, Mismatches: 17, Indels: 45
0.82 0.05 0.13
Matches are distributed among these distances:
36 57 0.20
38 5 0.02
39 1 0.00
40 4 0.01
41 4 0.01
42 4 0.01
43 11 0.04
44 10 0.03
45 19 0.07
46 173 0.60
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.34
Consensus pattern (45 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGGCTAC
Found at i:6728234 original size:36 final size:36
Alignment explanation
Indices: 6728193--6728347 Score: 175
Period size: 36 Copynumber: 4.0 Consensus size: 36
6728183 CTAAGGCTAA
6728193 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
*
6728229 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAG
1 CACTTATCACTTTGTCACTTGATCAGATAA--GTA--T--AG
* *
6728271 CTACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
1 ----CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
* *
6728311 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
6728347 C
1 C
6728348 TAATGCTACC
Statistics
Matches: 103, Mismatches: 6, Indels: 20
0.80 0.05 0.16
Matches are distributed among these distances:
36 64 0.62
38 3 0.03
40 3 0.03
42 3 0.03
44 2 0.02
46 28 0.27
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.37
Consensus pattern (36 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
Found at i:6728284 original size:82 final size:82
Alignment explanation
Indices: 6728147--6728393 Score: 422
Period size: 82 Copynumber: 3.0 Consensus size: 82
6728137 CTAAGGCTAC
* * *
6728147 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAACACTTATCACTTTGTCACT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
*
6728212 TGATCAGATAAGTATAG
66 TGATCAGATAAGTGTAG
*
6728229 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
6728294 TGATCAGATAAGTGTAG
66 TGATCAGATAAGTGTAG
* *
6728311 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAATGCTACCACTTATCACTTTCTCACT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
*
6728376 TGATCAAATAAGTGTAG
66 TGATCAGATAAGTGTAG
6728393 C
1 C
6728394 TAGTGCTACC
Statistics
Matches: 156, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
82 156 1.00
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (82 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
TGATCAGATAAGTGTAG
Found at i:6728296 original size:128 final size:123
Alignment explanation
Indices: 6728058--6728429 Score: 398
Period size: 128 Copynumber: 2.9 Consensus size: 123
6728048 TACATATGAT
* * * *
6728058 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAACTAGGCTACCACTTATCACTTTGTCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAG-GT-ACTA--ATGCCACTTATCACTTTCTCACTT
* * *
6728121 GATCAGATAAGAGTAGCTAAGGCTACCACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTA
62 GATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACTTGATCAGATAA--GT-G-T-
6728186 AGG
122 A-G
*
6728189 CTAACACTTATCACTTTGTCACTTGATCAGATAA-GTA-T-A-G-CACTTATCACTTTTTCACTT
1 ----CACTTATCACTTTGTCACTTGATCAGATAAGGTACTAATGCCACTTATCACTTTCTCACTT
* *
6728249 GATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
62 GATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACTTGATCAGATAAGTGTAG
*
6728311 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAATGCTACCACTTATCACTTTCTCACT
1 CACTTATCACTTTGTCACTTGATCAGATAAG-GTA-CTAATG---CCACTTATCACTTTCTCACT
* **
6728376 TGATCAAATAAGTGTAGCTAGTGCTACCACTTATCACTTTATCACTTGATCAGA
61 TGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACTTGATCAGA
6728430 AGTACTCAAA
Statistics
Matches: 210, Mismatches: 15, Indels: 31
0.82 0.06 0.12
Matches are distributed among these distances:
118 29 0.14
120 3 0.01
122 2 0.01
123 2 0.01
124 2 0.01
125 1 0.00
126 2 0.01
128 138 0.66
133 1 0.00
134 1 0.00
135 12 0.06
136 5 0.02
137 12 0.06
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.34
Consensus pattern (123 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGGTACTAATGCCACTTATCACTTTCTCACTTGATC
AGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACTTGATCAGATAAGTGTAG
Found at i:6732202 original size:13 final size:13
Alignment explanation
Indices: 6732184--6732244 Score: 58
Period size: 13 Copynumber: 4.8 Consensus size: 13
6732174 TAGATTTTTT
*
6732184 CTAAATATTATTA
1 CTAAATATTATCA
6732197 CTAAATAATT-T--
1 CTAAAT-ATTATCA
6732208 -TAAATATTATCA
1 CTAAATATTATCA
*
6732220 CTAAATGTTATCA
1 CTAAATATTATCA
6732233 CTAAATAATTAT
1 CTAAAT-ATTAT
6732245 AAATTTAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
9 3 0.08
10 6 0.15
13 24 0.60
14 7 0.17
ACGTcount: A:0.46, C:0.10, G:0.02, T:0.43
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:6736408 original size:17 final size:17
Alignment explanation
Indices: 6736395--6736432 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
6736385 GTATTTTTGG
6736395 GATAAAAATATTTTTAA
1 GATAAAAATATTTTTAA
*
6736412 GATAAAAATATTGTTAA
1 GATAAAAATATTTTTAA
6736429 -ATAA
1 GATAA
6736433 GATGCTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 4 0.20
17 16 0.80
ACGTcount: A:0.55, C:0.00, G:0.08, T:0.37
Consensus pattern (17 bp):
GATAAAAATATTTTTAA
Found at i:6737310 original size:40 final size:39
Alignment explanation
Indices: 6737247--6737322 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 39
6737237 ATTAGTTTTG
* * *
6737247 GAGAGAGATAAAAATGTGTCCTGTAGGACGTGTTTTTAA
1 GAGAGAGATAAAAATGCGCCCTGTAGGACGCGTTTTTAA
6737286 GAGAGAGAATAAAAATGCGCCCTGTAGGACGCGTTTT
1 GAGAGAG-ATAAAAATGCGCCCTGTAGGACGCGTTTT
6737323 CACTTTGCTA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
39 7 0.21
40 26 0.79
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (39 bp):
GAGAGAGATAAAAATGCGCCCTGTAGGACGCGTTTTTAA
Found at i:6738645 original size:25 final size:25
Alignment explanation
Indices: 6738611--6738668 Score: 89
Period size: 25 Copynumber: 2.3 Consensus size: 25
6738601 TGTAAATTGA
* * *
6738611 AAAAAAAAGTGTACATTTGGGATGT
1 AAAACAAAGTATACATTTGAGATGT
6738636 AAAACAAAGTATACATTTGAGATGT
1 AAAACAAAGTATACATTTGAGATGT
6738661 AAAACAAA
1 AAAACAAA
6738669 CTATGCAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.52, C:0.07, G:0.17, T:0.24
Consensus pattern (25 bp):
AAAACAAAGTATACATTTGAGATGT
Found at i:6742311 original size:21 final size:21
Alignment explanation
Indices: 6742287--6742326 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
6742277 ATTTTATTAG
*
6742287 CTGCATTCATAAAATCAAAGA
1 CTGCACTCATAAAATCAAAGA
*
6742308 CTGCACTCATCAAATCAAA
1 CTGCACTCATAAAATCAAA
6742327 TATATCTTTT
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:0.45, C:0.25, G:0.07, T:0.23
Consensus pattern (21 bp):
CTGCACTCATAAAATCAAAGA
Found at i:6754514 original size:19 final size:20
Alignment explanation
Indices: 6754474--6754517 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
6754464 AATACTTGGT
6754474 AAAAGGTATCGATACTTTTTG
1 AAAAGGTATCGATAC-TTTTG
*
6754495 AAAAGGTATTGATA-TTTTG
1 AAAAGGTATCGATACTTTTG
6754514 AAAA
1 AAAA
6754518 CTACCGATAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 9 0.41
21 13 0.59
ACGTcount: A:0.41, C:0.05, G:0.18, T:0.36
Consensus pattern (20 bp):
AAAAGGTATCGATACTTTTG
Found at i:6761425 original size:15 final size:15
Alignment explanation
Indices: 6761407--6761448 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
6761397 GAATTTTTTT
6761407 ATTTTTTTATTTCTCA
1 ATTTTTTTATTTCT-A
*
6761423 TTTTTTTATATTTCTA
1 ATTTTTT-TATTTCTA
6761439 ATTTTTTTAT
1 ATTTTTTTAT
6761449 AATTTTAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 3 0.13
16 13 0.57
17 7 0.30
ACGTcount: A:0.19, C:0.07, G:0.00, T:0.74
Consensus pattern (15 bp):
ATTTTTTTATTTCTA
Found at i:6761453 original size:18 final size:17
Alignment explanation
Indices: 6761408--6761449 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
6761398 AATTTTTTTA
*
6761408 TTTTTT-TATTTCTCAT
1 TTTTTTATATTTCTAAT
6761424 TTTTTTATATTTCTAAT
1 TTTTTTATATTTCTAAT
6761441 TTTTTTATA
1 TTTTTTATA
6761450 ATTTTAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 6 0.25
17 18 0.75
ACGTcount: A:0.19, C:0.07, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTTTATATTTCTAAT
Found at i:6761593 original size:14 final size:15
Alignment explanation
Indices: 6761574--6761603 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
6761564 AAAAATAATA
6761574 AATTTTATTTT-TTG
1 AATTTTATTTTGTTG
6761588 AATTTTATTTTGTTG
1 AATTTTATTTTGTTG
6761603 A
1 A
6761604 TGGGGCGGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.67
Consensus pattern (15 bp):
AATTTTATTTTGTTG
Found at i:6762206 original size:13 final size:13
Alignment explanation
Indices: 6762166--6762207 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
6762156 AATAACCGAC
*
6762166 ATATTTA-TTAAT
1 ATATTTATTTAAA
* *
6762178 ATATTTATATATA
1 ATATTTATTTAAA
6762191 ATATTTATTTAAA
1 ATATTTATTTAAA
6762204 ATAT
1 ATAT
6762208 ATGAGAATAA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
12 7 0.29
13 17 0.71
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
ATATTTATTTAAA
Found at i:6770889 original size:110 final size:110
Alignment explanation
Indices: 6770620--6770933 Score: 448
Period size: 110 Copynumber: 2.9 Consensus size: 110
6770610 AAGATTTAGG
* *
6770620 AGGATATTTGGCCATTTGGTCGAACGAG--AAATCGAAACTCAGCACATTAGGGCACGTTTTCTC
1 AGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
** *
6770683 GAATTTCTAAACGCAAAATATTGCCTTATTTTGAAA-TTTTTAAA
66 GAATTTCCGAACGCAAAACATTGCCTTATTTTGAAATTTTTTAAA
*
6770727 AGGATA--T---T-TTTGGTCGAATGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
1 AGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
* *
6770786 AAATTTCCGAACGGAAAACATTGCCTTATTTTGAAATTTTTTAAA
66 GAATTTCCGAACGCAAAACATTGCCTTATTTTGAAATTTTTTAAA
* * * *
6770831 AGGATATTTGGCTATTTGGTTGAACGAGAAAAATCGAAACCCAACACATTAAGACACGTTTTCTC
1 AGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
*
6770896 GAATTTCCGAACGCAAAACATTGCCTTATTTCGAAATT
66 GAATTTCCGAACGCAAAACATTGCCTTATTTTGAAATT
6770934 AGTATGCGTA
Statistics
Matches: 182, Mismatches: 16, Indels: 15
0.85 0.08 0.07
Matches are distributed among these distances:
101 13 0.07
103 65 0.36
104 14 0.08
105 1 0.01
106 1 0.01
107 6 0.03
109 1 0.01
110 81 0.45
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (110 bp):
AGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
GAATTTCCGAACGCAAAACATTGCCTTATTTTGAAATTTTTTAAA
Found at i:6771173 original size:41 final size:41
Alignment explanation
Indices: 6771128--6771205 Score: 113
Period size: 41 Copynumber: 1.9 Consensus size: 41
6771118 AAAAAAATGA
6771128 ATAGAACTATAAAAATAT-AAAAGATATATATATGTATCTAC
1 ATAGAACTATAAAAATATGAAAAG-TATATATATGTATCTAC
* * *
6771169 ATAGAATTATAGAAATATGAAAAGTATATGTATGTAT
1 ATAGAACTATAAAAATATGAAAAGTATATATATGTAT
6771206 AAAATTTTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
41 28 0.85
42 5 0.15
ACGTcount: A:0.51, C:0.04, G:0.12, T:0.33
Consensus pattern (41 bp):
ATAGAACTATAAAAATATGAAAAGTATATATATGTATCTAC
Found at i:6773170 original size:19 final size:20
Alignment explanation
Indices: 6773148--6773191 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
6773138 TTTTATTTAT
6773148 TAAAATAATAA-ATTATAAA
1 TAAAATAATAATATTATAAA
*
6773167 TAAAATAATAATCTTATAAA
1 TAAAATAATAATATTATAAA
6773187 TAAAA
1 TAAAA
6773192 CAAATTAAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (20 bp):
TAAAATAATAATATTATAAA
Found at i:6775397 original size:13 final size:13
Alignment explanation
Indices: 6775375--6775405 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
6775365 TACGGTTCAC
*
6775375 TTATTTAATGAAA
1 TTATTAAATGAAA
6775388 TTATTAAATGAAA
1 TTATTAAATGAAA
6775401 TTATT
1 TTATT
6775406 CTTTATCAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (13 bp):
TTATTAAATGAAA
Found at i:6776284 original size:21 final size:21
Alignment explanation
Indices: 6776241--6776284 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
6776231 ACACACTCAG
*
6776241 CTTAATTGAGCTATTAATGAA
1 CTTAATTGAGCTATTAATAAA
6776262 CTTAATTGAGCTAATTAA-AAA
1 CTTAATTGAGCT-ATTAATAAA
6776283 CT
1 CT
6776285 ACAAGACCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.36
Consensus pattern (21 bp):
CTTAATTGAGCTATTAATAAA
Found at i:6776938 original size:19 final size:19
Alignment explanation
Indices: 6776906--6776944 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
6776896 GAAAATACTT
*
6776906 AGACATATTAAATAATTAA
1 AGACACATTAAATAATTAA
* *
6776925 AGACACATTTAATATTTAA
1 AGACACATTAAATAATTAA
6776944 A
1 A
6776945 CCAAATATTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.54, C:0.08, G:0.05, T:0.33
Consensus pattern (19 bp):
AGACACATTAAATAATTAA
Found at i:6780975 original size:32 final size:31
Alignment explanation
Indices: 6780939--6781005 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 31
6780929 TTTTGAGCTA
*
6780939 AATTTGACTCCCAATCTTTAAAAAAAAAGTTG
1 AATTTGACTACCAAT-TTTAAAAAAAAAGTTG
** * *
6780971 AATTTGACTATTAATTTTACAAAAAGAGTTG
1 AATTTGACTACCAATTTTAAAAAAAAAGTTG
6781002 AATT
1 AATT
6781006 ATTTTTTTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 18 0.60
32 12 0.40
ACGTcount: A:0.43, C:0.10, G:0.10, T:0.36
Consensus pattern (31 bp):
AATTTGACTACCAATTTTAAAAAAAAAGTTG
Found at i:6781097 original size:13 final size:14
Alignment explanation
Indices: 6781079--6781108 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
6781069 TCTACATGTA
6781079 TTTCATGTTTTT-T
1 TTTCATGTTTTTAT
6781092 TTTCATGTTTTTAT
1 TTTCATGTTTTTAT
6781106 TTT
1 TTT
6781109 TTGAACATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.10, C:0.07, G:0.07, T:0.77
Consensus pattern (14 bp):
TTTCATGTTTTTAT
Found at i:6781811 original size:27 final size:26
Alignment explanation
Indices: 6781771--6781831 Score: 97
Period size: 26 Copynumber: 2.3 Consensus size: 26
6781761 AAAAATTATT
6781771 TTAAAAATATTTTAAAATTAAAAAAA
1 TTAAAAATATTTTAAAATTAAAAAAA
6781797 TTAAAAAGTATTTTAAAATT-AAAAAA
1 TTAAAAA-TATTTTAAAATTAAAAAAA
*
6781823 TAAAAAATA
1 TTAAAAATA
6781832 AAATATTTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
25 2 0.06
26 19 0.58
27 12 0.36
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.33
Consensus pattern (26 bp):
TTAAAAATATTTTAAAATTAAAAAAA
Found at i:6782400 original size:17 final size:17
Alignment explanation
Indices: 6782364--6782401 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
6782354 AAACGTCTTT
*
6782364 TTTCTATTTATATATAA
1 TTTCTATTTATATACAA
6782381 TTTCT-TTTATATACATA
1 TTTCTATTTATATACA-A
6782398 TTTC
1 TTTC
6782402 AATATGAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.29, C:0.11, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTCTATTTATATACAA
Found at i:6792152 original size:18 final size:18
Alignment explanation
Indices: 6792131--6792196 Score: 105
Period size: 18 Copynumber: 3.7 Consensus size: 18
6792121 TCCATCAATT
6792131 TGAACATCATTTGAAATG
1 TGAACATCATTTGAAATG
*
6792149 TGAACAGCATTTGAAATG
1 TGAACATCATTTGAAATG
*
6792167 TGAACATCATTTAAAATG
1 TGAACATCATTTGAAATG
*
6792185 GGAACATCATTT
1 TGAACATCATTT
6792197 CTCATATTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 44 1.00
ACGTcount: A:0.39, C:0.12, G:0.17, T:0.32
Consensus pattern (18 bp):
TGAACATCATTTGAAATG
Found at i:6794357 original size:19 final size:19
Alignment explanation
Indices: 6794319--6794357 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
6794309 TCAATGGAGA
*
6794319 AGAGGAACAAATAACCAGC
1 AGAGGAACAAAGAACCAGC
*
6794338 AGAGGAACAAAGAACTAGC
1 AGAGGAACAAAGAACCAGC
6794357 A
1 A
6794358 CCAGTAGAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.54, C:0.18, G:0.23, T:0.05
Consensus pattern (19 bp):
AGAGGAACAAAGAACCAGC
Found at i:6794360 original size:25 final size:25
Alignment explanation
Indices: 6794332--6794406 Score: 123
Period size: 25 Copynumber: 3.0 Consensus size: 25
6794322 GGAACAAATA
6794332 ACCAGCAGAGGAACAAAGAACTAGC
1 ACCAGCAGAGGAACAAAGAACTAGC
* * *
6794357 ACCAGTAGAGGAACAAAGAACCAAC
1 ACCAGCAGAGGAACAAAGAACTAGC
6794382 ACCAGCAGAGGAACAAAGAACTAGC
1 ACCAGCAGAGGAACAAAGAACTAGC
6794407 GATGAGAGAA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.49, C:0.24, G:0.23, T:0.04
Consensus pattern (25 bp):
ACCAGCAGAGGAACAAAGAACTAGC
Found at i:6798667 original size:17 final size:16
Alignment explanation
Indices: 6798640--6798672 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
6798630 TTTTACTCTC
6798640 TTGTTTTTCATGCTTT
1 TTGTTTTTCATGCTTT
6798656 TTGTTGTTTCATGCTTT
1 TTGTT-TTTCATGCTTT
6798673 AATTTTTACT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.06, C:0.12, G:0.15, T:0.67
Consensus pattern (16 bp):
TTGTTTTTCATGCTTT
Found at i:6805416 original size:126 final size:125
Alignment explanation
Indices: 6805158--6805572 Score: 663
Period size: 126 Copynumber: 3.3 Consensus size: 125
6805148 GATAAAATCA
* * * * * *
6805158 AAGCAGGATGCT-TTATCAGAAGGATTTCTGAAGTCGCGCCCACGTGTACGCGCTTTTGCTACAG
1 AAGCAGGATGCTATT-TGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
* *
6805222 TAGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
65 TAGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAAAACGCTTC
* *
6805283 AAGCAGGATGCT-TTATGAGAAGAAATTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTATAG
1 AAGCAGGATGCTATT-TGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
*
6805347 TAGGTCTTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAAAACGCTTC
65 TAGGTCCTGGAA-AAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAAAACGCTTC
6805409 AAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
6805474 AGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTTTAAAAAAACGCTTC
66 AGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAG-TTT-AAAAAACGCTTC
*
6805536 TAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGC
1 AAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGC
6805573 ACTTTTGCTA
Statistics
Matches: 271, Mismatches: 15, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
125 100 0.37
126 121 0.45
127 50 0.18
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (125 bp):
AAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
AGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAAAACGCTTC
Found at i:6805614 original size:22 final size:21
Alignment explanation
Indices: 6805585--6805731 Score: 138
Period size: 22 Copynumber: 7.4 Consensus size: 21
6805575 TTTTGCTACT
*
6805585 TTAGGGTTTAAAAGTTAAGGG
1 TTAGGGTTTTAAAGTTAAGGG
*
6805606 TTAGTGGTTTTTAAGTTAAGGG
1 TTAG-GGTTTTAAAGTTAAGGG
* *
6805628 TTAGGGTTTTTTAAGTTAAGAGT
1 TTAGGG-TTTTAAAGTTAAG-GG
6805651 TTAGGGTTTTAAAGTTAA---
1 TTAGGGTTTTAAAGTTAAGGG
6805669 --A-GGTTTTAAAGTT-A---
1 TTAGGGTTTTAAAGTTAAGGG
6805683 --AGGGTTTTAAAGTTAAGGG
1 TTAGGGTTTTAAAGTTAAGGG
6805702 TTTAGGGTTTTAAAGTTAAGGG
1 -TTAGGGTTTTAAAGTTAAGGG
6805724 TTAGGGTT
1 TTAGGGTT
6805732 AAGGTTTTTA
Statistics
Matches: 111, Mismatches: 4, Indels: 22
0.81 0.03 0.16
Matches are distributed among these distances:
14 2 0.02
15 24 0.22
16 2 0.02
21 14 0.13
22 62 0.56
23 7 0.06
ACGTcount: A:0.29, C:0.00, G:0.30, T:0.41
Consensus pattern (21 bp):
TTAGGGTTTTAAAGTTAAGGG
Found at i:6805705 original size:52 final size:50
Alignment explanation
Indices: 6805630--6805760 Score: 183
Period size: 52 Copynumber: 2.6 Consensus size: 50
6805620 GTTAAGGGTT
*
6805630 AGGGTTTTTTAAGTTAAGAGTTTAGGGTTTTAAAGTTAAAGGTTTTAAAGTTA
1 AGGG-TTTTTAAGTTAAGAGTTTAGGGTTTTAAAGTT-AAGG-GTTAAAGTTA
* * **
6805683 AGGGTTTTAAAGTTAAGGGTTTAGGGTTTTAAAGTTAAGGGTTAGGGTTA
1 AGGGTTTTTAAGTTAAGAGTTTAGGGTTTTAAAGTTAAGGGTTAAAGTTA
6805733 A-GGTTTTTAAGTTAAGAGTTTAGGGTTT
1 AGGGTTTTTAAGTTAAGAGTTTAGGGTTT
6805761 GTCAATTAAA
Statistics
Matches: 71, Mismatches: 7, Indels: 4
0.87 0.09 0.05
Matches are distributed among these distances:
49 25 0.35
50 8 0.11
51 4 0.06
52 30 0.42
53 4 0.06
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (50 bp):
AGGGTTTTTAAGTTAAGAGTTTAGGGTTTTAAAGTTAAGGGTTAAAGTTA
Found at i:6805725 original size:15 final size:15
Alignment explanation
Indices: 6805643--6805704 Score: 97
Period size: 15 Copynumber: 4.1 Consensus size: 15
6805633 GTTTTTTAAG
*
6805643 TTAAGAGTTTAGGGTT
1 TTAA-AGTTAAGGGTT
*
6805659 TTAAAGTTAAAGGTT
1 TTAAAGTTAAGGGTT
6805674 TTAAAGTTAAGGGTT
1 TTAAAGTTAAGGGTT
6805689 TTAAAGTTAAGGGTT
1 TTAAAGTTAAGGGTT
6805704 T
1 T
6805705 AGGGTTTTAA
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
15 39 0.91
16 4 0.09
ACGTcount: A:0.32, C:0.00, G:0.26, T:0.42
Consensus pattern (15 bp):
TTAAAGTTAAGGGTT
Found at i:6805729 original size:28 final size:29
Alignment explanation
Indices: 6805698--6805760 Score: 85
Period size: 27 Copynumber: 2.2 Consensus size: 29
6805688 TTTAAAGTTA
*
6805698 AGGGTTTAGGGTTTTAAAGTTAAG-GGTT
1 AGGGTTTAAGGTTTTAAAGTTAAGAGGTT
* *
6805726 AGGG-TTAAGGTTTTTAAGTTAAGAGTTT
1 AGGGTTTAAGGTTTTAAAGTTAAGAGGTT
6805754 AGGGTTT
1 AGGGTTT
6805761 GTCAATTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
27 17 0.57
28 11 0.37
29 2 0.07
ACGTcount: A:0.25, C:0.00, G:0.33, T:0.41
Consensus pattern (29 bp):
AGGGTTTAAGGTTTTAAAGTTAAGAGGTT
Found at i:6805759 original size:22 final size:22
Alignment explanation
Indices: 6805674--6805760 Score: 77
Period size: 22 Copynumber: 3.8 Consensus size: 22
6805664 GTTAAAGGTT
*
6805674 TTAA-AGTTAAGGGTTTTAAAG
1 TTAAGAGTTTAGGGTTTTAAAG
*
6805695 TTAAGGGTTTAGGGTTTTAAAG
1 TTAAGAGTTTAGGGTTTTAAAG
* * *
6805717 TTAAGGGTTAGGGTTAAGGTTTTTAAG
1 TTAA--G--A-GTTTAGGGTTTTAAAG
6805744 TTAAGAGTTTAGGGTTT
1 TTAAGAGTTTAGGGTTT
6805761 GTCAATTAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 11
0.73 0.11 0.15
Matches are distributed among these distances:
21 4 0.08
22 28 0.54
23 1 0.02
24 1 0.02
25 1 0.02
27 17 0.33
ACGTcount: A:0.29, C:0.00, G:0.30, T:0.41
Consensus pattern (22 bp):
TTAAGAGTTTAGGGTTTTAAAG
Found at i:6806979 original size:7 final size:7
Alignment explanation
Indices: 6806969--6806993 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
6806959 TTATATACAT
6806969 AATACTA
1 AATACTA
6806976 AATACTA
1 AATACTA
6806983 AATACTA
1 AATACTA
6806990 AATA
1 AATA
6806994 TCAACCGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:6807200 original size:20 final size:20
Alignment explanation
Indices: 6807163--6807200 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
6807153 TTTATTTTTA
*
6807163 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
6807183 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
6807201 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:6808240 original size:11 final size:11
Alignment explanation
Indices: 6808207--6808274 Score: 75
Period size: 11 Copynumber: 6.0 Consensus size: 11
6808197 GGATTTCAAA
*
6808207 GAAATTTGGAAG
1 GAAATTTAG-AG
6808219 G-AATTTGAGAG
1 GAAATTT-AGAG
*
6808230 CAAATTTAGAG
1 GAAATTTAGAG
6808241 GAAATTTAGAG
1 GAAATTTAGAG
*
6808252 GAAATTGAGAG
1 GAAATTTAGAG
6808263 GAAATTTGAGAG
1 GAAATTT-AGAG
6808275 AGGATTTTTG
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
11 37 0.77
12 11 0.23
ACGTcount: A:0.43, C:0.01, G:0.31, T:0.25
Consensus pattern (11 bp):
GAAATTTAGAG
Found at i:6808242 original size:22 final size:23
Alignment explanation
Indices: 6808220--6808274 Score: 85
Period size: 22 Copynumber: 2.4 Consensus size: 23
6808210 ATTTGGAAGG
6808220 AATTTGAGAGCAAATTTAGAGGA
1 AATTTGAGAGCAAATTTAGAGGA
* *
6808243 AATTT-AGAGGAAATTGAGAGGA
1 AATTTGAGAGCAAATTTAGAGGA
6808265 AATTTGAGAG
1 AATTTGAGAG
6808275 AGGATTTTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 20 0.69
23 9 0.31
ACGTcount: A:0.44, C:0.02, G:0.29, T:0.25
Consensus pattern (23 bp):
AATTTGAGAGCAAATTTAGAGGA
Found at i:6808260 original size:33 final size:35
Alignment explanation
Indices: 6808207--6808274 Score: 95
Period size: 33 Copynumber: 2.0 Consensus size: 35
6808197 GGATTTCAAA
* *
6808207 GAAATTTGGAAGGAATTTGAGAGCAAATTT-AGAG
1 GAAATTTAGAAGGAAATTGAGAGCAAATTTGAGAG
*
6808241 GAAATTTAG-AGGAAATTGAGAGGAAATTTGAGAG
1 GAAATTTAGAAGGAAATTGAGAGCAAATTTGAGAG
6808275 AGGATTTTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 18 0.60
34 12 0.40
ACGTcount: A:0.43, C:0.01, G:0.31, T:0.25
Consensus pattern (35 bp):
GAAATTTAGAAGGAAATTGAGAGCAAATTTGAGAG
Found at i:6809044 original size:19 final size:21
Alignment explanation
Indices: 6809006--6809044 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
6808996 AATAATTGAT
*
6809006 TATATTGTTGTTATTATTTTG
1 TATATTGTTGTTAATATTTTG
6809027 TATATT-TTG-TAATATTTT
1 TATATTGTTGTTAATATTTT
6809045 TTTGTTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 3 0.18
21 6 0.35
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.67
Consensus pattern (21 bp):
TATATTGTTGTTAATATTTTG
Found at i:6809127 original size:3 final size:3
Alignment explanation
Indices: 6809121--6809146 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
6809111 ATTACTATTA
6809121 TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TT
6809147 AGTATTAAGA
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:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:6812050 original size:159 final size:154
Alignment explanation
Indices: 6811602--6812068 Score: 401
Period size: 159 Copynumber: 3.0 Consensus size: 154
6811592 GCAAGTTGAA
* * * *
6811602 AAAAAAGTTAGTAAAAAAATCTTACTTCGGCCATTTATTCGTATTTTTTTCTCCGCATTTTATTC
1 AAAAAAGTTAGTAAAAAAATATTACTTCTGCCATTTGTTCGTATTTTTTTCTCCG-ATTTTATTA
* **
6811667 CTTTAAAAAATATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATAATGTTTG-AA
65 CTTTAAAAAATATCATAAATTCTTTTTTTATAATTTTACATTATTTCAGTGCATAATGTTTGAAA
* *
6811731 -ATTTATTAATCTAGTGTGTTATTT
130 TATTTATTAATCTAGTGTCTAATTT
* * * ** * * *
6811755 AAATTAATTTGGTGTAAAAAAATAACCCTTACCCCTGCCCTTTGCTCGTATTATTTTCT-CGATT
1 AAA-AAAGTT--AGTAAAAAAAT-A---TTACTTCTGCCATTTGTTCGTATTTTTTTCTCCGA-T
* * * * *
6811819 TTTATTACTTTAAATAAAAAT-ATATTATTCTTCTATTTTATTATTTTATATTATTTCAGTACAT
58 TTTATTACTTTAAA-AAATATCATA-AATTCTT-T-TTTTATAATTTTACATTATTTCAGTGCAT
** * *
6811883 TTTCTTTGAAATATTTGTATTAAT-TA-TTTCTAAATTTT
119 AATGTTTGAAATA-TT-TATTAATCTAGTGTCT-AA-TTT
* * * *
6811921 AAAAAAGTTAGTAATACACTATTACTTCTGCCATTTGTTCGTATTTTTTTCTCCGTATTTTATTG
1 AAAAAAGTTAGTAAAAAAATATTACTTCTGCCATTTGTTCGTATTTTTTTCTCCG-ATTTTATTA
* *
6811986 CTTTAAAAAATATCATAAACTTAGTTTTTTTATAATTTTACATCATTTCAGTGCATAATGTTTG-
65 CTTTAAAAAATATCATAAA-TT-CTTTTTTTATAATTTTACATTATTTCAGTGCATAATGTTTGA
*
6812050 AA-ATTTATTAATTTAGTGT
128 AATATTTATTAATCTAGTGT
6812069 GTTAAGGGGG
Statistics
Matches: 240, Mismatches: 49, Indels: 46
0.72 0.15 0.14
Matches are distributed among these distances:
153 3 0.01
154 4 0.02
155 7 0.03
156 14 0.06
157 3 0.01
158 3 0.01
159 81 0.34
160 55 0.23
161 3 0.01
162 32 0.13
163 9 0.04
164 4 0.02
165 9 0.04
166 13 0.05
ACGTcount: A:0.31, C:0.12, G:0.08, T:0.49
Consensus pattern (154 bp):
AAAAAAGTTAGTAAAAAAATATTACTTCTGCCATTTGTTCGTATTTTTTTCTCCGATTTTATTAC
TTTAAAAAATATCATAAATTCTTTTTTTATAATTTTACATTATTTCAGTGCATAATGTTTGAAAT
ATTTATTAATCTAGTGTCTAATTT
Found at i:6812878 original size:5 final size:5
Alignment explanation
Indices: 6812870--6813006 Score: 71
Period size: 5 Copynumber: 28.6 Consensus size: 5
6812860 TTTTCTCTTC
* * * *
6812870 TCCTT TCCTT TTCTT TCCTTT TTCTT CTCCTT TCCTT TTCTT CTTCTT
1 TCCTT TCCTT TCCTT TCC-TT TCCTT -TCCTT TCCTT TCCTT -TCCTT
* * * *
6812918 T-CTT T-CTT T-TTT TCTCTT CTCCTT TCCTT TTCTT TCC-T TCTTT TTCTT
1 TCCTT TCCTT TCCTT TC-CTT -TCCTT TCCTT TCCTT TCCTT TCCTT TCCTT
*
6812966 T-CTT TCCTC TCC-T TCCTT T-CTT T-CTT T-CTT T-CTT T-CTT TCC
1 TCCTT TCCTT TCCTT TCCTT TCCTT TCCTT TCCTT TCCTT TCCTT TCC
6813007 CTCTCCTTCT
Statistics
Matches: 108, Mismatches: 14, Indels: 20
0.76 0.10 0.14
Matches are distributed among these distances:
4 41 0.38
5 47 0.44
6 18 0.17
7 2 0.02
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (5 bp):
TCCTT
Found at i:6812922 original size:4 final size:4
Alignment explanation
Indices: 6812879--6813005 Score: 77
Period size: 4 Copynumber: 31.0 Consensus size: 4
6812869 CTCCTTTCCT
*
6812879 TTTC TTTC CTT- TTTC TTCTCC TTTCC TTT- TCTTC -TTC TTTC TTTC
1 TTTC TTTC TTTC TTTC TT-T-C TTT-C TTTC T-TTC TTTC TTTC TTTC
* * *
6812924 TTTT TTTC TCTTC -TCC TTTCC TTTTC TTTC CTTC -TT- TTTC TTTC TTTCC
1 TTTC TTTC T-TTC TTTC TTT-C -TTTC TTTC TTTC TTTC TTTC TTTC TTT-C
* *
6812973 TCTCC TTCC TTTC TTTC TTTC TTTC TTTC TTTC
1 T-TTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
6813006 CCTCTCCTTC
Statistics
Matches: 100, Mismatches: 9, Indels: 28
0.73 0.07 0.20
Matches are distributed among these distances:
3 12 0.12
4 65 0.65
5 16 0.16
6 7 0.07
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (4 bp):
TTTC
Found at i:6812924 original size:27 final size:27
Alignment explanation
Indices: 6812861--6813002 Score: 99
Period size: 27 Copynumber: 5.3 Consensus size: 27
6812851 TCTTTTATTT
6812861 TTTCTCTTCTCCTTTCCTTTTCTTTCCTT-
1 TTTCT-TTCTCCTTTCCTTTTC-TT-CTTC
6812890 TTTC-TTCTCCTTTCCTTTTCTTCTTC
1 TTTCTTTCTCCTTTCCTTTTCTTCTTC
*
6812916 TTTCTTTCT--TTT--TTTCTCTTCTCC
1 TTTCTTTCTCCTTTCCTTT-TCTTCTTC
*
6812940 TTTCCTTT-T-CTTTCC--TTCTTTTTC
1 TTT-CTTTCTCCTTTCCTTTTCTTCTTC
*
6812964 TTTCTTTCCTCTCCTTCC-TTTCTTTCTTTC
1 TTTCTTT-CTC-CTTTCCTTTTC-TTC-TTC
6812994 TTTCTTTCT
1 TTTCTTTCT
6813003 TTCCCTCTCC
Statistics
Matches: 94, Mismatches: 5, Indels: 28
0.74 0.04 0.22
Matches are distributed among these distances:
23 7 0.07
24 20 0.21
25 15 0.16
26 6 0.06
27 25 0.27
28 3 0.03
29 8 0.09
30 10 0.11
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (27 bp):
TTTCTTTCTCCTTTCCTTTTCTTCTTC
Found at i:6812931 original size:67 final size:68
Alignment explanation
Indices: 6812823--6813014 Score: 222
Period size: 67 Copynumber: 2.9 Consensus size: 68
6812813 TACATTTTTT
*
6812823 TTCTTTTTTTTCC-TTCCTAC-CC-TCTTC-TTCTTT-TATTTTTTCTCTTCTCCTTTCCTTTTC
1 TTCTTTTTCTTCCTTTCCT-CTCCTTCTTCTTTCTTTCT-TTTTTTCTCTTCTCCTTTCCTTTTC
6812883 TTTCC
64 TTTCC
* *
6812888 TT-TTTCTTC-TCCTTTCCTTTTCTTCTTCTTTCTTTCTTTTTTTCTCTTCTCCTTTCCTTTTCT
1 TTCTTT-TTCTTCCTTTCCTCTCCTTCTTCTTTCTTTCTTTTTTTCTCTTCTCCTTTCCTTTTCT
6812951 TTCC
65 TTCC
* * *
6812955 TTCTTTTTCTTTCTTTCCTCTCCTTCCTTTCTTTCTTTCTTTCTTTCT-TTC-CCTCTCCTT
1 TTCTTTTTCTTCCTTTCCTCTCCTT-C-TTCTTTCTTTCTTTTTTTCTCTTCTCCTTTCCTT
6813015 CTGCCCACCC
Statistics
Matches: 109, Mismatches: 8, Indels: 17
0.81 0.06 0.13
Matches are distributed among these distances:
64 6 0.06
65 10 0.09
66 5 0.05
67 41 0.38
68 24 0.22
69 4 0.04
70 19 0.17
ACGTcount: A:0.01, C:0.33, G:0.00, T:0.66
Consensus pattern (68 bp):
TTCTTTTTCTTCCTTTCCTCTCCTTCTTCTTTCTTTCTTTTTTTCTCTTCTCCTTTCCTTTTCTT
TCC
Found at i:6812944 original size:40 final size:41
Alignment explanation
Indices: 6812860--6813004 Score: 153
Period size: 40 Copynumber: 3.6 Consensus size: 41
6812850 TTCTTTTATT
*
6812860 TTTTCTCTTCTCCTTTCCTTTTCTTTCCTTTT-TCTTCTCCTTTCC
1 TTTTCT-TTCTTCTTT-C-TTTCTTT--TTTTCTCTTCTCCTTTCC
6812905 TTTTC-TTCTTCTTTCTTTCTTTTTTTCTCTTCTCCTTTCC
1 TTTTCTTTCTTCTTTCTTTCTTTTTTTCTCTTCTCCTTTCC
*
6812945 TTTTCTTTCCTTC-TT-TTTCTTTCTTTC-C-TCTCC-TTCC
1 TTTTCTTT-CTTCTTTCTTTCTTTTTTTCTCTTCTCCTTTCC
6812982 -TTTCTTTCTTTCTTTCTTTCTTT
1 TTTTCTTTC-TTCTTTCTTTCTTT
6813005 CCCTCTCCTT
Statistics
Matches: 92, Mismatches: 2, Indels: 19
0.81 0.02 0.17
Matches are distributed among these distances:
35 1 0.01
36 10 0.11
37 6 0.07
38 12 0.13
39 5 0.05
40 29 0.32
41 11 0.12
42 5 0.05
43 8 0.09
45 5 0.05
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (41 bp):
TTTTCTTTCTTCTTTCTTTCTTTTTTTCTCTTCTCCTTTCC
Found at i:6813162 original size:24 final size:24
Alignment explanation
Indices: 6813135--6813182 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
6813125 TGTTGTTTTT
6813135 TATATATTTTAATAAATAAAAAAA
1 TATATATTTTAATAAATAAAAAAA
* **
6813159 TATATTTTTTGGTAAATAAAAAAA
1 TATATATTTTAATAAATAAAAAAA
6813183 ATTATAACAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (24 bp):
TATATATTTTAATAAATAAAAAAA
Found at i:6821974 original size:5 final size:5
Alignment explanation
Indices: 6821964--6821996 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
6821954 TAGCATGAAA
6821964 ATGTT ATGTT ATGTT ATGTT ATGTT ATGTT ATG
1 ATGTT ATGTT ATGTT ATGTT ATGTT ATGTT ATG
6821997 AATGCAATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.21, C:0.00, G:0.21, T:0.58
Consensus pattern (5 bp):
ATGTT
Found at i:6823396 original size:30 final size:30
Alignment explanation
Indices: 6823356--6823416 Score: 79
Period size: 29 Copynumber: 2.0 Consensus size: 30
6823346 TCAAAAAAAG
6823356 CTAATTATTTTTAAAATTTACCGAAATGGGC
1 CTAATTATTTTT-AAATTTACCGAAATGGGC
** *
6823387 CTAA-TATTTTTTTATTTACCGGAATGGGC
1 CTAATTATTTTTAAATTTACCGAAATGGGC
6823416 C
1 C
6823417 CTTTTCCCCT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 16 0.59
30 7 0.26
31 4 0.15
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (30 bp):
CTAATTATTTTTAAATTTACCGAAATGGGC
Found at i:6824187 original size:11 final size:11
Alignment explanation
Indices: 6824173--6824243 Score: 67
Period size: 11 Copynumber: 6.3 Consensus size: 11
6824163 TTAAATATGG
6824173 ATTTGAGAGAA
1 ATTTGAGAGAA
*
6824184 ATTTTGA-AGGA
1 A-TTTGAGAGAA
6824195 ATTTGAGAGCAA
1 ATTTGAGAG-AA
6824207 A-TTGAGAGCAA
1 ATTTGAGAG-AA
6824218 A-TTGAGAAGAA
1 ATTTGAG-AGAA
6824229 ATTTGAGAGAGA
1 ATTTGAGAGA-A
6824241 ATT
1 ATT
6824244 AGCTTATGAA
Statistics
Matches: 52, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
10 5 0.10
11 29 0.56
12 18 0.35
ACGTcount: A:0.44, C:0.03, G:0.27, T:0.27
Consensus pattern (11 bp):
ATTTGAGAGAA
Found at i:6825651 original size:18 final size:18
Alignment explanation
Indices: 6825628--6825665 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
6825618 ATTATTGAAA
6825628 TTATTT-TATTATATATAT
1 TTATTTATATT-TATATAT
6825646 TTATTTATATTTATATAT
1 TTATTTATATTTATATAT
6825664 TT
1 TT
6825666 TTATTCGCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TTATTTATATTTATATAT
Found at i:6833119 original size:26 final size:26
Alignment explanation
Indices: 6833090--6833140 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
6833080 CCTCAAACTA
6833090 TAATCTAGATATTAAATTGGTCTCTC
1 TAATCTAGATATTAAATTGGTCTCTC
*
6833116 TAATCTAGATTTTAAATTGGTCTCT
1 TAATCTAGATATTAAATTGGTCTCT
6833141 ATAAATTTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.14, G:0.12, T:0.45
Consensus pattern (26 bp):
TAATCTAGATATTAAATTGGTCTCTC
Found at i:6833480 original size:14 final size:15
Alignment explanation
Indices: 6833458--6833534 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
6833448 CAATCAAACA
6833458 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
6833472 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
6833487 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
6833507 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
6833521 ACGGAAAAT-ATTTT
1 CCAGAAAATCATTTT
6833535 ACTGGCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 21 0.42
15 15 0.30
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:6833499 original size:20 final size:20
Alignment explanation
Indices: 6833474--6833513 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
6833464 AATATTTTCC
*
6833474 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
6833494 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
6833514 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:6833519 original size:34 final size:35
Alignment explanation
Indices: 6833462--6833528 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
6833452 CAAACACCAG
*
6833462 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
6833497 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
6833529 TATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:6835608 original size:28 final size:26
Alignment explanation
Indices: 6835564--6835616 Score: 63
Period size: 28 Copynumber: 2.0 Consensus size: 26
6835554 TCACATCATC
*
6835564 ATCTGAAAAATTTAAATATATATATAAA
1 ATCTGAAAAATTCAAATA-AT-TATAAA
6835592 ATCT-AAAAATATCAAATAATTATAA
1 ATCTGAAAAAT-TCAAATAATTATAA
6835617 TTAAAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
26 5 0.22
27 8 0.35
28 10 0.43
ACGTcount: A:0.58, C:0.06, G:0.02, T:0.34
Consensus pattern (26 bp):
ATCTGAAAAATTCAAATAATTATAAA
Found at i:6836716 original size:31 final size:31
Alignment explanation
Indices: 6836623--6836718 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
6836613 GGCAAATTAC
*
6836623 AAGAGTAATTGAATCCTAATAAAACTCTTTC
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
6836654 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
6836686 AAGAGTAATTGAATCCTAATAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
6836717 AA
1 AA
6836719 ATTATCTAAG
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.46, C:0.14, G:0.09, T:0.31
Consensus pattern (31 bp):
AAGAGTAATTGAATCCTAATAAAACTCTTTA
Found at i:6841797 original size:23 final size:24
Alignment explanation
Indices: 6841761--6841822 Score: 65
Period size: 23 Copynumber: 2.6 Consensus size: 24
6841751 TCTCAACTTT
**
6841761 TTTTTTGCGCTTTTTGCTTCTT-C-
1 TTTTTTGCTTTTTTTGCTT-TTGCG
* *
6841784 TTTTTTTCTTTTTTTTCTTTTGCG
1 TTTTTTGCTTTTTTTGCTTTTGCG
6841808 TTTTTTGCTTTTTTT
1 TTTTTTGCTTTTTTT
6841823 TGCTGTTTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
22 2 0.06
23 16 0.50
24 14 0.44
ACGTcount: A:0.00, C:0.15, G:0.10, T:0.76
Consensus pattern (24 bp):
TTTTTTGCTTTTTTTGCTTTTGCG
Found at i:6841798 original size:24 final size:25
Alignment explanation
Indices: 6841771--6841826 Score: 73
Period size: 24 Copynumber: 2.3 Consensus size: 25
6841761 TTTTTTGCGC
*
6841771 TTTTTGCTTCTT-C-TTTTTTTCTTT
1 TTTTTGCTT-TTGCGTTTTTTGCTTT
6841795 TTTTT-CTTTTGCGTTTTTTGCTTT
1 TTTTTGCTTTTGCGTTTTTTGCTTT
6841819 TTTTTGCT
1 TTTTTGCT
6841827 GTTTTTGCTA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
22 2 0.07
23 4 0.14
24 20 0.71
25 2 0.07
ACGTcount: A:0.00, C:0.14, G:0.09, T:0.77
Consensus pattern (25 bp):
TTTTTGCTTTTGCGTTTTTTGCTTT
Found at i:6841862 original size:9 final size:9
Alignment explanation
Indices: 6841801--6841862 Score: 51
Period size: 9 Copynumber: 7.1 Consensus size: 9
6841791 CTTTTTTTTC
*
6841801 TTTTGCGTT
1 TTTTGCTTT
6841810 TTTTGCTTTT
1 TTTTGC-TTT
*
6841820 TTTTGCTGT
1 TTTTGCTTT
6841829 TTTTGCTATT
1 TTTTGCT-TT
*
6841839 TTTT--ATT
1 TTTTGCTTT
6841846 TTTT--TTT
1 TTTTGCTTT
6841853 TTTTGCTTT
1 TTTTGCTTT
6841862 T
1 T
6841863 ATTTAAAGAA
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
7 12 0.27
9 19 0.43
10 13 0.30
ACGTcount: A:0.03, C:0.08, G:0.11, T:0.77
Consensus pattern (9 bp):
TTTTGCTTT
Found at i:6842002 original size:31 final size:31
Alignment explanation
Indices: 6841909--6842004 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
6841899 GGCAAATTAC
*
6841909 AAGAGTAATTGAATCCTAATAAAACTCTTTC
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
6841940 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
6841972 AAGAGTAATTGAATCCTAATAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
6842003 AA
1 AA
6842005 ATTATCTAAG
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.46, C:0.14, G:0.09, T:0.31
Consensus pattern (31 bp):
AAGAGTAATTGAATCCTAATAAAACTCTTTA
Found at i:6844315 original size:25 final size:25
Alignment explanation
Indices: 6844285--6844337 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
6844275 ATGACTTCAA
6844285 AAATTTCATCCAAATCATACATCTC
1 AAATTTCATCCAAATCATACATCTC
6844310 AAATTTCATCCAAATCATACATCTC
1 AAATTTCATCCAAATCATACATCTC
6844335 AAA
1 AAA
6844338 GTTTTAGAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.43, C:0.26, G:0.00, T:0.30
Consensus pattern (25 bp):
AAATTTCATCCAAATCATACATCTC
Found at i:6846830 original size:18 final size:18
Alignment explanation
Indices: 6846809--6846846 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
6846799 AAATATATGT
6846809 ATCAAGAC-ACTTATATAC
1 ATCAAGACAAC-TATATAC
6846827 ATCAAGACAACTATATAC
1 ATCAAGACAACTATATAC
6846845 AT
1 AT
6846847 GTCACAACCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 17 0.89
19 2 0.11
ACGTcount: A:0.47, C:0.21, G:0.05, T:0.26
Consensus pattern (18 bp):
ATCAAGACAACTATATAC
Found at i:6848978 original size:27 final size:27
Alignment explanation
Indices: 6848917--6848972 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
6848907 TAGAATTAAC
6848917 TTGAAAACAACCAAATAAAGAATACAT
1 TTGAAAACAACCAAATAAAGAATACAT
* *
6848944 TTGAAAACAATCAAATAAAGATTACAT
1 TTGAAAACAACCAAATAAAGAATACAT
6848971 TT
1 TT
6848973 ACAAACGAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.55, C:0.12, G:0.07, T:0.25
Consensus pattern (27 bp):
TTGAAAACAACCAAATAAAGAATACAT
Found at i:6851220 original size:20 final size:20
Alignment explanation
Indices: 6851155--6851225 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
6851145 GCCTAGAGTA
6851155 ATTTTGACTTGTTTGAAAATC
1 ATTTTGACTTGTTTG-AAATC
* * *
6851176 ATTTTGA-TAAG-TTAAAATG
1 ATTTTGACT-TGTTTGAAATC
*
6851195 ATTTTGACTTGTTTGCAATC
1 ATTTTGACTTGTTTGAAATC
6851215 ATTTTGACTTG
1 ATTTTGACTTG
6851226 ATTTTAAAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
19 12 0.30
20 20 0.50
21 8 0.20
ACGTcount: A:0.28, C:0.08, G:0.15, T:0.48
Consensus pattern (20 bp):
ATTTTGACTTGTTTGAAATC
Found at i:6864498 original size:13 final size:13
Alignment explanation
Indices: 6864482--6864510 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
6864472 GCCCTTTAAT
6864482 TAAACACACAAAA
1 TAAACACACAAAA
6864495 TAAACACACAAAA
1 TAAACACACAAAA
6864508 TAA
1 TAA
6864511 TATTAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.69, C:0.21, G:0.00, T:0.10
Consensus pattern (13 bp):
TAAACACACAAAA
Found at i:6865811 original size:23 final size:22
Alignment explanation
Indices: 6865785--6865833 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 22
6865775 ATATAATTGA
* *
6865785 TGAATTGATCCCTACAAAAAATT
1 TGAAATGATCCC-ACAAAAAAAT
6865808 TGAAAATGATCCCACAAAAAAAT
1 TG-AAATGATCCCACAAAAAAAT
6865831 TGA
1 TGA
6865834 CTTCACAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 1 0.04
23 13 0.57
24 9 0.39
ACGTcount: A:0.49, C:0.16, G:0.10, T:0.24
Consensus pattern (22 bp):
TGAAATGATCCCACAAAAAAAT
Found at i:6869546 original size:5 final size:5
Alignment explanation
Indices: 6869536--6869571 Score: 63
Period size: 5 Copynumber: 7.2 Consensus size: 5
6869526 CTCCATTTTC
*
6869536 TCCCA TCCCA TCCCA TCCCA TCCCA TCCGA TCCCA T
1 TCCCA TCCCA TCCCA TCCCA TCCCA TCCCA TCCCA T
6869572 TCTATGCTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.19, C:0.56, G:0.03, T:0.22
Consensus pattern (5 bp):
TCCCA
Found at i:6888571 original size:21 final size:21
Alignment explanation
Indices: 6888545--6888592 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 21
6888535 TCTATTTGTC
6888545 TTTTAAAAATAATA-TTTTTAT
1 TTTTAAAAA-AATATTTTTTAT
6888566 TTTT-AAAAAATATTTTTTAT
1 TTTTAAAAAAATATTTTTTAT
6888586 TCTTTAA
1 T-TTTAA
6888593 TTTTAAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 4 0.17
20 12 0.50
21 7 0.29
22 1 0.04
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (21 bp):
TTTTAAAAAAATATTTTTTAT
Found at i:6888583 original size:20 final size:22
Alignment explanation
Indices: 6888545--6888592 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
6888535 TCTATTTGTC
6888545 TTTT-AAAAATAATATTTTTAT
1 TTTTAAAAAATAATATTTTTAT
6888566 TTTTAAAAAAT-AT-TTTTTAT
1 TTTTAAAAAATAATATTTTTAT
6888586 TCTTTAA
1 T-TTTAA
6888593 TTTTAAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.32
21 11 0.44
22 6 0.24
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (22 bp):
TTTTAAAAAATAATATTTTTAT
Found at i:6888980 original size:5 final size:5
Alignment explanation
Indices: 6888972--6889004 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
6888962 TAATATAATA
6888972 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
6889005 TTTTATTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:6889020 original size:20 final size:21
Alignment explanation
Indices: 6888997--6889037 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
6888987 AAAATAAAAT
6888997 AAAATAAATTTT-ATT-TTTAA
1 AAAAT-AATTTTGATTCTTTAA
6889017 AAAATAATTTTGATTCTTTAA
1 AAAATAATTTTGATTCTTTAA
6889038 TTTTAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.32
20 8 0.42
21 5 0.26
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.49
Consensus pattern (21 bp):
AAAATAATTTTGATTCTTTAA
Found at i:6889061 original size:220 final size:220
Alignment explanation
Indices: 6888550--6889437 Score: 1319
Period size: 220 Copynumber: 4.0 Consensus size: 220
6888540 TTGTCTTTTA
* * *
6888550 AAAATAATATTTTTATTTTTAAAAAATATTTTTTATTCTTTAATTTTAAAAATTAGAAAAAATTA
1 AAAATAA-A-TTTTATTTTTAAAAAATAATTTTGATTCTTTAATTTTAAAAATT-GAAAAAATCA
6888615 TGTTTGTTTAATGAAAATGAAAATGAAAATATCAAAATGCATATGATACTTATTTTTCACAATAA
63 TGTTTG--T--T--AAATGAAAATGAAAATATCAAAATGCATATGATACTTATTTTTCACAATAA
* * * ** *
6888680 AAACATATAAAATAATTACTAAATATAATCAAATTAAAAATATGATTTTTTATAAATGAAAATGT
122 AAACATGTAAGATAACTACTAAATAT--T-AAATTAAAAATATGATTTTCGATAAATAAAAATGT
6888745 TACTAATATAATAAAAATAAAT----T-AAATAAAAT
184 TACTAATATAATAAAAATAAATAAAATAAAATAAAAT
* * * * *
6888777 -TATTTAATTTTGTTTTTTAAAAAATAATTTTGATTCTTTAATTTTAAAAATTAAAAAAATCATG
1 AAAATAAATTTT-ATTTTTAAAAAATAATTTTGATTCTTTAATTTTAAAAATTGAAAAAATCATG
6888841 TTTGTTAAATGAAAATGAAAATATCAAAATGCATATGATACTTATTTTTCACAATAAAAACATGT
65 TTTGTTAAATGAAAATGAAAATATCAAAATGCATATGATACTTATTTTTCACAATAAAAACATGT
*
6888906 AAGTTAACTACTAAATATTAAATTAAAAAT-TGATTTTCGATAAATAAAAATGTTACTAATATAA
130 AAGATAACTACTAAATATTAAATTAAAAATATGATTTTCGATAAATAAAAATGTTACTAATATAA
6888970 TAAAAATAAAATAAAATAAAATAAAAT
195 TAAAAAT-AAATAAAATAAAATAAAAT
6888997 AAAATAAATTTTATTTTTAAAAAATAATTTTGATTCTTTAATTTTAAAAATTGAAAAAATCATGT
1 AAAATAAATTTTATTTTTAAAAAATAATTTTGATTCTTTAATTTTAAAAATTGAAAAAATCATGT
6889062 TTGTTAAATGAAAATGAAAATATCAAAATGCATATGATACTTATTTTTCACAATAAAAACATGTA
66 TTGTTAAATGAAAATGAAAATATCAAAATGCATATGATACTTATTTTTCACAATAAAAACATGTA
*
6889127 AGTTAACTACTAAATATTAAATTAAAAAT-TGATTTTCGATAAATAAAAATGTTACTAATATAAT
131 AGATAACTACTAAATATTAAATTAAAAATATGATTTTCGATAAATAAAAATGTTACTAATATAAT
6889191 AAAAATAAAATAAAATAAAATAAAAT
196 AAAAAT-AAATAAAATAAAATAAAAT
6889217 AAAATAAATTTTATTTTTAAAAAATAATTTTGATTCTTTAATTTTAAAAATTGAAAAAATCATGT
1 AAAATAAATTTTATTTTTAAAAAATAATTTTGATTCTTTAATTTTAAAAATTGAAAAAATCATGT
* *
6889282 TTGTTAAATGAAAATGAAAATATGAAAATGCATACGATACTTATTTTTTCACAATAAAAACATGT
66 TTGTTAAATGAAAATGAAAATATCAAAATGCATATGATACTTA-TTTTTCACAATAAAAACATGT
* *
6889347 AACATAATTACTAAATATAGTTAAATT-AAAATATGATTTTAC-ATAAATAAAAATGTTACTAAT
130 AAGATAACTACT-AA-ATA-TTAAATTAAAAATATGATTTT-CGATAAATAAAAATGTTACTAAT
**
6889410 ATGGTAAAAATAAATAAAATAAACATAA
191 ATAATAAAAATAAATAAAATAAA-ATAA
6889438 GTTATCTAAT
Statistics
Matches: 619, Mismatches: 27, Indels: 33
0.91 0.04 0.05
Matches are distributed among these distances:
214 38 0.06
215 15 0.02
216 1 0.00
218 73 0.12
219 1 0.00
220 322 0.52
221 38 0.06
222 3 0.00
223 20 0.03
224 66 0.11
225 39 0.06
226 3 0.00
ACGTcount: A:0.51, C:0.05, G:0.06, T:0.38
Consensus pattern (220 bp):
AAAATAAATTTTATTTTTAAAAAATAATTTTGATTCTTTAATTTTAAAAATTGAAAAAATCATGT
TTGTTAAATGAAAATGAAAATATCAAAATGCATATGATACTTATTTTTCACAATAAAAACATGTA
AGATAACTACTAAATATTAAATTAAAAATATGATTTTCGATAAATAAAAATGTTACTAATATAAT
AAAAATAAATAAAATAAAATAAAAT
Found at i:6889200 original size:5 final size:5
Alignment explanation
Indices: 6889192--6889224 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
6889182 TAATATAATA
6889192 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
6889225 TTTTATTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:6889240 original size:20 final size:21
Alignment explanation
Indices: 6889217--6889257 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
6889207 AAAATAAAAT
6889217 AAAATAAATTTT-ATT-TTTAA
1 AAAAT-AATTTTGATTCTTTAA
6889237 AAAATAATTTTGATTCTTTAA
1 AAAATAATTTTGATTCTTTAA
6889258 TTTTAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.32
20 8 0.42
21 5 0.26
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.49
Consensus pattern (21 bp):
AAAATAATTTTGATTCTTTAA
Found at i:6896858 original size:14 final size:14
Alignment explanation
Indices: 6896839--6896880 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
6896829 TGATCCTCGG
6896839 GATTTAGAGTTCAA
1 GATTTAGAGTTCAA
*
6896853 GATTTA-AGGTTCAG
1 GATTTAGA-GTTCAA
6896867 GATTT-GAGTTCAA
1 GATTTAGAGTTCAA
6896880 G
1 G
6896881 GTTGGGGGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
13 7 0.29
14 17 0.71
ACGTcount: A:0.31, C:0.07, G:0.26, T:0.36
Consensus pattern (14 bp):
GATTTAGAGTTCAA
Found at i:6897042 original size:21 final size:18
Alignment explanation
Indices: 6896996--6897044 Score: 53
Period size: 21 Copynumber: 2.6 Consensus size: 18
6896986 TGCACAAAAA
6896996 TAAAAAAAAATATTAATT
1 TAAAAAAAAATATTAATT
**
6897014 TATGAAAAAATGATTACAATT
1 TAAAAAAAAAT-ATT--AATT
6897035 TAAAAAAAAA
1 TAAAAAAAAA
6897045 GAAAAGATGT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 9 0.38
19 3 0.12
21 12 0.50
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (18 bp):
TAAAAAAAAATATTAATT
Found at i:6897308 original size:4 final size:4
Alignment explanation
Indices: 6897299--6897381 Score: 157
Period size: 4 Copynumber: 20.8 Consensus size: 4
6897289 CTTATGTTTT
6897299 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
6897347 CATA CATA CATA CACA CATA CATA CATA CATA CAT
1 CATA CATA CATA CATA CATA CATA CATA CATA CAT
6897382 TTTATTTATA
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
4 77 1.00
ACGTcount: A:0.49, C:0.27, G:0.00, T:0.24
Consensus pattern (4 bp):
CATA
Found at i:6899535 original size:21 final size:21
Alignment explanation
Indices: 6899506--6899548 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
6899496 AGGATTGTTA
*
6899506 TGTGTTGCTGTTACAAGCATT
1 TGTGCTGCTGTTACAAGCATT
*
6899527 TGTGCTGCTGTTACGAGCATT
1 TGTGCTGCTGTTACAAGCATT
6899548 T
1 T
6899549 TTTGTTTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.16, C:0.16, G:0.26, T:0.42
Consensus pattern (21 bp):
TGTGCTGCTGTTACAAGCATT
Found at i:6900587 original size:43 final size:43
Alignment explanation
Indices: 6900539--6900694 Score: 206
Period size: 43 Copynumber: 3.6 Consensus size: 43
6900529 AAATAAGAGA
* * * *
6900539 CGCTAAAGATCATGACCTTTAGCGGCGCTTTTCCCAAAAATGC
1 CGCTAAAGAACAAGACCTTTAGCGGCGCTTTTCCCGAAAACGC
6900582 CGCTAAAGAACAAGACCTTTAGCGGCGC-TTTCCCTGAAAACGC
1 CGCTAAAGAACAAGACCTTTAGCGGCGCTTTTCCC-GAAAACGC
* * * * *
6900625 CGCTAAAGAACAAGACTTTTAACGGTGCTTTACCTGAAAACGC
1 CGCTAAAGAACAAGACCTTTAGCGGCGCTTTTCCCGAAAACGC
*
6900668 CGCTAAAGAGCAAGACCTTTAGCGGCG
1 CGCTAAAGAACAAGACCTTTAGCGGCG
6900695 TGTTTAGAGA
Statistics
Matches: 98, Mismatches: 13, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
42 6 0.06
43 88 0.90
44 4 0.04
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.21
Consensus pattern (43 bp):
CGCTAAAGAACAAGACCTTTAGCGGCGCTTTTCCCGAAAACGC
Found at i:6900769 original size:13 final size:13
Alignment explanation
Indices: 6900751--6900776 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6900741 AAAACACCAC
6900751 AAATTATTATAAA
1 AAATTATTATAAA
6900764 AAATTATTATAAA
1 AAATTATTATAAA
6900777 CGGCACTTTC
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:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
AAATTATTATAAA
Found at i:6903007 original size:26 final size:27
Alignment explanation
Indices: 6902969--6903019 Score: 86
Period size: 26 Copynumber: 1.9 Consensus size: 27
6902959 AACTTACAGT
6902969 TTCTGGTCATCGTCAATTTCTAGCTTC
1 TTCTGGTCATCGTCAATTTCTAGCTTC
*
6902996 TTCTGG-CATCGTCGATTTCTAGCT
1 TTCTGGTCATCGTCAATTTCTAGCT
6903020 AAAATATAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 17 0.74
27 6 0.26
ACGTcount: A:0.14, C:0.25, G:0.18, T:0.43
Consensus pattern (27 bp):
TTCTGGTCATCGTCAATTTCTAGCTTC
Found at i:6907238 original size:72 final size:72
Alignment explanation
Indices: 6907121--6907336 Score: 432
Period size: 72 Copynumber: 3.0 Consensus size: 72
6907111 CAGATTCTAA
6907121 ATTAATGATATGTCCAATTAAGCATTTCCTTCCTTAAAAAACAATTGATATTTCACCTTATAAAT
1 ATTAATGATATGTCCAATTAAGCATTTCCTTCCTTAAAAAACAATTGATATTTCACCTTATAAAT
6907186 CATGCCT
66 CATGCCT
6907193 ATTAATGATATGTCCAATTAAGCATTTCCTTCCTTAAAAAACAATTGATATTTCACCTTATAAAT
1 ATTAATGATATGTCCAATTAAGCATTTCCTTCCTTAAAAAACAATTGATATTTCACCTTATAAAT
6907258 CATGCCT
66 CATGCCT
6907265 ATTAATGATATGTCCAATTAAGCATTTCCTTCCTTAAAAAACAATTGATATTTCACCTTATAAAT
1 ATTAATGATATGTCCAATTAAGCATTTCCTTCCTTAAAAAACAATTGATATTTCACCTTATAAAT
6907330 CATGCCT
66 CATGCCT
6907337 TTTGCCTTCA
Statistics
Matches: 144, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 144 1.00
ACGTcount: A:0.36, C:0.19, G:0.07, T:0.38
Consensus pattern (72 bp):
ATTAATGATATGTCCAATTAAGCATTTCCTTCCTTAAAAAACAATTGATATTTCACCTTATAAAT
CATGCCT
Found at i:6922243 original size:2 final size:2
Alignment explanation
Indices: 6922236--6922261 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6922226 GTAACATGAT
6922236 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
6922262 ATCATGTTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6924677 original size:21 final size:21
Alignment explanation
Indices: 6924647--6924693 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
6924637 GACATATTTG
6924647 GTAT-TAGGTATCAATACTCTA
1 GTATATAGGTATCAATACT-TA
*
6924668 G-ATATAGGTATCAGTACTTA
1 GTATATAGGTATCAATACTTA
6924688 GTATAT
1 GTATAT
6924694 TTCAAATAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 5 0.22
21 18 0.78
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.38
Consensus pattern (21 bp):
GTATATAGGTATCAATACTTA
Found at i:6925770 original size:44 final size:45
Alignment explanation
Indices: 6925673--6925773 Score: 159
Period size: 45 Copynumber: 2.3 Consensus size: 45
6925663 AATCCAACTC
6925673 AATAAAACTAAAACAAAAGTCTACCAAATTACCTAACCCAATAAA
1 AATAAAACTAAAACAAAAGTCTACCAAATTACCTAACCCAATAAA
* * * *
6925718 ACTAAAACTAAAACTAAAGTCTACCCAATTAGC-AACCCAATAAA
1 AATAAAACTAAAACAAAAGTCTACCAAATTACCTAACCCAATAAA
6925762 AATAAAACTAAA
1 AATAAAACTAAA
6925774 GTCTATTAAC
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
44 22 0.43
45 29 0.57
ACGTcount: A:0.57, C:0.22, G:0.03, T:0.18
Consensus pattern (45 bp):
AATAAAACTAAAACAAAAGTCTACCAAATTACCTAACCCAATAAA
Found at i:6927486 original size:21 final size:21
Alignment explanation
Indices: 6927456--6927502 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
6927446 GACATATTTG
6927456 GTAT-TAGGTATCAATACTCTA
1 GTATATAGGTATCAATACT-TA
*
6927477 G-ATATAGGTATCAGTACTTA
1 GTATATAGGTATCAATACTTA
6927497 GTATAT
1 GTATAT
6927503 TTCAAATAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 5 0.22
21 18 0.78
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.38
Consensus pattern (21 bp):
GTATATAGGTATCAATACTTA
Found at i:6928915 original size:10 final size:10
Alignment explanation
Indices: 6928900--6928946 Score: 51
Period size: 10 Copynumber: 4.8 Consensus size: 10
6928890 ATCAATTCTT
6928900 AATAAATATA
1 AATAAATATA
* *
6928910 AATAAATTTT
1 AATAAATATA
*
6928920 AATCAA-ATA
1 AATAAATATA
*
6928929 AATAAATAAA
1 AATAAATATA
6928939 AATAAATA
1 AATAAATA
6928947 AATTGAGATT
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
9 6 0.21
10 23 0.79
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (10 bp):
AATAAATATA
Found at i:6928931 original size:19 final size:21
Alignment explanation
Indices: 6928893--6928935 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
6928883 ACACACGATC
6928893 AATTCTTAATAAATATAAATA
1 AATTCTTAATAAATATAAATA
*
6928914 AATT-TTAATCAA-ATAAATA
1 AATTCTTAATAAATATAAATA
6928933 AAT
1 AAT
6928936 AAAAATAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 10 0.48
20 7 0.33
21 4 0.19
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (21 bp):
AATTCTTAATAAATATAAATA
Found at i:6931663 original size:20 final size:20
Alignment explanation
Indices: 6931599--6931670 Score: 65
Period size: 20 Copynumber: 3.5 Consensus size: 20
6931589 AATCTCTTAT
6931599 TATTTTATAAAAGAACATAAA
1 TATTTTATAAAAGAA-ATAAA
** *
6931620 TACCTT-TAAAATAAATATTAA
1 TATTTTATAAAAGAAATA--AA
*
6931641 TATTTTATAAAAGAAATAGA
1 TATTTTATAAAAGAAATAAA
*
6931661 TATTTAATAA
1 TATTTTATAA
6931671 TTTTCTGGGA
Statistics
Matches: 40, Mismatches: 8, Indels: 7
0.73 0.15 0.13
Matches are distributed among these distances:
19 3 0.08
20 17 0.43
21 10 0.25
22 10 0.25
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.38
Consensus pattern (20 bp):
TATTTTATAAAAGAAATAAA
Found at i:6936327 original size:14 final size:15
Alignment explanation
Indices: 6936302--6936332 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
6936292 TATACCATGG
6936302 TTTAACTTAATTAAC
1 TTTAACTTAATTAAC
6936317 TTTAA-TTAATTAAC
1 TTTAACTTAATTAAC
6936331 TT
1 TT
6936333 AATCTTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.69
15 5 0.31
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.52
Consensus pattern (15 bp):
TTTAACTTAATTAAC
Found at i:6936357 original size:21 final size:20
Alignment explanation
Indices: 6936303--6936344 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
6936293 ATACCATGGT
6936303 TTAACTTAA-TTAA-CTTTAA
1 TTAA-TTAACTTAATCTTTAA
6936322 TTAATTAACTTAATCTTTAA
1 TTAATTAACTTAATCTTTAA
6936342 TTA
1 TTA
6936345 TTTTACCTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 4 0.19
19 8 0.38
20 9 0.43
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (20 bp):
TTAATTAACTTAATCTTTAA
Found at i:6942905 original size:89 final size:89
Alignment explanation
Indices: 6942749--6942927 Score: 349
Period size: 89 Copynumber: 2.0 Consensus size: 89
6942739 GTGGAGAGAA
*
6942749 TTCTTTTATAAAGGGAGGCTGATTGGATGTCAATCTCAACCATTGAGTTTCCTATATCTCATAGG
1 TTCTGTTATAAAGGGAGGCTGATTGGATGTCAATCTCAACCATTGAGTTTCCTATATCTCATAGG
6942814 AGTAGTGATAGAGTGGTTGAAAGC
66 AGTAGTGATAGAGTGGTTGAAAGC
6942838 TTCTGTTATAAAGGGAGGCTGATTGGATGTCAATCTCAACCATTGAGTTTCCTATATCTCATAGG
1 TTCTGTTATAAAGGGAGGCTGATTGGATGTCAATCTCAACCATTGAGTTTCCTATATCTCATAGG
6942903 AGTAGTGATAGAGTGGTTGAAAGC
66 AGTAGTGATAGAGTGGTTGAAAGC
6942927 T
1 T
6942928 AGAAAATTTT
Statistics
Matches: 89, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
89 89 1.00
ACGTcount: A:0.28, C:0.13, G:0.25, T:0.34
Consensus pattern (89 bp):
TTCTGTTATAAAGGGAGGCTGATTGGATGTCAATCTCAACCATTGAGTTTCCTATATCTCATAGG
AGTAGTGATAGAGTGGTTGAAAGC
Found at i:6944963 original size:25 final size:25
Alignment explanation
Indices: 6944934--6944985 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
6944924 TATTTTAGAT
*
6944934 TATTTATAAACCTTGTATATTTATC
1 TATTTATAAACCTTGTATATGTATC
* * *
6944959 TATTTATAAGCTTTTTATATGTATC
1 TATTTATAAACCTTGTATATGTATC
6944984 TA
1 TA
6944986 GCCTTTGAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.31, C:0.10, G:0.06, T:0.54
Consensus pattern (25 bp):
TATTTATAAACCTTGTATATGTATC
Found at i:6946167 original size:24 final size:22
Alignment explanation
Indices: 6946127--6946170 Score: 70
Period size: 24 Copynumber: 1.9 Consensus size: 22
6946117 GAAAAATATT
6946127 AAATATATTTTTTTTATTTTTA
1 AAATATATTTTTTTTATTTTTA
6946149 AAATATAATATTTTTTTATTTT
1 AAATAT-AT-TTTTTTTATTTT
6946171 AAGTTTATCT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 6 0.30
23 2 0.10
24 12 0.60
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (22 bp):
AAATATATTTTTTTTATTTTTA
Found at i:6946379 original size:16 final size:16
Alignment explanation
Indices: 6946358--6946399 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
6946348 AATAATTTGA
*
6946358 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
6946374 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
6946390 TAGTTTTAAT
1 TAATTTTAAT
6946400 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:6946425 original size:6 final size:6
Alignment explanation
Indices: 6946414--6946442 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
6946404 TTAAAAAAAC
6946414 TAATTT TAATTT TAATTT TAATTT TAATT
1 TAATTT TAATTT TAATTT TAATTT TAATT
6946443 AAAAACGAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (6 bp):
TAATTT
Found at i:6957754 original size:7 final size:8
Alignment explanation
Indices: 6957731--6957771 Score: 55
Period size: 8 Copynumber: 4.9 Consensus size: 8
6957721 TTTTTAATAT
6957731 TTTAAAAA
1 TTTAAAAA
*
6957739 TTCAAAAAA
1 TT-TAAAAA
6957748 TTTAAAAA
1 TTTAAAAA
6957756 TTTAAAAA
1 TTTAAAAA
6957764 TTATAAAA
1 TT-TAAAA
6957772 TAAATTATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
8 17 0.59
9 12 0.41
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (8 bp):
TTTAAAAA
Found at i:6957770 original size:9 final size:9
Alignment explanation
Indices: 6957733--6957820 Score: 58
Period size: 9 Copynumber: 9.7 Consensus size: 9
6957723 TTTAATATTT
6957733 TAAAAATTCA
1 TAAAAATT-A
6957743 -AAAAATT-
1 TAAAAATTA
6957750 TAAAAATT-
1 TAAAAATTA
6957758 TAAAAATTA
1 TAAAAATTA
6957767 TAAAATAAATTA
1 T--AA-AAATTA
* **
6957779 TTAATGTTA
1 TAAAAATTA
*
6957788 TTAAAAAGTA
1 -TAAAAATTA
*
6957798 TAAAAACTA
1 TAAAAATTA
6957807 TAAAAA-TA
1 TAAAAATTA
6957815 TAAAAA
1 TAAAAA
6957821 AATATTTTTC
Statistics
Matches: 64, Mismatches: 8, Indels: 14
0.74 0.09 0.16
Matches are distributed among these distances:
8 23 0.36
9 26 0.41
10 6 0.09
11 2 0.03
12 7 0.11
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (9 bp):
TAAAAATTA
Found at i:6957771 original size:17 final size:17
Alignment explanation
Indices: 6957731--6957763 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
6957721 TTTTTAATAT
6957731 TTTAAAAATTCAAAAAA
1 TTTAAAAATTCAAAAAA
*
6957748 TTTAAAAATTTAAAAA
1 TTTAAAAATTCAAAAA
6957764 TTATAAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (17 bp):
TTTAAAAATTCAAAAAA
Found at i:6975597 original size:50 final size:50
Alignment explanation
Indices: 6975522--6975621 Score: 182
Period size: 50 Copynumber: 2.0 Consensus size: 50
6975512 TCAGATTGGC
6975522 TCGGCTTTAAATTTGGGGTAATATAAGTGAGGGAAATTTGGAATATTCCT
1 TCGGCTTTAAATTTGGGGTAATATAAGTGAGGGAAATTTGGAATATTCCT
* *
6975572 TCGGCTTTAAATTTGGGTTAATATAAGTGAGGTAAATTTGGAATATTCCT
1 TCGGCTTTAAATTTGGGGTAATATAAGTGAGGGAAATTTGGAATATTCCT
6975622 AGTAACCAAG
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.30, C:0.08, G:0.24, T:0.38
Consensus pattern (50 bp):
TCGGCTTTAAATTTGGGGTAATATAAGTGAGGGAAATTTGGAATATTCCT
Found at i:6975819 original size:33 final size:33
Alignment explanation
Indices: 6975782--6975844 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
6975772 GATCTTTAAG
* **
6975782 TTGGTTATTTTTTTTTTGTATAGTTTAATTTTT
1 TTGGTTATATTTTAGTTGTATAGTTTAATTTTT
6975815 TTGGTTATATTTTAGTTGTATAGTTTAATT
1 TTGGTTATATTTTAGTTGTATAGTTTAATT
6975845 ATTATTTTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.19, C:0.00, G:0.14, T:0.67
Consensus pattern (33 bp):
TTGGTTATATTTTAGTTGTATAGTTTAATTTTT
Found at i:6976686 original size:33 final size:33
Alignment explanation
Indices: 6976644--6976709 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
6976634 AATTTTCATT
*
6976644 CTTCTGTTGTAATGTATCAGCGTCAGTTAATCA
1 CTTCTGTTGTAATGTATCAACGTCAGTTAATCA
6976677 CTTCTGTTGTAATGTATCAACGTCAGTTAATCA
1 CTTCTGTTGTAATGTATCAACGTCAGTTAATCA
6976710 TATAGAAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.26, C:0.18, G:0.17, T:0.39
Consensus pattern (33 bp):
CTTCTGTTGTAATGTATCAACGTCAGTTAATCA
Found at i:6976798 original size:16 final size:16
Alignment explanation
Indices: 6976777--6976809 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
6976767 AAACTTGTAG
6976777 AAATAAGTTTGAAGAT
1 AAATAAGTTTGAAGAT
6976793 AAATAAGTTTGAAGAT
1 AAATAAGTTTGAAGAT
6976809 A
1 A
6976810 TAATTGAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.18, T:0.30
Consensus pattern (16 bp):
AAATAAGTTTGAAGAT
Found at i:6979911 original size:66 final size:65
Alignment explanation
Indices: 6979804--6979974 Score: 218
Period size: 66 Copynumber: 2.6 Consensus size: 65
6979794 GAGCAAATTA
* * * *
6979804 CACAACTTAAAGCGGAGGCAACATCGAGAGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTCCA
1 CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAG-TATGAAGAACTCCA
6979868 G
65 G
* *
6979869 CTACAACTGAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACGAAAGTATGAAGAACTCCA
1 C-ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCA
6979934 G
65 G
* * * *
6979935 CAGCAGCTTAAAGCAGATGCGGCAGCAAGAGAAGCAGAGG
1 CA-CAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGG
6979975 CGGCAGCGAG
Statistics
Matches: 92, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
65 2 0.02
66 86 0.93
67 4 0.04
ACGTcount: A:0.40, C:0.19, G:0.28, T:0.12
Consensus pattern (65 bp):
CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCAG
Found at i:6980018 original size:21 final size:21
Alignment explanation
Indices: 6979945--6980037 Score: 96
Period size: 21 Copynumber: 4.4 Consensus size: 21
6979935 CAGCAGCTTA
* *
6979945 AAGCAGATGCGGCAGCAAGAG
1 AAGCAGAGGCGGCAGCGAGAG
6979966 AAGCAGAGGCGGCAGCGAGAG
1 AAGCAGAGGCGGCAGCGAGAG
* * * *
6979987 AAGTACAGGCTGCAGCGAGGG
1 AAGCAGAGGCGGCAGCGAGAG
*** *
6980008 AAGCAGAGGCTAAAGCGAGGG
1 AAGCAGAGGCGGCAGCGAGAG
6980029 AAGCAGAGG
1 AAGCAGAGG
6980038 AGCGTCAAAA
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 62 1.00
ACGTcount: A:0.35, C:0.17, G:0.43, T:0.04
Consensus pattern (21 bp):
AAGCAGAGGCGGCAGCGAGAG
Found at i:6980468 original size:43 final size:43
Alignment explanation
Indices: 6980414--6980597 Score: 244
Period size: 43 Copynumber: 4.3 Consensus size: 43
6980404 GGTAAAAAAA
* *
6980414 CGCCGCTAAAGATAAGGGTCTTTAGCGGCGTTTGTGGAAAAAG
1 CGCCGCTAAAGATCAGGGTCTTTAGCGGCGTTTGTGGAGAAAG
* * *
6980457 CGACACTAAAGATCATGGTCTTTAGCGGCGTTTGTGGAGAAAG
1 CGCCGCTAAAGATCAGGGTCTTTAGCGGCGTTTGTGGAGAAAG
* *
6980500 TGCCGCTAAAGATCATGGTCTTTAGCGGCGTTTGTGGAGAAAG
1 CGCCGCTAAAGATCAGGGTCTTTAGCGGCGTTTGTGGAGAAAG
** * *
6980543 CGCCGCTAAAGATCAGGGTCTTTAATGGAGTTTGAGG-GAAAAG
1 CGCCGCTAAAGATCAGGGTCTTTAGCGGCGTTTGTGGAG-AAAG
*
6980586 CGTCGCTAAAGA
1 CGCCGCTAAAGA
6980598 CCTTAATCTT
Statistics
Matches: 125, Mismatches: 15, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
42 1 0.01
43 124 0.99
ACGTcount: A:0.28, C:0.16, G:0.32, T:0.24
Consensus pattern (43 bp):
CGCCGCTAAAGATCAGGGTCTTTAGCGGCGTTTGTGGAGAAAG
Found at i:6980651 original size:129 final size:129
Alignment explanation
Indices: 6980414--6980658 Score: 285
Period size: 129 Copynumber: 1.9 Consensus size: 129
6980404 GGTAAAAAAA
* * * * **
6980414 CGCCGCTAAAGATAAGGGTCTTTAGCGGCGTTTGTGGAAAAAGCGACACTAAAGATCATGGTCTT
1 CGCCGCTAAAGATAAGGGTCTTTAACGGAGTTTGAGGAAAAAGCGACACTAAAGACCATAATCTT
** * ** * * *
6980479 TAGCGGCGTTTGTGGAGAAAGTGCCGCTAAAGATCATGGTCTTTAGCGGCGTTTGTGGAGAAAG
66 TAGCGGCGCCTGTGCAGAAAACGCCGCTAAAAACCATGATCTTTAGCGGCGTTTGTGGAGAAAG
* * * * * *
6980543 CGCCGCTAAAGATCAGGGTCTTTAATGGAGTTTGAGGGAAAAGCGTCGCTAAAGACCTTAATCTT
1 CGCCGCTAAAGATAAGGGTCTTTAACGGAGTTTGAGGAAAAAGCGACACTAAAGACCATAATCTT
*
6980608 TAGCGGCGCCTGTCGCA-AAAACGCCGCTAAAAACCCTGATCTTTAGCGGCG
66 TAGCGGCGCCTGT-GCAGAAAACGCCGCTAAAAACCATGATCTTTAGCGGCG
6980659 CTTTCCCCAC
Statistics
Matches: 94, Mismatches: 21, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
129 92 0.98
130 2 0.02
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (129 bp):
CGCCGCTAAAGATAAGGGTCTTTAACGGAGTTTGAGGAAAAAGCGACACTAAAGACCATAATCTT
TAGCGGCGCCTGTGCAGAAAACGCCGCTAAAAACCATGATCTTTAGCGGCGTTTGTGGAGAAAG
Found at i:6980719 original size:43 final size:43
Alignment explanation
Indices: 6980409--6980729 Score: 240
Period size: 43 Copynumber: 7.5 Consensus size: 43
6980399 TTTTCGGTAA
* ** *
6980409 AAAAACGCCGCTAAAGATAAGGGTCTTTAGCGGCGTTTGTG-G
1 AAAAGCGCCGCTAAAGACCATGGTCTTTAGCGGCGTTTGTGCG
* * *
6980451 AAAAAGCGACACTAAAGATCATGGTCTTTAGCGGCGTTTGTG-G
1 -AAAAGCGCCGCTAAAGACCATGGTCTTTAGCGGCGTTTGTGCG
* *
6980494 AGAAAGTGCCGCTAAAGATCATGGTCTTTAGCGGCGTTTGTG-G
1 A-AAAGCGCCGCTAAAGACCATGGTCTTTAGCGGCGTTTGTGCG
* * ** * * *
6980537 AGAAAGCGCCGCTAAAGATCAGGGTCTTTAATGGAGTTTGAGGG
1 A-AAAGCGCCGCTAAAGACCATGGTCTTTAGCGGCGTTTGTGCG
* * ** **
6980581 AAAAGCGTCGCTAAAGACCTTAATCTTTAGCGGCGCCTGT-CG
1 AAAAGCGCCGCTAAAGACCATGGTCTTTAGCGGCGTTTGTGCG
* * * * ** *
6980623 CAAAAACGCCGCTAAAAACCCTGATCTTTAGCGGCGCTTT-CCCC
1 -AAAAGCGCCGCTAAAGACCATGGTCTTTAGCGGCG-TTTGTGCG
* * *
6980667 ACAAA-CGCCGCTAAAGACCATGATCTTTAACGGCGTTTGTGCT
1 A-AAAGCGCCGCTAAAGACCATGGTCTTTAGCGGCGTTTGTGCG
* *
6980710 AGAAGCGCCGCTATAGACCA
1 AAAAGCGCCGCTAAAGACCA
6980730 ACACCTTTAG
Statistics
Matches: 226, Mismatches: 44, Indels: 16
0.79 0.15 0.06
Matches are distributed among these distances:
42 7 0.03
43 212 0.94
44 7 0.03
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.23
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGACCATGGTCTTTAGCGGCGTTTGTGCG
Found at i:6980872 original size:22 final size:21
Alignment explanation
Indices: 6980839--6980883 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 21
6980829 ATTTGCGTTG
*
6980839 CTAAAAAACGCCGCTAAAGGC
1 CTAAAAAACGCCGCTAAAAGC
6980860 CTAAAAAAGCGCCGCTAAAAGC
1 CTAAAAAA-CGCCGCTAAAAGC
6980882 CT
1 CT
6980884 GTTTTAGTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.42, C:0.29, G:0.18, T:0.11
Consensus pattern (21 bp):
CTAAAAAACGCCGCTAAAAGC
Found at i:6981617 original size:42 final size:42
Alignment explanation
Indices: 6981486--6981634 Score: 138
Period size: 42 Copynumber: 3.5 Consensus size: 42
6981476 GCACTTGTAG
* * * * *
6981486 TGCATCATCGGATAAGTCGAAGGAAACATACTGGCATACATAGA
1 TGCATCATCGGATAAATCGAAGCAAATATACTGACACACA-A-A
* * * * **
6981530 -GCATCATCGAATAAGTCGAAGCAATTATACTGACACATAGG
1 TGCATCATCGGATAAATCGAAGCAAATATACTGACACACAAA
* * *
6981571 TGCATCATTGGATGAATCGAATCAAATATACTGACACACAAA
1 TGCATCATCGGATAAATCGAAGCAAATATACTGACACACAAA
*
6981613 TGCATCGTCGGATAAATCGAAG
1 TGCATCATCGGATAAATCGAAG
6981635 TATAAACCTG
Statistics
Matches: 82, Mismatches: 22, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
42 50 0.61
43 32 0.39
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.22
Consensus pattern (42 bp):
TGCATCATCGGATAAATCGAAGCAAATATACTGACACACAAA
Found at i:6984460 original size:18 final size:18
Alignment explanation
Indices: 6984429--6984463 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6984419 TTCTATATAT
*
6984429 AAATAAAATAAGAAATTG
1 AAATAAAAGAAGAAATTG
*
6984447 AAATAAAAGGAGAAATT
1 AAATAAAAGAAGAAATT
6984464 AGAGTTAAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.66, C:0.00, G:0.14, T:0.20
Consensus pattern (18 bp):
AAATAAAAGAAGAAATTG
Found at i:6989298 original size:21 final size:23
Alignment explanation
Indices: 6989274--6989317 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 23
6989264 GGCATTGTGG
*
6989274 CAGTTCCA-AGGGAAGAT-TGAC
1 CAGTTCCATAAGGAAGATGTGAC
6989295 CAGTTCCATAAGGAAGATGTGAC
1 CAGTTCCATAAGGAAGATGTGAC
6989318 GAGGGCGTCG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 8 0.40
22 8 0.40
23 4 0.20
ACGTcount: A:0.34, C:0.18, G:0.27, T:0.20
Consensus pattern (23 bp):
CAGTTCCATAAGGAAGATGTGAC
Done.