Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 33 of 444
Found at i:8111679 original size:22 final size:22
Alignment explanation
Indices: 8111639--8111680 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
8111629 TGGCCACCCA
*
8111639 CCTTGGCCACCAACTCCACCAC
1 CCTTGGCCACCAACACCACCAC
8111661 CCTTGGCCACCTAA-ACCACC
1 CCTTGGCCACC-AACACCACC
8111681 CCAACCACTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.24, C:0.52, G:0.10, T:0.14
Consensus pattern (22 bp):
CCTTGGCCACCAACACCACCAC
Found at i:8111797 original size:20 final size:24
Alignment explanation
Indices: 8111755--8111802 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 24
8111745 GCTTTTGGTT
*
8111755 TTTTGGAGGAGGATTATTCTTT-G
1 TTTTAGAGGAGGATTATTCTTTGG
8111778 TTTTAGAGGAGG-TT-TT-TTTGG
1 TTTTAGAGGAGGATTATTCTTTGG
8111799 TTTT
1 TTTT
8111803 TGGAGGTGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 3 0.13
21 7 0.30
22 2 0.09
23 11 0.48
ACGTcount: A:0.15, C:0.02, G:0.29, T:0.54
Consensus pattern (24 bp):
TTTTAGAGGAGGATTATTCTTTGG
Found at i:8112184 original size:3 final size:3
Alignment explanation
Indices: 8112149--8112242 Score: 65
Period size: 3 Copynumber: 31.3 Consensus size: 3
8112139 GAGCTTTGTT
* * *
8112149 TTA TTT TTA TT- TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
8112192 TTA TTA TTA TT- TCTCA TGTA TATA TTA TTA TT- TATA TTA TTA TTA
1 TTA TTA TTA TTA T-T-A T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA
8112237 -TA TTA T
1 TTA TTA T
8112243 ATATGCCCTC
Statistics
Matches: 73, Mismatches: 8, Indels: 20
0.72 0.08 0.20
Matches are distributed among these distances:
2 9 0.12
3 55 0.75
4 7 0.10
5 2 0.03
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:8112217 original size:21 final size:18
Alignment explanation
Indices: 8112149--8112246 Score: 91
Period size: 18 Copynumber: 5.6 Consensus size: 18
8112139 GAGCTTTGTT
*
8112149 TTATTTTTATT-TTATT-
1 TTATTTATATTATTATTA
*
8112165 TTA-TTAT-TT-TTACTA
1 TTATTTATATTATTATTA
8112180 TTATTTATATTATTATTA
1 TTATTTATATTATTATTA
*
8112198 TTATTTCTCATGTATATATTA
1 TTATTTAT-AT-TAT-TATTA
8112219 TTATTTATATTATTATTA
1 TTATTTATATTATTATTA
8112237 -TATTATATAT
1 TTATT-TATAT
8112247 GCCCTCTCTA
Statistics
Matches: 69, Mismatches: 5, Indels: 14
0.78 0.06 0.16
Matches are distributed among these distances:
14 6 0.09
15 6 0.09
16 7 0.10
17 6 0.09
18 22 0.32
19 5 0.07
20 5 0.07
21 12 0.17
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (18 bp):
TTATTTATATTATTATTA
Found at i:8112608 original size:2 final size:2
Alignment explanation
Indices: 8112603--8112644 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
8112593 GTATTTCTAT
* *
8112603 TA TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8112645 GTATTATTGT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8112651 original size:12 final size:11
Alignment explanation
Indices: 8112600--8112651 Score: 61
Period size: 12 Copynumber: 4.5 Consensus size: 11
8112590 TGTGTATTTC
8112600 TATTATATATA
1 TATTATATATA
*
8112611 CA-TATATATA
1 TATTATATATA
8112621 TATATATATATA
1 TAT-TATATATA
8112633 TATTTATATATA
1 TA-TTATATATA
8112645 GTATTAT
1 -TATTAT
8112652 TGTTTACTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
10 9 0.26
11 1 0.03
12 22 0.63
13 3 0.09
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (11 bp):
TATTATATATA
Found at i:8114600 original size:15 final size:14
Alignment explanation
Indices: 8114568--8114617 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 14
8114558 AAGTTGTGAA
8114568 TTTAATTTATATTT
1 TTTAATTTATATTT
8114582 TTTAATTTGATCA-TT
1 TTTAATTT-AT-ATTT
8114597 TTTAATTTTATACTTT
1 TTTAA-TTTATA-TTT
8114613 TTTAA
1 TTTAA
8114618 ATTTTGAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
14 9 0.29
15 11 0.35
16 11 0.35
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.66
Consensus pattern (14 bp):
TTTAATTTATATTT
Found at i:8118667 original size:3 final size:3
Alignment explanation
Indices: 8118652--8118694 Score: 68
Period size: 3 Copynumber: 14.3 Consensus size: 3
8118642 CTATAAAATA
* *
8118652 ATT ATT ATC ATT ATT ATA ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
8118695 CAAATGTTCC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:8120945 original size:16 final size:16
Alignment explanation
Indices: 8120924--8120955 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
8120914 TTACAATATT
*
8120924 ATTATAATTTTTAATC
1 ATTATAATATTTAATC
8120940 ATTATAATATTTAATC
1 ATTATAATATTTAATC
8120956 TAATTAATCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (16 bp):
ATTATAATATTTAATC
Found at i:8123941 original size:1 final size:1
Alignment explanation
Indices: 8123935--8123963 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
8123925 TTGTTTCTGG
8123935 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
8123964 GCATTCATGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:8126620 original size:29 final size:29
Alignment explanation
Indices: 8126584--8126642 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
8126574 ACTTGTCGGG
8126584 TTACTTCAGTGTATCTGAAACTGCTTGTA
1 TTACTTCAGTGTATCTGAAACTGCTTGTA
8126613 TTACTTCAGTGTATCTGAAACTGCTTGTA
1 TTACTTCAGTGTATCTGAAACTGCTTGTA
8126642 T
1 T
8126643 CCGCTCTTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.24, C:0.17, G:0.17, T:0.42
Consensus pattern (29 bp):
TTACTTCAGTGTATCTGAAACTGCTTGTA
Found at i:8129538 original size:31 final size:31
Alignment explanation
Indices: 8129475--8129538 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
8129465 AAATTTCCAA
* *
8129475 AATTTGAAAAGTACAAAAATAAAAATTGATC
1 AATTTGAAAAATACAAAAATAAAAATTAATC
* * *
8129506 AATTTGAAAAATACAAATATTAGAATTAATC
1 AATTTGAAAAATACAAAAATAAAAATTAATC
8129537 AA
1 AA
8129539 ATAAGAGTAC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.58, C:0.06, G:0.08, T:0.28
Consensus pattern (31 bp):
AATTTGAAAAATACAAAAATAAAAATTAATC
Found at i:8132298 original size:25 final size:26
Alignment explanation
Indices: 8132249--8132299 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
8132239 ACAAATAATT
*
8132249 AAAAATTATAATAAAATATTAAAAAC
1 AAAAATTATAATAAAATAATAAAAAC
8132275 AAAAATTAT-ATAAAATACATAAAAA
1 AAAAATTATAATAAAATA-ATAAAAA
8132300 ATTAAAAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 8 0.35
26 15 0.65
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (26 bp):
AAAAATTATAATAAAATAATAAAAAC
Found at i:8140737 original size:21 final size:21
Alignment explanation
Indices: 8140699--8140746 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
8140689 ACGATTTTTC
*
8140699 TTTAAATTTGAATAGTTGATAT
1 TTTAAATTTGAATAGTTG-TAA
8140721 TTTAATATTT-AA-AGTTGTAA
1 TTTAA-ATTTGAATAGTTGTAA
8140741 TTTAAA
1 TTTAAA
8140747 ATTAATATTC
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
19 1 0.04
20 7 0.29
21 5 0.21
22 7 0.29
23 4 0.17
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (21 bp):
TTTAAATTTGAATAGTTGTAA
Found at i:8148763 original size:12 final size:13
Alignment explanation
Indices: 8148746--8148774 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
8148736 TCTTGAAACA
8148746 TTATTTATT-TAT
1 TTATTTATTGTAT
8148758 TTATTTATTGTAT
1 TTATTTATTGTAT
8148771 TTAT
1 TTAT
8148775 GAAATTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.72
Consensus pattern (13 bp):
TTATTTATTGTAT
Found at i:8163255 original size:46 final size:46
Alignment explanation
Indices: 8163089--8163264 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
8163079 TGTAACCCGC
* * * *
8163089 CCATAAGCGAACTCGGACTCAACTCAATGAGCTT-GGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAG-TTCGGACATTTGCAT
* * * *
8163135 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
* *
8163185 -C-TCA-CGAACTCGGATTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
*
8163228 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
8163265 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 16, Indels: 16
0.77 0.12 0.12
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 4 0.04
46 58 0.55
47 28 0.26
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:8163255 original size:93 final size:93
Alignment explanation
Indices: 8163096--8163267 Score: 274
Period size: 93 Copynumber: 1.8 Consensus size: 93
8163086 CGCCCATAAG
* * * *
8163096 CGAACTCGGACTCAACTCAATGAGCTTGGGCGTTCGCATCCATGAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTTGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
8163161 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
8163189 CGAACTCGGATTCAACTCAACGAG-TTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTT-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
8163253 AACGAGTTCGGATGC
65 AACGAGTTCGGATGC
8163268 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.23
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTTGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:8163283 original size:46 final size:45
Alignment explanation
Indices: 8163140--8163283 Score: 127
Period size: 46 Copynumber: 3.1 Consensus size: 45
8163130 CGCATCCATG
8163140 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCT
* * * * *
8163187 CA-CGAACTCGGATTCAACTCAACGAGTTCGGACAT-TTGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCT
8163233 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CT
8163279 AGTGA
1 AGTGA
8163284 CATGTCACTT
Statistics
Matches: 77, Mismatches: 10, Indels: 20
0.72 0.09 0.19
Matches are distributed among these distances:
44 8 0.10
45 2 0.03
46 32 0.42
47 30 0.39
48 1 0.01
49 3 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCT
Found at i:8171370 original size:21 final size:21
Alignment explanation
Indices: 8171346--8171388 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
8171336 TGGGACTGGG
8171346 AGTCGGCGCTGCCATTGAAAA
1 AGTCGGCGCTGCCATTGAAAA
*
8171367 AGTCGGGGCTGCCATTGAAAA
1 AGTCGGCGCTGCCATTGAAAA
8171388 A
1 A
8171389 TAAACTATCG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.21, G:0.30, T:0.19
Consensus pattern (21 bp):
AGTCGGCGCTGCCATTGAAAA
Found at i:8171888 original size:233 final size:231
Alignment explanation
Indices: 8171464--8172074 Score: 870
Period size: 233 Copynumber: 2.6 Consensus size: 231
8171454 AAAGAGTTGT
* *
8171464 GTGCTATATATAGAGAGGTTGATATGCAGTAAGCAAGGGCCACAGAGAAGTGGAATGGTCAATGC
1 GTGCTATATATAGAGAGGTTAATATGCAGTAAACAAGGGCCACAGAGAAGTGGAA--GT-AA---
* * * *
8171529 TATAGTAAATAGGTCTTGGTGATTTACGAGGGTGATACTTCCCAATGATCTATATATCGACCACT
60 TATAGTAAATAAGTCTTGGTGATTTACAAGGGTGATACTTCCCAATGATCTAT-TATCTACAACT
* * * *
8171594 GGCCTCCAACATTTGTCCAGGAACTGATAACTAATGCTAATAATTACTGTCTTGGGAATTCAAAA
124 GGCCTCCAACATTTGACCAGGAACTGATAACTAAGGCTAATAATTACGGTCTTGAGAATTCAAAA
*
8171659 ATCGATAATTATCTCTTATTTACTTATGAGGTTACATATATCA
189 ATCGATAATTATCTCTTATTTACTTATGAGGTTAAATATATCA
*
8171702 GTGCTATATATATATATAGAGGTTAATATGCAGTAAACAAGGGCCACAGAGAAGTGGAA-T-AT-
1 GTGC----TATATATAGAGAGGTTAATATGCAGTAAACAAGGGCCACAGAGAAGTGGAAGTAATA
*
8171764 TGGTAAATAAGTCTTGGTGATTTACAAGGGTGATACTTCCCAATGATCTATGTATCTACAACTGG
62 TAGTAAATAAGTCTTGGTGATTTACAAGGGTGATACTTCCCAATGATCTAT-TATCTACAACTGG
* * *
8171829 CCTCCAACATTTGACTAGGAACTGATAACTAAGGCTAATAATTTCGGTCTTGAGAATTCAATAAT
126 CCTCCAACATTTGACCAGGAACTGATAACTAAGGCTAATAATTACGGTCTTGAGAATTCAAAAAT
* *
8171894 CTATAATTATCTCTTATTTACTTGTGAGGTTAAATATATCA
191 CGATAATTATCTCTTATTTACTTATGAGGTTAAATATATCA
* *
8171935 GTGCTATATATAGAGAGGTTAATATGCAGTAACCAAGGGCCACAGAGAAGTGGAATGGTCAATGC
1 GTGCTATATATAGAGAGGTTAATATGCAGTAAACAAGGGCCACAGAGAAGTGGAA--GT-AAT-A
8172000 TAGTAAATAAGTCTTGGTGATTTACAAGGGTGATACTTCCCAATGATCTA-TATCTACAACTGGC
62 TAGTAAATAAGTCTTGGTGATTTACAAGGGTGATACTTCCCAATGATCTATTATCTACAACTGGC
8172064 CTCCAACATTT
127 CTCCAACATTT
8172075 TGATATAGAT
Statistics
Matches: 340, Mismatches: 22, Indels: 26
0.88 0.06 0.07
Matches are distributed among these distances:
229 49 0.14
232 1 0.00
233 159 0.47
234 28 0.08
236 49 0.14
237 1 0.00
238 4 0.01
239 1 0.00
242 48 0.14
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (231 bp):
GTGCTATATATAGAGAGGTTAATATGCAGTAAACAAGGGCCACAGAGAAGTGGAAGTAATATAGT
AAATAAGTCTTGGTGATTTACAAGGGTGATACTTCCCAATGATCTATTATCTACAACTGGCCTCC
AACATTTGACCAGGAACTGATAACTAAGGCTAATAATTACGGTCTTGAGAATTCAAAAATCGATA
ATTATCTCTTATTTACTTATGAGGTTAAATATATCA
Found at i:8172215 original size:12 final size:13
Alignment explanation
Indices: 8172193--8172232 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
8172183 CCTTATAAAC
8172193 TTTAAATTAGGAA
1 TTTAAATTAGGAA
* *
8172206 TTT-TATTAGGAC
1 TTTAAATTAGGAA
8172218 TTTAAATTAGGAA
1 TTTAAATTAGGAA
8172231 TT
1 TT
8172233 AGATTAAGAT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
12 10 0.45
13 12 0.55
ACGTcount: A:0.38, C:0.03, G:0.15, T:0.45
Consensus pattern (13 bp):
TTTAAATTAGGAA
Found at i:8172238 original size:25 final size:25
Alignment explanation
Indices: 8172191--8172238 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
8172181 TTCCTTATAA
**
8172191 ACTTTAAATTAGGAATTTTATTAGG
1 ACTTTAAATTAGGAATTAGATTAGG
8172216 ACTTTAAATTAGGAATTAGATTA
1 ACTTTAAATTAGGAATTAGATTA
8172239 AGATTTTCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.40, C:0.04, G:0.15, T:0.42
Consensus pattern (25 bp):
ACTTTAAATTAGGAATTAGATTAGG
Found at i:8176876 original size:25 final size:25
Alignment explanation
Indices: 8176826--8176876 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
8176816 TTTCTTATAA
* ** *
8176826 ACTTTAAATTAGGAATTCTATTAGG
1 ACTTTAAATTAGAAATTAGATAAGG
8176851 ACTTTAAATTAGAAATTAGATAAGG
1 ACTTTAAATTAGAAATTAGATAAGG
8176876 A
1 A
8176877 TTTTCCTTTG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.43, C:0.06, G:0.16, T:0.35
Consensus pattern (25 bp):
ACTTTAAATTAGAAATTAGATAAGG
Found at i:8179882 original size:43 final size:43
Alignment explanation
Indices: 8179814--8179905 Score: 143
Period size: 43 Copynumber: 2.2 Consensus size: 43
8179804 ATCCTAATTG
8179814 GAAAATAGTTCCTTATTCTAATAAACTACTAAAACATAAAA-A
1 GAAAATAGTTCCTTATTCTAATAAACTACTAAAACATAAAATA
* *
8179856 GAAAATAGTTCCCTTATTCTAGTAAACTACTAAAAGATAAAATA
1 GAAAATAGTT-CCTTATTCTAATAAACTACTAAAACATAAAATA
8179900 -AAAATA
1 GAAAATA
8179906 TTTCTAGAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
42 10 0.22
43 35 0.76
44 1 0.02
ACGTcount: A:0.52, C:0.13, G:0.07, T:0.28
Consensus pattern (43 bp):
GAAAATAGTTCCTTATTCTAATAAACTACTAAAACATAAAATA
Found at i:8179949 original size:19 final size:17
Alignment explanation
Indices: 8179927--8179965 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
8179917 TGAATAAAAC
8179927 TTATCTATCCAAATAAGAT
1 TTATCTA-CCAAATAA-AT
*
8179946 TTATCTACCTAATAAAT
1 TTATCTACCAAATAAAT
8179963 TTA
1 TTA
8179966 AAATATATAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 5 0.26
18 7 0.37
19 7 0.37
ACGTcount: A:0.41, C:0.15, G:0.03, T:0.41
Consensus pattern (17 bp):
TTATCTACCAAATAAAT
Found at i:8184600 original size:42 final size:44
Alignment explanation
Indices: 8184540--8184631 Score: 145
Period size: 42 Copynumber: 2.2 Consensus size: 44
8184530 ATCCTAATTG
8184540 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA-A
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
* *
8184583 GAAAATAG-TCCCTTATTCTAGTAAACTACTAAAAGATAAAATA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
8184626 -AAAATA
1 GAAAATA
8184632 TTTCTAGAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
42 37 0.80
43 9 0.20
ACGTcount: A:0.52, C:0.14, G:0.07, T:0.27
Consensus pattern (44 bp):
GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
Found at i:8198952 original size:165 final size:164
Alignment explanation
Indices: 8198655--8198973 Score: 575
Period size: 165 Copynumber: 1.9 Consensus size: 164
8198645 AAAAGCAGTA
* *
8198655 GAAAGTGCACCAGTTGGTGTTAAATCAGCTTTTCTGAATAGATTTATCAAGGAAGAGATCTTTGT
1 GAAAGTGCACCAGCTGGTGTTAAATCAGCTTTTCTGAATAGATTTATCAAGAAAGAGATCTTTGT
* * *
8198720 TAAACACTGATGGTTTCAAGGTCCTTGGTGAAGAGCACAAGGTCTACAAGCTCAATAAGGTATTG
66 TAAACACTAATGGTTTCAAGGTCCTTGGTGAAGAGCACAAGGTCTACAAGCTCAAGAAGGCATTG
8198785 TATGGCCTAAAACAAGCTCCAAGGTCCTTGACTG
131 TATGGCCTAAAACAAGCTCCAAGGTCCTTGACTG
*
8198819 GAAAGTGCACCAGCTGGATGTTAAATCAGCTTTTCTGAATGGATTTATCAAGAAAGAGATCTTTG
1 GAAAGTGCACCAGCTGG-TGTTAAATCAGCTTTTCTGAATAGATTTATCAAGAAAGAGATCTTTG
8198884 TTAAACACTAATGGTTTCAAGGTCCTTGGTGAAGAGCACAAGGTCTACAAGCTCAAGAAGGCATT
65 TTAAACACTAATGGTTTCAAGGTCCTTGGTGAAGAGCACAAGGTCTACAAGCTCAAGAAGGCATT
8198949 GTATGGCCTAAAACAAGCTCCAAGG
130 GTATGGCCTAAAACAAGCTCCAAGG
8198974 GCCTGATATG
Statistics
Matches: 148, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
164 16 0.11
165 132 0.89
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.27
Consensus pattern (164 bp):
GAAAGTGCACCAGCTGGTGTTAAATCAGCTTTTCTGAATAGATTTATCAAGAAAGAGATCTTTGT
TAAACACTAATGGTTTCAAGGTCCTTGGTGAAGAGCACAAGGTCTACAAGCTCAAGAAGGCATTG
TATGGCCTAAAACAAGCTCCAAGGTCCTTGACTG
Found at i:8206746 original size:29 final size:28
Alignment explanation
Indices: 8206692--8206754 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 28
8206682 AACCCCAAAC
* *
8206692 CCTAAA-TTTTAAATTCTAAACTCTAAA
1 CCTAAACTTTAAAATCCTAAACTCTAAA
8206719 CCTTAAACTTTAAAATCCTAAA-TCCTAAA
1 CC-TAAACTTTAAAATCCTAAACT-CTAAA
8206748 CCTAAAC
1 CCTAAAC
8206755 CCTATTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
27 2 0.06
28 10 0.32
29 19 0.61
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (28 bp):
CCTAAACTTTAAAATCCTAAACTCTAAA
Found at i:8209012 original size:17 final size:17
Alignment explanation
Indices: 8208944--8209020 Score: 65
Period size: 17 Copynumber: 4.7 Consensus size: 17
8208934 CCAAAAGATG
8208944 CGAGCTCACC-AGA--A
1 CGAGCTCACCAAGATCA
*
8208958 C-AGCTCACCAAGAACTA
1 CGAGCTCACCAAGATC-A
* **
8208975 CGAGCTTACCAA-ATGTG
1 CGAGCTCACCAAGAT-CA
8208992 CGAGCTCACCAAGATCA
1 CGAGCTCACCAAGATCA
8209009 CGAGCTCACCAA
1 CGAGCTCACCAA
8209021 AGCATAAGAG
Statistics
Matches: 49, Mismatches: 7, Indels: 11
0.73 0.10 0.16
Matches are distributed among these distances:
13 8 0.16
14 4 0.08
17 26 0.53
18 11 0.22
ACGTcount: A:0.35, C:0.34, G:0.18, T:0.13
Consensus pattern (17 bp):
CGAGCTCACCAAGATCA
Found at i:8209032 original size:35 final size:35
Alignment explanation
Indices: 8208959--8209036 Score: 88
Period size: 35 Copynumber: 2.2 Consensus size: 35
8208949 TCACCAGAAC
* **
8208959 AGCTCACCAAGAACTACGAGCTTACCAAATGTGCG
1 AGCTCACCAAGAACTACGAGCTCACCAAATGTAAG
*
8208994 AGCTCACCAAGATC-ACGAGCTCACCAAA-GCATAAG
1 AGCTCACCAAGAACTACGAGCTCACCAAATG--TAAG
8209029 AGCTCACC
1 AGCTCACC
8209037 TGCGAGCTCA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
33 1 0.03
34 13 0.35
35 23 0.62
ACGTcount: A:0.36, C:0.32, G:0.18, T:0.14
Consensus pattern (35 bp):
AGCTCACCAAGAACTACGAGCTCACCAAATGTAAG
Found at i:8209033 original size:18 final size:17
Alignment explanation
Indices: 8208993--8209036 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
8208983 CCAAATGTGC
*
8208993 GAGCTCACCAAGATCAC
1 GAGCTCACCAAGATCAA
8209010 GAGCTCACCAAAGCAT-AA
1 GAGCTCACC-AAG-ATCAA
8209028 GAGCTCACC
1 GAGCTCACC
8209037 TGCGAGCTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 9 0.38
18 13 0.54
19 2 0.08
ACGTcount: A:0.36, C:0.34, G:0.18, T:0.11
Consensus pattern (17 bp):
GAGCTCACCAAGATCAA
Found at i:8209059 original size:29 final size:30
Alignment explanation
Indices: 8209009--8209073 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 30
8208999 ACCAAGATCA
8209009 CGAGCTCACCAAAGCATAAGAGCTCACCTG
1 CGAGCTCACCAAAGCATAAGAGCTCACCTG
* * *
8209039 CGAGCTCATC-AAGCATGAGAGCTCACTTG
1 CGAGCTCACCAAAGCATAAGAGCTCACCTG
*
8209068 AGAGCT
1 CGAGCT
8209074 TTTCACTTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 22 0.71
30 9 0.29
ACGTcount: A:0.31, C:0.29, G:0.23, T:0.17
Consensus pattern (30 bp):
CGAGCTCACCAAAGCATAAGAGCTCACCTG
Found at i:8221655 original size:69 final size:68
Alignment explanation
Indices: 8221475--8221738 Score: 300
Period size: 69 Copynumber: 3.8 Consensus size: 68
8221465 GAAAAGGAAG
* * *
8221475 TATAAGTAATATCAAATTTAAATA-TTAAAAAGTAAAAGAATAATAAATAAATAAATAGATAAAA
1 TATAA-TAATATTAAATTTAAGTATTTAAAAAGTAAAAGAATAATAAATAAATAAATCGATAAAA
*
8221539 CAGA
65 TAGA
* *
8221543 TA-CATAATATTAAATTTAAGTATTTAAGAAGTAAAAGAATAATAAATAAATAAATCGATAAAAT
1 TATAATAATATTAAATTTAAGTATTTAAAAAGTAAAAGAATAATAAATAAATAAATCGATAAAAT
8221607 AGA
66 AGA
* * * *
8221610 TATGAATAATATAAAATTTAAGTATTTAAAAAGTAAAAGAATAATAAACAAACAAA-CAAATAAA
1 TAT-AATAATATTAAATTTAAGTATTTAAAAAGTAAAAGAATAATAAATAAATAAATC-GATAAA
*
8221674 TATAACAAA
64 -AT---AGA
* * * *
8221683 TATAAATAATATTAATTTTAGGTATTTAAAGAGTGAAAGAATAATAAATAAATAAA
1 TAT-AATAATATTAAATTTAAGTATTTAAAAAGTAAAAGAATAATAAATAAATAAA
8221739 ATAAAACAAA
Statistics
Matches: 167, Mismatches: 21, Indels: 11
0.84 0.11 0.06
Matches are distributed among these distances:
66 16 0.10
67 44 0.26
68 3 0.02
69 52 0.31
70 2 0.01
73 50 0.30
ACGTcount: A:0.61, C:0.03, G:0.08, T:0.28
Consensus pattern (68 bp):
TATAATAATATTAAATTTAAGTATTTAAAAAGTAAAAGAATAATAAATAAATAAATCGATAAAAT
AGA
Found at i:8221722 original size:142 final size:135
Alignment explanation
Indices: 8221481--8221738 Score: 338
Period size: 142 Copynumber: 1.9 Consensus size: 135
8221471 GAAGTATAAG
* * * * * *
8221481 TAATATCAAATTTAAATATTAAAAAGTAAAAGAATAATAAATAAATAAATAGATAAAACAGATAC
1 TAATATAAAATTTAAATATTAAAAAGTAAAAGAATAATAAACAAACAAATAAATAAAAAAGATAA
8221546 ATAATATTAAATTTAAGTATTTAAGAAGTAAAAGAATAATAAATAAATAAATCGATAAAATAGAT
66 ATAATATTAAATTTAAGTATTTAAGAAGTAAAAGAATAATAAATAAATAAATCGATAAAATAGAT
8221611 ATGAA
131 ATGAA
*
8221616 TAATATAAAATTTAAGTATTTAAAAAGTAAAAGAATAATAAACAAACAAACAAATAAATATAACA
1 TAATATAAAATTTAAATA-TTAAAAAGTAAAAGAATAAT----AAACAAACAAATAAATA-AA-A
* * * *
8221681 AATATAAATAATATTAATTTTAGGTATTTAA-AGAGTGAAAGAATAATAAATAAATAAA
59 AAGATAAATAATATTAAATTTAAGTATTTAAGA-AGTAAAAGAATAATAAATAAATAAA
8221739 ATAAAACAAA
Statistics
Matches: 104, Mismatches: 11, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
135 16 0.15
136 20 0.19
140 14 0.13
141 3 0.03
142 51 0.49
ACGTcount: A:0.61, C:0.03, G:0.08, T:0.28
Consensus pattern (135 bp):
TAATATAAAATTTAAATATTAAAAAGTAAAAGAATAATAAACAAACAAATAAATAAAAAAGATAA
ATAATATTAAATTTAAGTATTTAAGAAGTAAAAGAATAATAAATAAATAAATCGATAAAATAGAT
ATGAA
Found at i:8223268 original size:43 final size:44
Alignment explanation
Indices: 8223177--8223298 Score: 129
Period size: 43 Copynumber: 2.8 Consensus size: 44
8223167 TCATTCTAAC
** * ** ** *
8223177 CCACTGCAACTTCAGGGGTATAGGAAGTGTAGTTTCAATTTACT
1 CCACTGCAACTTCAGGGAAATAAGACTTGTAACTTCAATCTACT
* *
8223221 CCACTGCAACTTC-GGGAGATAAGACTTGTAACTTCAATCTGCT
1 CCACTGCAACTTCAGGGAAATAAGACTTGTAACTTCAATCTACT
* *
8223264 CCACTGCAACTTCAGGGAAATAAGATTTGTGACTT
1 CCACTGCAACTTCAGGGAAATAAGACTTGTAACTT
8223299 ATAGCTTTAA
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
43 34 0.52
44 31 0.48
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (44 bp):
CCACTGCAACTTCAGGGAAATAAGACTTGTAACTTCAATCTACT
Found at i:8223507 original size:44 final size:44
Alignment explanation
Indices: 8223387--8223522 Score: 146
Period size: 44 Copynumber: 3.1 Consensus size: 44
8223377 ATAGGTATAG
* ** * ** * *
8223387 GATTTGTCACTTTAATTTGCTCCGCTGCAACTCCAGGGAGATTA
1 GATTTGTAACTTTAATTTGCTCTACTACAACTTTAGAGAGATAA
* * *
8223431 GATTTGTAGCCTTAATTTACTCTACTACAACTTTAGAGAGATAA
1 GATTTGTAACTTTAATTTGCTCTACTACAACTTTAGAGAGATAA
* * *
8223475 GATTTGTAACTTTAATCTGCTCTACTACAACTTTATAGAGGTAA
1 GATTTGTAACTTTAATTTGCTCTACTACAACTTTAGAGAGATAA
8223519 GATT
1 GATT
8223523 CACTATCACT
Statistics
Matches: 75, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
44 75 1.00
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (44 bp):
GATTTGTAACTTTAATTTGCTCTACTACAACTTTAGAGAGATAA
Found at i:8223763 original size:96 final size:95
Alignment explanation
Indices: 8223653--8224128 Score: 481
Period size: 96 Copynumber: 5.0 Consensus size: 95
8223643 AGGATTTTTG
* * * *
8223653 ACTTGTAGCCTTAATCTATTCCACTGCAACTTCAGAGAAATAAGATTCTCTATCTATAATATGCT
1 ACTTGTAGCTTTAATCTGTTCCACTGCAACTTCAG-GAAATAAGATTCTCTATCTTTAATCTGCT
* *
8223718 CAACTGCAACTTCAAGAAGATAAGATTTGTA
65 CAACTGCAACTTCAGGGAGATAAGATTTGTA
* *
8223749 ACTTGTAGATTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGT-TATCTTTAATTTGC
1 ACTTGTAGCTTTAATCTGTTCCACTGCAACTTCA-GGAAATAAGATTC-TCTATCTTTAATCTGC
* *
8223813 TCCATTGCAACTTCAGGGAGATAAGATTTGTA
64 TCAACTGCAACTTCAGGGAGATAAGATTTGTA
* * * * * * *
8223845 TCTTGTAGCTTTAATATATTCCACTGCAACTTCAAGGAAATAAGATTCGCTATCCTCAATCTACT
1 ACTTGTAGCTTTAATCTGTTCCACTGCAACTTC-AGGAAATAAGATTCTCTATCTTTAATCTGCT
* **
8223910 CTACTGCAACTTCAGGGAGATAAGGCTTGTA
65 CAACTGCAACTTCAGGGAGATAAGATTTGTA
* * * * * *
8223941 ACTTGTTA-CTTCAATAC-GTTCCACTACAGCTTTAGGAAAATAAGATT-TGTAGCTTTAATCTG
1 ACTTG-TAGCTTTAAT-CTGTTCCACTGCAACTTCAGG-AAATAAGATTCTCTATCTTTAATCTG
* * * *
8224003 TTCCACTGCAACTGCAGGTAGAT-A-A----T-
63 CTCAACTGCAACTTCAGGGAGATAAGATTTGTA
* *
8224029 ATTTGTAGCTTTAATCTGTTCCACTGTAACTTCAGGAACATAAGATT-TGCTATCTTTAATCTGC
1 ACTTGTAGCTTTAATCTGTTCCACTGCAACTTCAGGAA-ATAAGATTCT-CTATCTTTAATCTGC
* *
8224093 TCAACTGCAACTTTAGGGAGATAAAATTTGTA
64 TCAACTGCAACTTCAGGGAGATAAGATTTGTA
8224125 ACTT
1 ACTT
8224129 TACTGATTTG
Statistics
Matches: 308, Mismatches: 54, Indels: 36
0.77 0.14 0.09
Matches are distributed among these distances:
87 5 0.02
88 34 0.11
89 31 0.10
90 1 0.00
91 1 0.00
94 1 0.00
95 32 0.10
96 198 0.64
97 5 0.02
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (95 bp):
ACTTGTAGCTTTAATCTGTTCCACTGCAACTTCAGGAAATAAGATTCTCTATCTTTAATCTGCTC
AACTGCAACTTCAGGGAGATAAGATTTGTA
Found at i:8223823 original size:45 final size:44
Alignment explanation
Indices: 8223758--8224130 Score: 201
Period size: 45 Copynumber: 8.1 Consensus size: 44
8223748 AACTTGTAGA
*
8223758 TTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGTTATC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTCG-TATC
* * * *
8223803 TTTAATTTGCTCCATTGCAACTTCAGGGAGATAAGATTTGTATCTTGTAGC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAAATAAGA----T-TC--GTATC
* ** *
8223854 TTTAATATATTCCACTGCAACTTCAAGGAAATAAGATTCGCTATC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTCG-TATC
* * * * * * *
8223899 CTCAATCTACTCTACTGCAACTTCAGGGAGATAAGGCTT-GTAAC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAAATAA-GATTCGTATC
* * * * * * * *
8223943 TTGTTACTTCAATACGTTCCACTACAGCTTTAGGAAAATAAGATTTGTAGC
1 -T-TTA-ATC--T--GCTCCACTGCAACTTCAGGGAAATAAGATTCGTATC
* * * * * * *
8223994 TTTAATCTGTTCCACTGCAACTGCAGGTAGATAATATTTGTAGC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTCGTATC
* * *
8224038 TTTAATCTGTTCCACTGTAACTTCA-GGAACATAAGATTTGCTATC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAA-ATAAGATTCG-TATC
* * * * * *
8224083 TTTAATCTGCTCAACTGCAACTTTAGGGAGATAAAATTTGTAAC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTCGTATC
8224127 TTTA
1 TTTA
8224131 CTGATTTGTT
Statistics
Matches: 253, Mismatches: 55, Indels: 41
0.72 0.16 0.12
Matches are distributed among these distances:
43 2 0.01
44 72 0.28
45 96 0.38
46 11 0.04
47 3 0.01
48 2 0.01
49 5 0.02
50 6 0.02
51 55 0.22
52 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (44 bp):
TTTAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTCGTATC
Found at i:8223878 original size:51 final size:51
Alignment explanation
Indices: 8223654--8223891 Score: 189
Period size: 45 Copynumber: 4.9 Consensus size: 51
8223644 GGATTTTTGA
* * * * *
8223654 CTTGTAGCCTTAATCTATTCCACTGCAACTTCAGAGAAATAAGATTCTCTAT
1 CTTGTAGCTTTAATATGTTCCACTGCAACTTCAGGGAAATAAGATT-TGTAT
* * * *
8223706 C---TA----TAATATGCTCAACTGCAACTTCA-AGAAGATAAGATTTGTAA
1 CTTGTAGCTTTAATATGTTCCACTGCAACTTCAGGGAA-ATAAGATTTGTAT
* *
8223750 CTTGTAGATTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGA----T-T
1 CTTGTAGCTTTAATATGTTCCACTGCAACTTCAGGGAAATAAGATTTGTAT
* * * * * *
8223796 CGT-TATCTTTAATTTGCTCCATTGCAACTTCAGGGAGATAAGATTTGTAT
1 CTTGTAGCTTTAATATGTTCCACTGCAACTTCAGGGAAATAAGATTTGTAT
* *
8223846 CTTGTAGCTTTAATATATTCCACTGCAACTTCAAGGAAATAAGATT
1 CTTGTAGCTTTAATATGTTCCACTGCAACTTCAGGGAAATAAGATT
8223892 CGCTATCCTC
Statistics
Matches: 145, Mismatches: 26, Indels: 31
0.72 0.13 0.15
Matches are distributed among these distances:
44 8 0.06
45 61 0.42
46 2 0.01
47 3 0.02
49 3 0.02
50 3 0.02
51 61 0.42
52 4 0.03
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (51 bp):
CTTGTAGCTTTAATATGTTCCACTGCAACTTCAGGGAAATAAGATTTGTAT
Found at i:8224033 original size:44 final size:44
Alignment explanation
Indices: 8223958--8224130 Score: 193
Period size: 44 Copynumber: 3.9 Consensus size: 44
8223948 ACTTCAATAC
* * * *
8223958 GTTCCACTACAGCTTTAGGAAAATAAGATTTGTAGCTTTAATCT
1 GTTCCACTGCAACTTCAGGAAGATAAGATTTGTAGCTTTAATCT
* * *
8224002 GTTCCACTGCAACTGCAGGTAGATAATATTTGTAGCTTTAATCT
1 GTTCCACTGCAACTTCAGGAAGATAAGATTTGTAGCTTTAATCT
* * *
8224046 GTTCCACTGTAACTTCAGGAACATAAGATTTGCTATCTTTAATCT
1 GTTCCACTGCAACTTCAGGAAGATAAGATTTG-TAGCTTTAATCT
* * * * * *
8224091 GCTCAACTGCAACTTTAGGGAGATAAAATTTGTAACTTTA
1 GTTCCACTGCAACTTCAGGAAGATAAGATTTGTAGCTTTA
8224131 CTGATTTGTT
Statistics
Matches: 107, Mismatches: 21, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
44 71 0.66
45 36 0.34
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (44 bp):
GTTCCACTGCAACTTCAGGAAGATAAGATTTGTAGCTTTAATCT
Found at i:8230667 original size:57 final size:57
Alignment explanation
Indices: 8230579--8230692 Score: 210
Period size: 57 Copynumber: 2.0 Consensus size: 57
8230569 TCGTTATGCC
* *
8230579 CAAAATTGGTACTTAATTGATTATTTGATGTCTTTGGTGTTGAAGATCGAAAATTTG
1 CAAAATTGGTACCTAATTGATTACTTGATGTCTTTGGTGTTGAAGATCGAAAATTTG
8230636 CAAAATTGGTACCTAATTGATTACTTGATGTCTTTGGTGTTGAAGATCGAAAATTTG
1 CAAAATTGGTACCTAATTGATTACTTGATGTCTTTGGTGTTGAAGATCGAAAATTTG
8230693 AAGAGATTTT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
57 55 1.00
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (57 bp):
CAAAATTGGTACCTAATTGATTACTTGATGTCTTTGGTGTTGAAGATCGAAAATTTG
Found at i:8231234 original size:4 final size:4
Alignment explanation
Indices: 8231225--8231252 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
8231215 GTAAAAGAAT
8231225 AATA AATA AATA AATA AATA AATA AATA
1 AATA AATA AATA AATA AATA AATA AATA
8231253 GATAGAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
AATA
Found at i:8231309 original size:68 final size:66
Alignment explanation
Indices: 8231237--8231460 Score: 227
Period size: 73 Copynumber: 3.2 Consensus size: 66
8231227 TAAATAAATA
8231237 AATAAATAAATAAATAGATAGAAAAAATATATACATAATATTAAATTTAAGTATTTAAGAAGTAA
1 AATAAATAAATAAATAGATAGAAAAAATATATA-ATAATATTAAATTTAAGTATTTAA-AAGTAA
8231302 AAG
64 AAG
* * * * *
8231305 AATAATAAATAAATAAATAAATCGATAAAATAGATATGAATAATATAAAATTTAAGTATGTAAAA
1 ---AATAAATAAATAAATAGATAGA-AAAA-ATATAT-AATAATATTAAATTTAAGTAT-TTAAA
8231370 AGTAAAAG
59 AGTAAAAG
* * * * * *
8231378 AATAATAAAAAATAAATAGATATAAAAAATATA-AAAAATATTAATTTTAGGTATTTAAAGAGTG
1 AAT-A-AATAAATAAATAGATAGAAAAAATATATAATAATATTAAATTTAAGTATTTAAA-AGTA
8231442 AAAG
63 AAAG
8231446 AAT-AATAAATAAATA
1 AATAAATAAATAAATA
8231461 AATAATATAA
Statistics
Matches: 129, Mismatches: 17, Indels: 20
0.78 0.10 0.12
Matches are distributed among these distances:
65 11 0.09
67 4 0.03
68 27 0.21
70 7 0.05
71 25 0.19
72 18 0.14
73 33 0.26
74 4 0.03
ACGTcount: A:0.62, C:0.01, G:0.09, T:0.29
Consensus pattern (66 bp):
AATAAATAAATAAATAGATAGAAAAAATATATAATAATATTAAATTTAAGTATTTAAAAGTAAAA
G
Found at i:8231381 original size:35 final size:35
Alignment explanation
Indices: 8231271--8231390 Score: 93
Period size: 35 Copynumber: 3.3 Consensus size: 35
8231261 AAATATATAC
* * *
8231271 ATAATATTAAATTTAAGTATTTAAGAAGTAAAAGA
1 ATAATATAAAATTTAAGTATGTAAAAAGTAAAAGA
* * * *
8231306 ATAATA-AATAA-ATAAATAAATCGATAAAATAG-ATATGA
1 ATAATATAA-AATTTAAGT--AT-G-TAAAA-AGTAAAAGA
8231344 ATAATATAAAATTTAAGTATGTAAAAAGTAAAAGA
1 ATAATATAAAATTTAAGTATGTAAAAAGTAAAAGA
*
8231379 ATAATAAAAAAT
1 ATAATATAAAAT
8231391 AAATAGATAT
Statistics
Matches: 64, Mismatches: 12, Indels: 18
0.68 0.13 0.19
Matches are distributed among these distances:
34 7 0.11
35 28 0.44
36 3 0.05
37 2 0.03
38 16 0.25
39 8 0.12
ACGTcount: A:0.61, C:0.01, G:0.09, T:0.29
Consensus pattern (35 bp):
ATAATATAAAATTTAAGTATGTAAAAAGTAAAAGA
Found at i:8231404 original size:35 final size:35
Alignment explanation
Indices: 8231296--8231405 Score: 98
Period size: 35 Copynumber: 3.1 Consensus size: 35
8231286 AGTATTTAAG
*
8231296 AAGTAAAAGAATAATAAATAAATAAATAAATCGATAAA
1 AAGTAAAAGAATAATAAA-AAATAAATAGAT--ATAAA
* * * ** *
8231334 ATAG-ATATGAATAATATAAAATTTA-AGTATGTAAA
1 A-AGTAAAAGAATAATAAAAAATAAATAG-ATATAAA
8231369 AAGTAAAAGAATAATAAAAAATAAATAGATATAAA
1 AAGTAAAAGAATAATAAAAAATAAATAGATATAAA
8231404 AA
1 AA
8231406 ATATAAAAAA
Statistics
Matches: 55, Mismatches: 13, Indels: 11
0.70 0.16 0.14
Matches are distributed among these distances:
34 2 0.04
35 29 0.53
36 3 0.05
37 7 0.13
38 12 0.22
39 2 0.04
ACGTcount: A:0.65, C:0.01, G:0.09, T:0.25
Consensus pattern (35 bp):
AAGTAAAAGAATAATAAAAAATAAATAGATATAAA
Found at i:8231406 original size:19 final size:18
Alignment explanation
Indices: 8231299--8231408 Score: 57
Period size: 18 Copynumber: 6.1 Consensus size: 18
8231289 ATTTAAGAAG
8231299 TAAAAGAATAATAAATAAA
1 TAAAAGAATAATAAA-AAA
* *
8231318 TAAATA-AATCGATAAAATA
1 TAAA-AGAAT-AATAAAAAA
* * * *
8231337 GATATGAATAATATAAAA
1 TAAAAGAATAATAAAAAA
** * * *
8231355 TTTAAGTAT-GTAAAAAG
1 TAAAAGAATAATAAAAAA
8231372 TAAAAGAATAATAAAAAA
1 TAAAAGAATAATAAAAAA
8231390 TAAATAG-AT-ATAAAAAA
1 TAAA-AGAATAATAAAAAA
8231407 TA
1 TA
8231409 TAAAAAATAT
Statistics
Matches: 66, Mismatches: 20, Indels: 12
0.67 0.20 0.12
Matches are distributed among these distances:
17 21 0.32
18 23 0.35
19 16 0.24
20 6 0.09
ACGTcount: A:0.65, C:0.01, G:0.08, T:0.25
Consensus pattern (18 bp):
TAAAAGAATAATAAAAAA
Found at i:8231418 original size:18 final size:18
Alignment explanation
Indices: 8231372--8231418 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
8231362 ATGTAAAAAG
8231372 TAAAAGAATAATAAAAAATA
1 TAAAA-AAT-ATAAAAAATA
* *
8231392 -AATAGATATAAAAAATA
1 TAAAAAATATAAAAAATA
8231409 TAAAAAATAT
1 TAAAAAATAT
8231419 TAATTTTAGG
Statistics
Matches: 22, Mismatches: 4, Indels: 4
0.73 0.13 0.13
Matches are distributed among these distances:
17 10 0.45
18 9 0.41
19 3 0.14
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.23
Consensus pattern (18 bp):
TAAAAAATATAAAAAATA
Found at i:8231469 original size:68 final size:69
Alignment explanation
Indices: 8231237--8231484 Score: 295
Period size: 68 Copynumber: 3.5 Consensus size: 69
8231227 TAAATAAATA
* *
8231237 AATAAATAAATAAATAGATAGAAAAAATATATACATAATATTAAATTTAAGTATTT-AAGAAGTA
1 AATAAATAAATAAATAGATATAAAAAATATA-A-AAAATATTAAATTTAAGTATTTAAAG-AGTA
8231301 AAAGAAT
63 AAAGAAT
* * * * * *
8231308 AATAAATAAATAAATAAATCGATAAAATAGATATGAATAATATAAAATTTAAGTATGTAAAAAGT
1 AATAAATAAATAAATAGAT--ATAAAA-A-ATATAAAAAATATTAAATTTAAGTATTTAAAGAGT
8231373 AAAAGAAT
62 AAAAGAAT
* * *
8231381 AATAAA-AAATAAATAGATATAAAAAATATAAAAAATATTAATTTTAGGTATTTAAAGAGTGAAA
1 AATAAATAAATAAATAGATATAAAAAATATAAAAAATATTAAATTTAAGTATTTAAAGAGTAAAA
8231445 GAAT
66 GAAT
8231449 AATAAATAAATAAATA-ATATAAAACAAATATAAAAA
1 AATAAATAAATAAATAGATAT-AAA-AAATATAAAAA
8231485 GATGAAATTA
Statistics
Matches: 154, Mismatches: 15, Indels: 17
0.83 0.08 0.09
Matches are distributed among these distances:
68 45 0.29
69 13 0.08
70 17 0.11
71 18 0.12
72 11 0.07
73 42 0.27
74 4 0.03
75 4 0.03
ACGTcount: A:0.63, C:0.01, G:0.08, T:0.28
Consensus pattern (69 bp):
AATAAATAAATAAATAGATATAAAAAATATAAAAAATATTAAATTTAAGTATTTAAAGAGTAAAA
GAAT
Found at i:8231573 original size:17 final size:18
Alignment explanation
Indices: 8231538--8231573 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
8231528 AATTAAAGGT
8231538 ATAAATCATAATAAAAAA
1 ATAAATCATAATAAAAAA
8231556 ATAAATCA-AATAAGAAAA
1 ATAAATCATAATAA-AAAA
8231574 CCTAAATAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.72, C:0.06, G:0.03, T:0.19
Consensus pattern (18 bp):
ATAAATCATAATAAAAAA
Found at i:8233492 original size:40 final size:40
Alignment explanation
Indices: 8233388--8233618 Score: 203
Period size: 41 Copynumber: 5.9 Consensus size: 40
8233378 CGTTTGTCCG
* * * * **
8233388 AAACGCCACTAAAAGCTAAACTATAGCGGCGTTTTTGCCAA
1 AAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTATC-A
*
8233429 AAACGCCACTAAAAACTGGTCAATAGCGGCGTTTTTATCA
1 AAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTATCA
** *
8233469 AAACGCCACTAAAAGTTGATCAATAGCGGCGTTTTAATCTA
1 AAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTATC-A
* *
8233510 AAACGCCACT---AA---AT---T-GCGGCGTTTTTGTCCC
1 AAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTAT-CA
* * *
8233541 AAACGCCACAAAAAAACTGATCAATTGTGGCGTTTTTATCCA
1 AAACGCCAC-TAAAAACTGATCAATAGCGGCGTTTTTAT-CA
*
8233583 AAACGCCACTAAAAACTGATTAATAGCGGCGTTTTT
1 AAACGCCACTAAAAACTGATCAATAGCGGCGTTTTT
8233619 GGTCCAAACG
Statistics
Matches: 154, Mismatches: 23, Indels: 26
0.76 0.11 0.13
Matches are distributed among these distances:
31 20 0.13
32 2 0.01
35 4 0.03
38 3 0.02
40 36 0.23
41 67 0.44
42 22 0.14
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.26
Consensus pattern (40 bp):
AAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTATCA
Found at i:8233573 original size:42 final size:42
Alignment explanation
Indices: 8233521--8233637 Score: 148
Period size: 41 Copynumber: 2.8 Consensus size: 42
8233511 AACGCCACTA
8233521 AATTGCGGCGTTTTTGTCCCAAACGCCACAAAAAAACTGATC
1 AATTGCGGCGTTTTTGTCCCAAACGCCACAAAAAAACTGATC
* * * * *
8233563 AATTGTGGCGTTTTTATCCAAAACGCCAC-TAAAAACTGATT
1 AATTGCGGCGTTTTTGTCCCAAACGCCACAAAAAAACTGATC
* *
8233604 AATAGCGGCGTTTTTGGT-CCAAACGCCGCAAAAA
1 AATTGCGGCGTTTTT-GTCCCAAACGCCACAAAAA
8233638 GTTTAGCAGG
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 32 0.52
42 30 0.48
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (42 bp):
AATTGCGGCGTTTTTGTCCCAAACGCCACAAAAAAACTGATC
Found at i:8233573 original size:73 final size:71
Alignment explanation
Indices: 8233454--8233595 Score: 185
Period size: 73 Copynumber: 2.0 Consensus size: 71
8233444 CTGGTCAATA
* ** *
8233454 GCGGCGTTTTTATCAAAACGCCACTAAAAGTTGATCAATAGCGGCGTTTTAATCTAAAACGCCAC
1 GCGGCGTTTTTATCAAAACGCCACAAAAAACTGATCAATAGCGGCGTTTTAATCCAAAACGCCAC
8233519 TAAATT
66 TAAATT
* * * * *
8233525 GCGGCGTTTTTGTCCCAAACGCCACAAAAAAACTGATCAATTGTGGCGTTTTTATCCAAAACGCC
1 GCGGCGTTTTTAT-CAAAACGCCAC-AAAAAACTGATCAATAGCGGCGTTTTAATCCAAAACGCC
8233590 ACTAAA
64 ACTAAA
8233596 AACTGATTAA
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
71 12 0.20
72 10 0.17
73 38 0.63
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (71 bp):
GCGGCGTTTTTATCAAAACGCCACAAAAAACTGATCAATAGCGGCGTTTTAATCCAAAACGCCAC
TAAATT
Found at i:8233630 original size:114 final size:112
Alignment explanation
Indices: 8233413--8233617 Score: 304
Period size: 114 Copynumber: 1.8 Consensus size: 112
8233403 CTAAACTATA
* *
8233413 GCGGCGTTTTTGCCAAAAACGCCACTAAAAACTGGTCAATAGCGGCGTTTTTATCAAAACGCCAC
1 GCGGCGTTTTTGCCAAAAACGCCACAAAAAACTGATCAATAGCGGCGTTTTTATCAAAACGCCAC
**
8233478 TAAAAGTTGATCAATAGCGGCGTTTTAATCTAAAACGCCACTAAATT
66 TAAAAACTGATCAATAGCGGCGTTTTAATCTAAAACGCCACTAAATT
* * *
8233525 GCGGCGTTTTTGTCC-CAAACGCCACAAAAAAACTGATCAATTGTGGCGTTTTTATCCAAAACGC
1 GCGGCGTTTTTG-CCAAAAACGCCAC-AAAAAACTGATCAATAGCGGCGTTTTTAT-CAAAACGC
*
8233589 CACTAAAAACTGATTAATAGCGGCGTTTT
63 CACTAAAAACTGATCAATAGCGGCGTTTT
8233618 TGGTCCAAAC
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
112 21 0.26
113 27 0.33
114 34 0.41
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (112 bp):
GCGGCGTTTTTGCCAAAAACGCCACAAAAAACTGATCAATAGCGGCGTTTTTATCAAAACGCCAC
TAAAAACTGATCAATAGCGGCGTTTTAATCTAAAACGCCACTAAATT
Found at i:8233952 original size:7 final size:7
Alignment explanation
Indices: 8233942--8233966 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
8233932 TCTTAAACAT
8233942 TAAACCC
1 TAAACCC
8233949 TAAACCC
1 TAAACCC
8233956 TAAACCC
1 TAAACCC
8233963 TAAA
1 TAAA
8233967 TTTTAAATCA
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:0.48, C:0.36, G:0.00, T:0.16
Consensus pattern (7 bp):
TAAACCC
Found at i:8233966 original size:28 final size:27
Alignment explanation
Indices: 8233920--8234019 Score: 65
Period size: 28 Copynumber: 3.5 Consensus size: 27
8233910 TGGCTTTCTG
* *
8233920 TAAACCCTTAAATCTTAAACATTAAACCC
1 TAAACCC-TAAACCCTAAAC-TTAAACCC
* * *
8233949 TAAACCCTAAACCCTAAATTTTAAATCA
1 TAAACCCTAAACCCTAAA-CTTAAACCC
* * * *
8233977 TAAAACATAAACACTAATCTATAAACTCC
1 TAAACCCTAAACCCTAAACT-TAAAC-CC
*
8234006 AAAACCCTAAACCC
1 TAAACCCTAAACCC
8234020 CCCACAAAAA
Statistics
Matches: 52, Mismatches: 16, Indels: 6
0.70 0.22 0.08
Matches are distributed among these distances:
27 1 0.02
28 33 0.63
29 18 0.35
ACGTcount: A:0.48, C:0.28, G:0.00, T:0.24
Consensus pattern (27 bp):
TAAACCCTAAACCCTAAACTTAAACCC
Found at i:8237084 original size:14 final size:15
Alignment explanation
Indices: 8237065--8237094 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
8237055 TGGGTTTATA
8237065 TAAATACAT-AATTC
1 TAAATACATAAATTC
8237079 TAAATACATAAATTC
1 TAAATACATAAATTC
8237094 T
1 T
8237095 GAAGTTTGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (15 bp):
TAAATACATAAATTC
Found at i:8240693 original size:26 final size:26
Alignment explanation
Indices: 8240664--8240716 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
8240654 TCAAACATGC
*
8240664 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGAT-AATTTAACTCCTAGGGGT
* *
8240690 ATTTCGATAATTTATCTCCTAGGGGT
1 ATTTAGATAATTTAACTCCTAGGGGT
8240716 A
1 A
8240717 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAGATAATTTAACTCCTAGGGGT
Found at i:8242219 original size:26 final size:26
Alignment explanation
Indices: 8242183--8242249 Score: 125
Period size: 26 Copynumber: 2.6 Consensus size: 26
8242173 CATGAAATTC
8242183 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
8242209 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
8242235 TTATCATGAACCATT
1 TTATCATGAAACATT
8242250 ATCATGGAAC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.37, C:0.25, G:0.04, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:8246470 original size:25 final size:27
Alignment explanation
Indices: 8246433--8246485 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
8246423 TCAAACATGC
8246433 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
8246459 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
8246485 A
1 A
8246486 AAACTGTAAA
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:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:8247996 original size:26 final size:26
Alignment explanation
Indices: 8247960--8248026 Score: 125
Period size: 26 Copynumber: 2.6 Consensus size: 26
8247950 CATGAAATTC
8247960 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
8247986 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
8248012 TTATCATGAACCATT
1 TTATCATGAAACATT
8248027 ATCATGGAAC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.37, C:0.25, G:0.04, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:8249382 original size:24 final size:24
Alignment explanation
Indices: 8249355--8249411 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 24
8249345 ATTATTATTG
* *
8249355 AAATATTTTTGGCCGTTTTATCAC
1 AAATATTATTCGCCGTTTTATCAC
* *
8249379 AAATATTATTCTCCGTTTTATTAC
1 AAATATTATTCGCCGTTTTATCAC
8249403 AAATATTAT
1 AAATATTAT
8249412 CATCCGTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.32, C:0.14, G:0.07, T:0.47
Consensus pattern (24 bp):
AAATATTATTCGCCGTTTTATCAC
Found at i:8249417 original size:24 final size:24
Alignment explanation
Indices: 8249367--8249422 Score: 87
Period size: 24 Copynumber: 2.3 Consensus size: 24
8249357 ATATTTTTGG
8249367 CCGTTTTATCACAAATATTATTCT
1 CCGTTTTATCACAAATATTATTCT
*
8249391 CCGTTTTATTACAAATATTA-TCAT
1 CCGTTTTATCACAAATATTATTC-T
8249415 CCGTTTTA
1 CCGTTTTA
8249423 CCATTTAAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
23 2 0.07
24 28 0.93
ACGTcount: A:0.29, C:0.20, G:0.05, T:0.46
Consensus pattern (24 bp):
CCGTTTTATCACAAATATTATTCT
Found at i:8249642 original size:15 final size:15
Alignment explanation
Indices: 8249599--8249653 Score: 78
Period size: 15 Copynumber: 3.8 Consensus size: 15
8249589 AACGACATGT
8249599 ATATTATTTAATTAA
1 ATATTATTTAATTAA
* *
8249614 A-ATAATTTTA-TAA
1 ATATTATTTAATTAA
8249627 ATATTATTTAATTAA
1 ATATTATTTAATTAA
8249642 ATATTATTTAAT
1 ATATTATTTAAT
8249654 CCCGCTACTT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
13 4 0.12
14 14 0.41
15 16 0.47
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
ATATTATTTAATTAA
Found at i:8249770 original size:9 final size:9
Alignment explanation
Indices: 8249758--8249983 Score: 143
Period size: 9 Copynumber: 24.6 Consensus size: 9
8249748 TATTTGATAT
*
8249758 CATAATTTA
1 CATAACTTA
8249767 CATAACTTA
1 CATAACTTA
* *
8249776 TATAACATA
1 CATAACTTA
*
8249785 TATAACTTA
1 CATAACTTA
8249794 CATAACTTA
1 CATAACTTA
* *
8249803 TATAACATA
1 CATAACTTA
8249812 CATAACTTA
1 CATAACTTA
*
8249821 TATAACTTA
1 CATAACTTA
*
8249830 TATAACTTA
1 CATAACTTA
* *
8249839 GATAA-ATA
1 CATAACTTA
*
8249847 TATAACTTA
1 CATAACTTA
8249856 CATAACTTA
1 CATAACTTA
8249865 CATAATACTTA
1 CAT-A-ACTTA
* *
8249876 AATATATTTTATA
1 CATA-A--CT-TA
*
8249889 TCATAATTTA
1 -CATAACTTA
8249899 CATAACTTA
1 CATAACTTA
8249908 CATAACTTA
1 CATAACTTA
*
8249917 TATAACTTA
1 CATAACTTA
* *
8249926 GATAA-ATA
1 CATAACTTA
* *
8249934 TATAATTTA
1 CATAACTTA
*
8249943 CATAA-ATA
1 CATAACTTA
* * *
8249951 TATATCATA
1 CATAACTTA
*
8249960 TCATAAATTA
1 -CATAACTTA
8249970 CATAACTTA
1 CATAACTTA
8249979 CATAA
1 CATAA
8249984 TACTTAAATA
Statistics
Matches: 174, Mismatches: 33, Indels: 20
0.77 0.15 0.09
Matches are distributed among these distances:
8 17 0.10
9 130 0.75
10 11 0.06
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:8249780 original size:18 final size:18
Alignment explanation
Indices: 8249758--8249983 Score: 161
Period size: 18 Copynumber: 12.3 Consensus size: 18
8249748 TATTTGATAT
* *
8249758 CATAATTTACATAACTTA
1 CATAACTTATATAACTTA
* *
8249776 TATAACATATATAACTTA
1 CATAACTTATATAACTTA
*
8249794 CATAACTTATATAACATA
1 CATAACTTATATAACTTA
8249812 CATAACTTATATAACTTA
1 CATAACTTATATAACTTA
* * *
8249830 TATAACTTAGATAA-ATA
1 CATAACTTATATAACTTA
* *
8249847 TATAACTTACATAACTTA
1 CATAACTTATATAACTTA
**
8249865 CATAATACTTAAATATATTTTATA
1 CAT-A-ACTT--ATATA-ACT-TA
* *
8249889 TCATAATTTACATAACTTA
1 -CATAACTTATATAACTTA
8249908 CATAACTTATATAACTTA
1 CATAACTTATATAACTTA
* * *
8249926 GATAA-ATATATAATTTA
1 CATAACTTATATAACTTA
* * *
8249943 CATAA-ATATATATCATA
1 CATAACTTATATAACTTA
* *
8249960 TCATAAATTACATAACTTA
1 -CATAACTTATATAACTTA
8249979 CATAA
1 CATAA
8249984 TACTTAAATA
Statistics
Matches: 164, Mismatches: 34, Indels: 20
0.75 0.16 0.09
Matches are distributed among these distances:
17 38 0.23
18 92 0.56
19 11 0.07
20 5 0.03
21 4 0.02
22 4 0.02
23 4 0.02
24 3 0.02
25 3 0.02
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.38
Consensus pattern (18 bp):
CATAACTTATATAACTTA
Found at i:8249971 original size:114 final size:114
Alignment explanation
Indices: 8249786--8250007 Score: 313
Period size: 114 Copynumber: 1.9 Consensus size: 114
8249776 TATAACATAT
* * *
8249786 ATAACTTACATAACTTATATAACATACATAACTTATATAACTTATATAACTTAGATAAATATATA
1 ATAACTTACATAACTTATATAACATACATAACATATATAACTTACATAAATTAGATAAATATATA
* * *
8249851 ACTTACATAACTTACATAATACTTAAATATATTTTATATCATAATTTAC
66 AATTACATAACTTACATAATACTTAAATATATATCATATCATAATTTAC
* * * * *
8249900 ATAACTTACATAACTTATATAACTTAGATAA-ATATATAATTTACATAAA-TATATATCATATCA
1 ATAACTTACATAACTTATATAACATACATAACATATATAACTTACATAAATTAGATA-AATAT-A
8249963 TAAATTACATAACTTACATAATACTTAAATATATATCATATCATA
64 TAAATTACATAACTTACATAATACTTAAATATATATCATATCATA
8250008 CATAACTAGT
Statistics
Matches: 95, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
112 5 0.05
113 18 0.19
114 72 0.76
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.39
Consensus pattern (114 bp):
ATAACTTACATAACTTATATAACATACATAACATATATAACTTACATAAATTAGATAAATATATA
AATTACATAACTTACATAATACTTAAATATATATCATATCATAATTTAC
Found at i:8254084 original size:25 final size:26
Alignment explanation
Indices: 8254045--8254177 Score: 218
Period size: 25 Copynumber: 5.2 Consensus size: 26
8254035 TGATACAAAT
8254045 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
8254071 TGATAAT-GGTTAGGTAAATGTT-CA
1 TGATAATAGGTTAGGTAAATGTTCCA
8254095 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
8254121 TGATAAT-GGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
8254146 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
8254172 TGATAA
1 TGATAA
8254178 GAATTCATGT
Statistics
Matches: 103, Mismatches: 1, Indels: 6
0.94 0.01 0.05
Matches are distributed among these distances:
24 9 0.09
25 54 0.52
26 40 0.39
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:8254099 original size:50 final size:51
Alignment explanation
Indices: 8254045--8254177 Score: 241
Period size: 50 Copynumber: 2.6 Consensus size: 51
8254035 TGATACAAAT
8254045 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGTTAGGTAAATG-TTCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGTTAGGTAAATGTTTCA
8254095 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGTTAGGTAAATGTTTCA
* *
8254146 TGATAATGGGTTAGGTAAATGTTTCATGATAA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAA
8254178 GAATTCATGT
Statistics
Matches: 80, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
50 46 0.57
51 34 0.43
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (51 bp):
TGATAATAGGTTAGGTAAATGTTCCATGATAATGGTTAGGTAAATGTTTCA
Found at i:8255833 original size:27 final size:27
Alignment explanation
Indices: 8255792--8255931 Score: 183
Period size: 27 Copynumber: 5.2 Consensus size: 27
8255782 GAGGAAGCGT
*
8255792 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
8255819 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
8255846 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
8255873 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
8255901 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
8255927 TCTGG
1 TCTGG
8255932 CAGCCATGCT
Statistics
Matches: 102, Mismatches: 10, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
26 5 0.05
27 82 0.80
28 15 0.15
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:8255877 original size:54 final size:55
Alignment explanation
Indices: 8255792--8255931 Score: 203
Period size: 54 Copynumber: 2.6 Consensus size: 55
8255782 GAGGAAGCGT
* * *
8255792 TCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* *
8255846 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* *
8255901 TCTGGTGACTCTGTCACAT-TATCTGTTCTGG
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGG
8255932 CAGCCATGCT
Statistics
Matches: 78, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
54 60 0.77
55 18 0.23
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (55 bp):
TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
Found at i:8259973 original size:26 final size:25
Alignment explanation
Indices: 8259880--8260012 Score: 214
Period size: 26 Copynumber: 5.2 Consensus size: 25
8259870 TGATACAAAT
8259880 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAAT-GGTTAGGTAAATGTTCCA
8259906 TGATAATGGTTAGGTAAATGTT-CA
1 TGATAATGGTTAGGTAAATGTTCCA
8259930 TGATAATGGTTAGGTAAATGTTCCA
1 TGATAATGGTTAGGTAAATGTTCCA
*
8259955 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAAT-GGTTAGGTAAATGTTCCA
*
8259981 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAAT-GGTTAGGTAAATGTTCCA
8260007 TGATAA
1 TGATAA
8260013 GAATTTCATG
Statistics
Matches: 104, Mismatches: 1, Indels: 4
0.95 0.01 0.04
Matches are distributed among these distances:
24 24 0.23
25 24 0.23
26 56 0.54
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (25 bp):
TGATAATGGTTAGGTAAATGTTCCA
Found at i:8261680 original size:26 final size:26
Alignment explanation
Indices: 8261626--8261764 Score: 179
Period size: 27 Copynumber: 5.2 Consensus size: 26
8261616 GAGGAAGCGT
*
8261626 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCAC-AATATCTGA
8261653 TCTGGTGGCTCTGCCACAATATCTGA
1 TCTGGTGGCTCTGCCACAATATCTGA
*
8261679 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACA-ATATCTGA
*
8261706 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCAC-AATATCTG-A
* * * *
8261734 TCTGGTGACTCTGTCACATTATCTGT
1 TCTGGTGGCTCTGCCACAATATCTGA
8261760 TCTGG
1 TCTGG
8261765 CAGCCATGCT
Statistics
Matches: 102, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
26 32 0.31
27 54 0.53
28 16 0.16
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.35
Consensus pattern (26 bp):
TCTGGTGGCTCTGCCACAATATCTGA
Found at i:8261710 original size:53 final size:55
Alignment explanation
Indices: 8261626--8261764 Score: 203
Period size: 53 Copynumber: 2.6 Consensus size: 55
8261616 GAGGAAGCGT
* * *
8261626 TCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCAC-AATATCTG-A
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACGAATATCTGTA
*
8261679 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACGAATATCTGTA
* *
8261734 TCTGGTGACTCTGTCACAT-TATCTGTTCTGG
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGG
8261765 CAGCCATGCT
Statistics
Matches: 78, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
53 41 0.53
54 19 0.24
55 18 0.23
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.35
Consensus pattern (55 bp):
TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACGAATATCTGTA
Found at i:8263471 original size:72 final size:70
Alignment explanation
Indices: 8263331--8263521 Score: 219
Period size: 72 Copynumber: 2.7 Consensus size: 70
8263321 GAGTTAAGCC
* * * *
8263331 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGTGG-CGTTGAGCCTCGAGGCACGCT
1 TTTTCAATTTTTGTTTTT-AAAATCAACTCATATTGCGAGAGGTGGTTGAGCCTCGAGGCACGAT
8263394 GAGGTA
65 GAGGTA
**
8263400 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGACACG
1 TTTTCAATTTTTGT-TTTTAAAATCAACTCATATTGCGAGAGGTG-GTTGAGCCTCGAGG-CACG
8263464 ATGAGGTA
63 ATGAGGTA
* * *
8263472 -ATTCAATTTCTGTTTGTCAAGAATCAACTCATATTGCGAGAGGTGGTTGA
1 TTTTCAATTTTTGTTT-TTAA-AATCAACTCATATTGCGAGAGGTGGTTGA
8263522 ACCTTTTAAT
Statistics
Matches: 104, Mismatches: 11, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
69 4 0.04
70 31 0.30
71 26 0.25
72 43 0.41
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.37
Consensus pattern (70 bp):
TTTTCAATTTTTGTTTTTAAAATCAACTCATATTGCGAGAGGTGGTTGAGCCTCGAGGCACGATG
AGGTA
Found at i:8263697 original size:88 final size:88
Alignment explanation
Indices: 8263546--8263878 Score: 470
Period size: 88 Copynumber: 3.8 Consensus size: 88
8263536 ACTTTTTCAA
* * *
8263546 AATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGATATTTTCAAATTCTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTCTGT
*
8263611 CTTCATTATTATGTTTTTGAAAG
66 TTTCATTATTATGTTTTTGAAAG
* *
8263634 AATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGTCGAGGTATTTTCAATTTCTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTCTGT
8263699 TTTCATTATTATGTTTTTGAAAG
66 TTTCATTATTATGTTTTTGAAAG
* * *
8263722 AATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGT--CACGCCGAGGTATTTTCAATTTCT
* * ** *
8263787 GTTTTTCAAT-TTCTGTCTTTCAAAAA
64 G-TTTTCATTATTATGT-TTTTGAAAG
* * *
8263813 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTCTGT
8263878 T
66 T
8263879 GTCAAAAAAT
Statistics
Matches: 221, Mismatches: 20, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
88 122 0.55
89 22 0.10
90 28 0.13
91 49 0.22
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.35
Consensus pattern (88 bp):
AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTCTGT
TTTCATTATTATGTTTTTGAAAG
Found at i:8263794 original size:14 final size:14
Alignment explanation
Indices: 8263775--8263809 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
8263765 CGCCGAGGTA
8263775 TTTTCAATTTCCGT
1 TTTTCAATTTCCGT
*
8263789 TTTTCAATTTCTGT
1 TTTTCAATTTCCGT
*
8263803 CTTTCAA
1 TTTTCAA
8263810 AAAAATCAAC
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:0.17, C:0.20, G:0.06, T:0.57
Consensus pattern (14 bp):
TTTTCAATTTCCGT
Found at i:8263937 original size:75 final size:73
Alignment explanation
Indices: 8263790--8264110 Score: 241
Period size: 75 Copynumber: 4.1 Consensus size: 73
8263780 AATTTCCGTT
* * * *
8263790 TTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
1 TTTCAATTTCTGT-TGTC-AAAAAATCAACTCGTATTACGAGAGGCGAGTTGAGCCTCAGGACAC
*
8263855 GCTGAGGTAA
64 GCCGAGGTAA
*
8263865 TTTCAATTTCTGTTGTCAAAAAATCAACTCGTATTACGAGTGGCGAGTTGAGCCTCAGGTCACAC
1 TTTCAATTTCTGTTGTCAAAAAATCAACTCGTATTACGAGAGGCGAGTTGAGCCTCAGG--ACAC
*
8263930 GCCGAGGTAT
64 GCCGAGGTAA
* * **** * * * * *
8263940 TTTCAATTTCCGTTTTCAATTTTGCCTTTCAAAAAATC-AACTCATATTGCGAGAGGTGAGTTGA
1 TTTCAATTTCTGTTGTCAA-----AAAATC---AACTCGTA-T--TA-CGAGA--GGCGAGTTGA
*
8264004 GCCTCAGGACACGCTGAGGTAA
52 GCCTCAGGACACGCCGAGGTAA
* *
8264026 TTTCAATTTCTGTTGTCAAAAAAGTCAACTCGTATTGCGAGCGGCGAGTTGAGCCTCAGGTCACA
1 TTTCAATTTCTGTTGTCAAAAAA-TCAACTCGTATTACGAGAGGCGAGTTGAGCCTCAGG--ACA
*
8264091 CG-CGAGGTAT
63 CGCCGAGGTAA
8264101 TTTCAATTTC
1 TTTCAATTTC
8264111 CGTTTTTCAA
Statistics
Matches: 190, Mismatches: 36, Indels: 40
0.71 0.14 0.15
Matches are distributed among these distances:
73 38 0.20
74 20 0.11
75 58 0.31
76 7 0.04
77 1 0.01
79 5 0.03
80 3 0.02
82 3 0.02
83 5 0.03
85 2 0.01
86 31 0.16
88 17 0.09
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.31
Consensus pattern (73 bp):
TTTCAATTTCTGTTGTCAAAAAATCAACTCGTATTACGAGAGGCGAGTTGAGCCTCAGGACACGC
CGAGGTAA
Found at i:8264033 original size:161 final size:161
Alignment explanation
Indices: 8263713--8264901 Score: 1186
Period size: 161 Copynumber: 7.3 Consensus size: 161
8263703 ATTATTATGT
* * * *
8263713 TTTTGAAAGAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTT
1 TTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTT
8263778 TCAATTTCCGTTTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
66 TCAATTTCCGTTTTTCAATTT-TG-CTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
8263843 GCCTCAGGACACGCTGAGGTAATTTCAATTTCTG
128 GCCTCAGGACACGCTGAGGTAATTTCAATTTCTG
* * * * *
8263877 TTGTCAAAAAATCAACTCGTATTACGAGTGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTT
1 TTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTT
8263942 TCAATTTCCG-TTTTCAATTTTGCCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
66 TCAATTTCCGTTTTTCAATTTTG-CTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
8264006 CTCAGGACACGCTGAGGTAATTTCAATTTCTG
130 CTCAGGACACGCTGAGGTAATTTCAATTTCTG
* * * *
8264038 TTGTCAAAAAAGTCAACTCGTATTGCGAGCGGCGAGTTGAGCCTCAGGTCACACG-CGAGGTATT
1 TTTTCAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATT
* * *
8264102 TTCAATTTCCGTTTTTCAATTTCTGACTTCCAAAAAAAAATCGACTCATATTGTGAGAGGTGAGT
65 TTCAATTTCCGTTTTTCAATTT-TG-CTTTC---AAAAAATCAACTCATATTGCGAGAGGTGAGT
* * * *
8264167 TGAGCCT-TGGCTCACGCGCTGAGCTATTTTCAATTTCTG
125 TGAGCCTCAGG---ACACGCTGAGGTAATTTCAATTTCTG
* * *
8264206 TCTTTCAAAAAAATCAACTCATATTGCGAGAGTTGAGTTGAGCCTCAGATCACACGTCGAGGTAT
1 T-TTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTAT
8264271 TTTCAATTTCCGTTTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
64 TTTCAATTTCCGTTTTTCAATTT-TG-CTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTT
* * * * * *
8264336 GAGCTTCAGATCACACACTGAGGTATTTTTTTACTTCAATTTATAT
126 GAGCCTCAG--GACACGCTGAGGTA-------ATTTCAATTTCT-G
*
8264382 TTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAT-ACACG-CGAGGTATTT
1 TTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTT
* * * * **
8264444 TCAATTTCCATTTTTCAATTTCGTTTTC-AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCC
66 TCAATTTCCGTTTTTCAATTTTGCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
* * *
8264508 TCAAGACACGTTGAGGTATTTTCAATTTCTG
131 TCAGGACACGCTGAGGTAATTTCAATTTCTG
* * * * * *
8264539 TTTTCAAAAAATCAACTTATATTGCGACAGGTGAGTTGAGCCT-TGGCTCACGCGCTGAGCTATT
1 TTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-TCACACGCCGAGGTATT
* *
8264603 TTCAATTT-C---TGTC----TT-C---AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
65 TTCAATTTCCGTTTTTCAATTTTGCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
* * * * * *
8264656 TTCAGATCACACACTGAGGTATTTTTTCAATTTATAT
130 CTCAG--GACACGCTGAGGTA--ATTTCAATTTCT-G
* * * * *
8264693 TTTTCAAAAAATCAACTCACATTGCAAGATGTGAGTTGAGCCTC-GGTCACATGTCGAGGTATTT
1 TTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTT
** * * *
8264757 TCAAAATCTGTTTTTCAAATTCTG-TTTC-AAAAATCAACTCATATTGCGAGAAGTGAGTTGA-C
66 TCAATTTCCGTTTTTC-AATTTTGCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
* * * *
8264819 CT-TGGCTCACGTGCTGAGCTATTTTCAATTTCTG
130 CTCAGG-ACAC--GCTGAGGTAATTTCAATTTCTG
8264853 TTTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGC
1 ------TTTTC-AAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC
8264902 TTTTTAATTT
Statistics
Matches: 866, Mismatches: 101, Indels: 112
0.80 0.09 0.10
Matches are distributed among these distances:
149 35 0.04
151 11 0.01
152 1 0.00
153 29 0.03
154 40 0.05
156 3 0.00
157 9 0.01
158 45 0.05
159 5 0.01
160 15 0.02
161 113 0.13
162 60 0.07
163 25 0.03
164 102 0.12
165 13 0.02
166 41 0.05
167 41 0.05
168 97 0.11
169 46 0.05
170 45 0.05
171 30 0.03
172 5 0.01
173 41 0.05
175 13 0.02
176 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (161 bp):
TTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTT
TCAATTTCCGTTTTTCAATTTTGCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
TCAGGACACGCTGAGGTAATTTCAATTTCTG
Found at i:8264075 original size:74 final size:73
Alignment explanation
Indices: 8263968--8264110 Score: 216
Period size: 74 Copynumber: 1.9 Consensus size: 73
8263958 ATTTTGCCTT
*
8263968 TCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACGCTGAGGTAATTTCAA
1 TCAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCACACGC-GAGGTAATTTCAA
8264032 TTTCTGTTG
65 TTTCTGTTG
* * *
8264041 TCAAAAAAGTCAACTCGTATTGCGAGCGGCGAGTTGAGCCTCAGGTCACACGCGAGGTATTTTCA
1 TCAAAAAA-TCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-CACACGCGAGGTAATTTCA
8264106 ATTTC
64 ATTTC
8264111 CGTTTTTCAA
Statistics
Matches: 63, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
73 8 0.13
74 33 0.52
75 16 0.25
76 6 0.10
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (73 bp):
TCAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCACACGCGAGGTAATTTCAAT
TTCTGTTG
Found at i:8264212 original size:93 final size:92
Alignment explanation
Indices: 8264043--8264213 Score: 218
Period size: 92 Copynumber: 1.8 Consensus size: 92
8264033 TTCTGTTGTC
* * * *
8264043 AAAAAAGTCAACTCGTATTGCGAGCGGCGAGTTGAGCCTCAGGTCACACGCGAGGTATTTTCAAT
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCGAGCTATTTTCAAT
*
8264108 TTCCGTTTTTCAATTTCTGACTTCCAA
66 TTCCGTCTTTCAATTTCTGACTTCCAA
* * * * *
8264135 AAAAAAATCGACTCATATTGTGAGAGGTGAGTTGAGCCT-TGGCTCACGCGCTGAGCTATTTTCA
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-TCACACGC-GAGCTATTTTCA
*
8264199 ATTTCTGTCTTTCAA
64 ATTTCCGTCTTTCAA
8264214 AAAAATCAAC
Statistics
Matches: 66, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
91 2 0.03
92 40 0.61
93 24 0.36
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (92 bp):
AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCGAGCTATTTTCAAT
TTCCGTCTTTCAATTTCTGACTTCCAA
Found at i:8264243 original size:77 final size:77
Alignment explanation
Indices: 8264114--8264290 Score: 212
Period size: 77 Copynumber: 2.3 Consensus size: 77
8264104 CAATTTCCGT
* * * * ** *
8264114 TTTTCAATTTCTGACTTCCAAAAAAAAATCGACTCATATTGTGAGAGGTGAGTTGAGCCTTGGCT
1 TTTTCAATTTCTGTCTTTC--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAT
*
8264179 CACGCG-CTGAGCTA
64 CACACGTC-GAGCTA
*
8264193 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGTTGAGTTGAGCCTCAGATCA
1 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCA
*
8264258 CACGTCGAGGTA
66 CACGTCGAGCTA
* *
8264270 TTTTCAATTTCCGTTTTTCAA
1 TTTTCAATTTCTGTCTTTCAA
8264291 TTTCTGTCTT
Statistics
Matches: 85, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
77 67 0.79
78 1 0.01
79 17 0.20
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (77 bp):
TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCA
CACGTCGAGCTA
Found at i:8264289 original size:14 final size:14
Alignment explanation
Indices: 8264270--8264304 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
8264260 CGTCGAGGTA
8264270 TTTTCAATTTCCGT
1 TTTTCAATTTCCGT
*
8264284 TTTTCAATTTCTGT
1 TTTTCAATTTCCGT
*
8264298 CTTTCAA
1 TTTTCAA
8264305 AAAAATCAAC
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:0.17, C:0.20, G:0.06, T:0.57
Consensus pattern (14 bp):
TTTTCAATTTCCGT
Found at i:8264348 original size:91 final size:89
Alignment explanation
Indices: 8264193--8264542 Score: 431
Period size: 91 Copynumber: 4.0 Consensus size: 89
8264183 CGCTGAGCTA
*
8264193 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGTTGAGTTGAGCCTCAGATCA
1 TTTTCAATTTCTGTCTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCA
8264258 CACGTCGAGGTATTTTCAATTTCCGT
64 CACGTCGAGGTATTTTCAATTTCCGT
*
8264284 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCA
1 TTTTCAATTTCTGTCTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCA
* *
8264349 CAC-ACTGAGGTATTTT---TTTAC--
64 CACGTC-GAGGTATTTTCAATTTCCGT
* * *
8264370 --TTCAATTTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAT-ACA
1 TTTTCAATTTCTGTCTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACA
*
8264432 CG-CGAGGTATTTTCAATTTCCAT
66 CGTCGAGGTATTTTCAATTTCCGT
* ** *
8264455 TTTTCAATTTC-GT-TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCA-A-GACA
1 TTTTCAATTTCTGTCTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACA
* *
8264516 CGTTGAGGTATTTTCAATTTCTGT
66 CGTCGAGGTATTTTCAATTTCCGT
8264540 TTT
1 TTT
8264543 CAAAAAATCA
Statistics
Matches: 231, Mismatches: 17, Indels: 28
0.84 0.06 0.10
Matches are distributed among these distances:
80 10 0.04
81 5 0.02
82 41 0.18
83 4 0.02
84 20 0.09
85 61 0.26
86 1 0.00
87 8 0.03
88 4 0.02
90 1 0.00
91 76 0.33
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (89 bp):
TTTTCAATTTCTGTCTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACA
CGTCGAGGTATTTTCAATTTCCGT
Found at i:8264647 original size:76 final size:75
Alignment explanation
Indices: 8264455--8265110 Score: 350
Period size: 86 Copynumber: 8.2 Consensus size: 75
8264445 CAATTTCCAT
* ** **
8264455 TTTTCAATTTC-GTTTTC-AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCC-T--CAAGAC
1 TTTTCAATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGC-TCAC
*
8264515 ACGTTGAGGTA
65 ACGCTGAGGTA
* * *
8264526 TTTTCAATTTCTGTTTTCAAAAAATCAACTTATATTGCGACAGGTGAGTTGAGCCTTGGCTCACG
1 TTTTCAATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACA
*
8264591 CGCTGAGCTA
66 CGCTGAGGTA
* * *
8264601 TTTTCAATTTCTGTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTCAGATCA
1 TTTTCAATTTCTGTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT-GGCTCA
*
8264665 CACACTGAGGTA
64 CACGCTGAGGTA
* * * * * *
8264677 TTTTTTCAATTTATATTTTTCAAAAAATCAACTCACATTGCAAGATGTGAGTTGAGCCTCGG-TC
1 --TTTTCAATTTCT-GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTC
*
8264741 ACATG-TCGAGGTA
63 ACACGCT-GAGGTA
** *
8264754 TTTTCAAAATCTGTTTTTCAAATTCTGTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGA-
1 TTTTCAATTTCTG-TTTTC--A---------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
** *
8264818 CCTTGGCTCACGTGCTGAGCTA
54 CCTTGGCTCACACGCTGAGGTA
8264840 TTTTCAATTTCTGTTTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTT
1 TTTTCAATTTCTG------TTTTC-AAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC---
* ** * * *
8264905 TTAATTTCTGCGAGA-GTTGAGTTGA
55 CT--TGGCT-C-ACACGCTGAGGT-A
* * **
8264930 GTCTTTTAATTT-TGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCCAG-T
1 -T-TTTCAATTTCTG-TTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCT
**
8264992 CACA-TATCGAGGTA
62 CACACGCT-GAGGTA
* *
8265006 TTTTCAAAATCTGCTTTTCAAGTTAAGTTTCAAAAAATCAACTTATATTGCGAGAGGTGAGTTGA
1 TTTTC--AA------TTTC-TG-T---TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
* *
8265071 GCCTTGGCTCACGCGCTGAGCTA
53 GCCTTGGCTCACACGCTGAGGTA
8265094 TTTTCAATTTCTGTTTT
1 TTTTCAATTTCTGTTTT
8265111 TAATGTCTGT
Statistics
Matches: 455, Mismatches: 70, Indels: 116
0.71 0.11 0.18
Matches are distributed among these distances:
71 11 0.02
72 6 0.01
73 31 0.07
74 4 0.01
75 48 0.11
76 54 0.12
77 17 0.04
78 46 0.10
79 7 0.02
80 5 0.01
81 5 0.01
82 30 0.07
83 30 0.07
84 8 0.02
85 5 0.01
86 61 0.13
87 6 0.01
88 52 0.11
89 8 0.02
90 4 0.01
91 9 0.02
92 8 0.02
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (75 bp):
TTTTCAATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACA
CGCTGAGGTA
Found at i:8264728 original size:154 final size:146
Alignment explanation
Indices: 8264455--8264735 Score: 355
Period size: 154 Copynumber: 1.9 Consensus size: 146
8264445 CAATTTCCAT
* * * **
8264455 TTTTCAATTTCGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTT
1 TTTTCAATTTCGTCTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAACACACACT
* * * *
8264520 GAGGTATTTTCAATTTCTGTTTTCAAAAAATCAACTTATATTGCGACAGGTGAGTTGAGCCTTGG
66 GAGGTATTTTCAATTTATGTTTTCAAAAAATCAACTCACATTGCAACAGGTGAGTTGAGCCTTGG
8264585 CTCACGCGCTGAGCTA
131 CTCACGCGCTGAGCTA
** *
8264601 TTTTCAATTTCTGTCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCAC
1 TTTTCAATTTC-GTCTTC--AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCA-A-CAC
* * *
8264666 ACACTGAGGTATTTTTTCAATTTATATTTTTCAAAAAATCAACTCACATTGCAAGATGTGAGTTG
61 ACACTGAGGTA--TTTTCAATTTAT-GTTTTCAAAAAATCAACTCACATTGCAACAGGTGAGTTG
8264731 AGCCT
123 AGCCT
8264736 CGGTCACATG
Statistics
Matches: 112, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
146 11 0.10
147 5 0.04
149 35 0.31
150 1 0.01
151 11 0.10
153 11 0.10
154 38 0.34
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (146 bp):
TTTTCAATTTCGTCTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAACACACACT
GAGGTATTTTCAATTTATGTTTTCAAAAAATCAACTCACATTGCAACAGGTGAGTTGAGCCTTGG
CTCACGCGCTGAGCTA
Found at i:8264773 original size:14 final size:14
Alignment explanation
Indices: 8264754--8264783 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
8264744 TGTCGAGGTA
8264754 TTTTCAAAATCTGT
1 TTTTCAAAATCTGT
*
8264768 TTTTCAAATTCTGT
1 TTTTCAAAATCTGT
8264782 TT
1 TT
8264784 CAAAAATCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.23, C:0.13, G:0.07, T:0.57
Consensus pattern (14 bp):
TTTTCAAAATCTGT
Found at i:8264775 original size:154 final size:149
Alignment explanation
Indices: 8264472--8264767 Score: 344
Period size: 154 Copynumber: 2.0 Consensus size: 149
8264462 TTTCGTTTTC
* * ** *
8264472 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAACACACACTGAGGTATTTTCAATTTA
* * * * *
8264537 TGTTTTCAAAAAATCAACTTATATTGCGACAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTAT
66 TGTTTTCAAAAAATCAACTCACATTGCAACAGGTGAGTTGAGCCTCGGCTCACACGCTGAGCTAT
**
8264602 TTTCAATTTCTGTCTTCAA
131 TTTCAAAATCTGTCTTCAA
** *
8264621 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTCAA
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCA-A-CACACACTGAGGTA--TTTTCAA
* * * *
8264686 TTTATATTTTTCAAAAAATCAACTCACATTGCAAGATGTGAGTTGAGCCTCGG-TCACATG-TCG
62 TTTAT-GTTTTCAAAAAATCAACTCACATTGCAACAGGTGAGTTGAGCCTCGGCTCACACGCT-G
*
8264749 AGGTATTTTCAAAATCTGT
125 AGCTATTTTCAAAATCTGT
8264768 TTTTCAAATT
Statistics
Matches: 121, Mismatches: 20, Indels: 8
0.81 0.13 0.05
Matches are distributed among these distances:
149 35 0.29
150 1 0.01
151 11 0.09
152 1 0.01
153 33 0.27
154 40 0.33
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (149 bp):
AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAACACACACTGAGGTATTTTCAATTTA
TGTTTTCAAAAAATCAACTCACATTGCAACAGGTGAGTTGAGCCTCGGCTCACACGCTGAGCTAT
TTTCAAAATCTGTCTTCAA
Found at i:8264844 original size:86 final size:83
Alignment explanation
Indices: 8264694--8265114 Score: 281
Period size: 88 Copynumber: 5.0 Consensus size: 83
8264684 AATTTATATT
* * * * *
8264694 TTTCAAAAAATCAACTCACATTGCAAGATGTGAGTTGAGCCTCGGTCACATG-TCGAGGTATTTT
1 TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA-CCTTGGTCACATGCT-GAGCTATTTT
*
8264758 CAAAATCTGTTTTTCAAATTCTG
64 CAAATTCTGTTTTT--AATT-TG
* *
8264781 TTTC-AAAAATCAACTCATATTGCGAGAAGTGAGTTGACCTTGGCTCACGTGCTGAGCTATTTTC
1 TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGACCTTGG-TCACATGCTGAGCTATTTTC
*
8264845 AATTTCTG-TTTT--TTT-
65 AAATTCTGTTTTTAATTTG
* * * * * ** *
8264860 TTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTT-TTTA-ATTTCTGCGAGA-GT
1 TTTC-AAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGACCTTGGTCACA-TGCTGAGCTATTT
* * **
8264922 T-GAGTTGAGTCTTTTAATTTTG
63 TCAAATTCTGT-TTTTAA-TTTG
** * *
8264944 TTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCCAGTCACAT-ATCGAGGTAT
1 --TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTG-ACCT-TGGTCACATGCT-GAGCTAT
* * *
8265007 TTTCAAAATCTGCTTTTCAAGTTAAG
61 TTTCAAATTCTG-TTTTTAA-TT-TG
* **
8265033 TTTCAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTT
1 TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA-CCTTGG-TCACATGCTGAGCTATTTT
*
8265098 CAATTTCTGTTTTTAAT
64 CAAATTCTGTTTTTAAT
8265115 GTCTGTTTTT
Statistics
Matches: 258, Mismatches: 49, Indels: 55
0.71 0.14 0.15
Matches are distributed among these distances:
78 4 0.02
79 6 0.02
80 13 0.05
81 7 0.03
82 30 0.12
83 30 0.12
84 8 0.03
85 10 0.04
86 63 0.24
87 20 0.08
88 64 0.25
89 3 0.01
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (83 bp):
TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGACCTTGGTCACATGCTGAGCTATTTTCA
AATTCTGTTTTTAATTTG
Found at i:8264919 original size:30 final size:30
Alignment explanation
Indices: 8264883--8264941 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
8264873 CAACTCATAT
8264883 TGCGAGAGGTGAGTTGAG-CTTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTC-TTTTAATTTC
*
8264913 TGCGAGAGTTGAGTTGAGTCTTTTAATTT
1 TGCGAGAGGTGAGTTGAGTCTTTTAATTT
8264942 TGTTTTTCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.20, C:0.08, G:0.29, T:0.42
Consensus pattern (30 bp):
TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
Found at i:8265783 original size:16 final size:16
Alignment explanation
Indices: 8265762--8265808 Score: 67
Period size: 17 Copynumber: 2.8 Consensus size: 16
8265752 TAAGCCCCCC
8265762 AAAAAAACTAACCAAA
1 AAAAAAACTAACCAAA
*
8265778 AAAAAACCTAACCCAAA
1 AAAAAAACTAA-CCAAA
8265795 AAAAAAACCTAACC
1 AAAAAAA-CTAACC
8265809 CCCCCAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
16 10 0.37
17 13 0.48
18 4 0.15
ACGTcount: A:0.68, C:0.26, G:0.00, T:0.06
Consensus pattern (16 bp):
AAAAAAACTAACCAAA
Found at i:8265796 original size:18 final size:17
Alignment explanation
Indices: 8265762--8265809 Score: 73
Period size: 18 Copynumber: 2.9 Consensus size: 17
8265752 TAAGCCCCCC
8265762 AAAAAAA-CTAA-CCAA
1 AAAAAAACCTAACCCAA
8265777 AAAAAAACCTAACCCAAA
1 AAAAAAACCTAACCC-AA
8265795 AAAAAAACCTAACCC
1 AAAAAAACCTAACCC
8265810 CCCCAAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
15 7 0.23
16 4 0.13
17 2 0.07
18 17 0.57
ACGTcount: A:0.67, C:0.27, G:0.00, T:0.06
Consensus pattern (17 bp):
AAAAAAACCTAACCCAA
Found at i:8266641 original size:19 final size:19
Alignment explanation
Indices: 8266571--8266645 Score: 64
Period size: 19 Copynumber: 3.7 Consensus size: 19
8266561 TTGTAGATAT
8266571 TATTATTATTATTAT-TACA
1 TATTATTATT-TTATGTACA
* *
8266590 TACTT-TTATTATATGCATATA
1 TA-TTATTATTTTATG--TACA
8266611 TATATATGTATTTTATGTACA
1 TAT-TAT-TATTTTATGTACA
8266632 TATTATTATTTTAT
1 TATTATTATTTTAT
8266646 ATTATTATTA
Statistics
Matches: 45, Mismatches: 4, Indels: 14
0.71 0.06 0.22
Matches are distributed among these distances:
18 3 0.07
19 15 0.33
20 6 0.13
21 12 0.27
22 1 0.02
23 8 0.18
ACGTcount: A:0.33, C:0.05, G:0.04, T:0.57
Consensus pattern (19 bp):
TATTATTATTTTATGTACA
Found at i:8267373 original size:2 final size:2
Alignment explanation
Indices: 8267366--8267398 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
8267356 CAGTTATTAA
8267366 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8267399 AGATAATACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8267488 original size:23 final size:23
Alignment explanation
Indices: 8267462--8267531 Score: 63
Period size: 23 Copynumber: 2.9 Consensus size: 23
8267452 AAATCTATGT
8267462 AATATAGTATTGAAAATATATAC
1 AATATAGTATTGAAAATATATAC
*
8267485 AATAT-GATATTGAAAGGATAGATATAT
1 AATATAG-TATTGAAA--AT--ATATAC
8267512 AATATAGTA-TGAAAAGTATA
1 AATATAGTATTGAAAA-TATA
8267532 GGTACATAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 14
0.72 0.02 0.26
Matches are distributed among these distances:
22 1 0.03
23 16 0.41
24 1 0.03
25 3 0.08
26 5 0.13
27 12 0.31
28 1 0.03
ACGTcount: A:0.51, C:0.01, G:0.14, T:0.33
Consensus pattern (23 bp):
AATATAGTATTGAAAATATATAC
Found at i:8267740 original size:24 final size:27
Alignment explanation
Indices: 8267682--8267741 Score: 67
Period size: 24 Copynumber: 2.4 Consensus size: 27
8267672 ATGTAAAATA
*
8267682 AATATTGAAAAATGTATGTACATGACAT
1 AATATTGAAAAA-GTATATACATGACAT
8267710 -ATA-TGAAAAA-TATATACAT-A-AT
1 AATATTGAAAAAGTATATACATGACAT
8267732 AATATTGAAA
1 AATATTGAAA
8267742 TAAAATAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
22 2 0.07
23 4 0.14
24 13 0.45
26 7 0.24
27 3 0.10
ACGTcount: A:0.53, C:0.05, G:0.10, T:0.32
Consensus pattern (27 bp):
AATATTGAAAAAGTATATACATGACAT
Found at i:8268063 original size:16 final size:17
Alignment explanation
Indices: 8268039--8268083 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
8268029 AAACACATAC
*
8268039 ATAACATATAAAAT-AT
1 ATAATATATAAAATGAT
*
8268055 ATAATATATTAAATGAT
1 ATAATATATAAAATGAT
8268072 A-AATATATAAAA
1 ATAATATATAAAA
8268084 AAACTATTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 22 0.88
17 3 0.12
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (17 bp):
ATAATATATAAAATGAT
Found at i:8268377 original size:3 final size:3
Alignment explanation
Indices: 8268359--8268394 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
8268349 TAATAACATT
8268359 TAA TAA T-A TAA T-A TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
8268395 TTGGAATGCA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 4 0.13
3 27 0.87
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:8278013 original size:23 final size:23
Alignment explanation
Indices: 8277986--8278046 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 23
8277976 TTCAAAAATG
8277986 ATAAAATTATAAATTAATAC-ATA
1 ATAAAATTATAAATTAAT-CTATA
* **
8278009 ATAAACTTATATTTTAATCTATA
1 ATAAAATTATAAATTAATCTATA
8278032 A-AAAATTAT-AATTAA
1 ATAAAATTATAAATTAA
8278047 ATTTCAATCC
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
21 4 0.13
22 8 0.26
23 19 0.61
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (23 bp):
ATAAAATTATAAATTAATCTATA
Found at i:8279519 original size:31 final size:31
Alignment explanation
Indices: 8279444--8279527 Score: 93
Period size: 31 Copynumber: 2.8 Consensus size: 31
8279434 TTGTTGTGGA
* *
8279444 TTTAATCCTTATA--TTTTAATTTGATTAAT
1 TTTAATCCTTATACTTTTTAAATTGATCAAT
*
8279473 TTTAATCGTTATACTTTTTAAATTGATCAAT
1 TTTAATCCTTATACTTTTTAAATTGATCAAT
* *
8279504 TTTAGTCCCTT-TACTTTTCAAATT
1 TTTAAT-CCTTATACTTTTTAAATT
8279528 TTAAAATTTT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
29 12 0.26
31 31 0.67
32 3 0.07
ACGTcount: A:0.29, C:0.12, G:0.05, T:0.55
Consensus pattern (31 bp):
TTTAATCCTTATACTTTTTAAATTGATCAAT
Found at i:8286117 original size:146 final size:146
Alignment explanation
Indices: 8285869--8286164 Score: 556
Period size: 146 Copynumber: 2.0 Consensus size: 146
8285859 AAGTGGAAAC
*
8285869 GTAGCCACAGTAAAGATCACTAAATAAGTATAATCAGCTAGTAAATTAGAAACATTAGTAGCTTC
1 GTAGCCACAGTAAAGATCACTAAATAAGTATAATCAGCTAGTAAATTAGAAACATGAGTAGCTTC
* * *
8285934 AAAAAAATTCAGGACTTTTTAATTTTTCTTTGGGGAGGAGTAGGCCTTGTCAACTTGATTTCAAA
66 AAAAAAAATCAGGACTTTTTAAATTTTCTTTGGGGAGGAGTAGGCCCTGTCAACTTGATTTCAAA
8285999 CTGTTGACAAGAGCTT
131 CTGTTGACAAGAGCTT
8286015 GTAGCCACAGTAAAGATCACTAAATAAGTATAATCAGCTAGTAAATTAGAAACATGAGTAGCTTC
1 GTAGCCACAGTAAAGATCACTAAATAAGTATAATCAGCTAGTAAATTAGAAACATGAGTAGCTTC
8286080 AAAAAAAATCAGGACTTTTTAAATTTTCTTTGGGGAGGAGTAGGCCCTGTCAACTTGATTTCAAA
66 AAAAAAAATCAGGACTTTTTAAATTTTCTTTGGGGAGGAGTAGGCCCTGTCAACTTGATTTCAAA
8286145 CTGTTGACAAGAGCTT
131 CTGTTGACAAGAGCTT
8286161 GTAG
1 GTAG
8286165 AATTAGATAT
Statistics
Matches: 146, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
146 146 1.00
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.30
Consensus pattern (146 bp):
GTAGCCACAGTAAAGATCACTAAATAAGTATAATCAGCTAGTAAATTAGAAACATGAGTAGCTTC
AAAAAAAATCAGGACTTTTTAAATTTTCTTTGGGGAGGAGTAGGCCCTGTCAACTTGATTTCAAA
CTGTTGACAAGAGCTT
Found at i:8286883 original size:38 final size:38
Alignment explanation
Indices: 8286829--8286908 Score: 115
Period size: 38 Copynumber: 2.1 Consensus size: 38
8286819 AAATTTCTAA
*
8286829 TAGCCCTAGATTTAAACCCTAAAGATAACTAATAATCT
1 TAGCCCTAGATCTAAACCCTAAAGATAACTAATAATCT
* * * *
8286867 TAGCCCTAGATCTAAACCCTAACGGTATCTTATAATCT
1 TAGCCCTAGATCTAAACCCTAAAGATAACTAATAATCT
8286905 TAGC
1 TAGC
8286909 TATCCATAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.36, C:0.24, G:0.10, T:0.30
Consensus pattern (38 bp):
TAGCCCTAGATCTAAACCCTAAAGATAACTAATAATCT
Found at i:8293980 original size:14 final size:14
Alignment explanation
Indices: 8293961--8293988 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
8293951 AATGTTAGTA
8293961 TTGTCAAATAAAGG
1 TTGTCAAATAAAGG
8293975 TTGTCAAATAAAGG
1 TTGTCAAATAAAGG
8293989 GCCTATTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.21, T:0.29
Consensus pattern (14 bp):
TTGTCAAATAAAGG
Found at i:8296588 original size:3 final size:3
Alignment explanation
Indices: 8296580--8296605 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
8296570 ATAAAAACAA
8296580 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
8296606 GTGATGCACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:8297076 original size:6 final size:6
Alignment explanation
Indices: 8297065--8297100 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
8297055 AACAGGAGAC
*
8297065 CTGACT CTGACT CTGACT CTAACT CTGACT CTGACT
1 CTGACT CTGACT CTGACT CTGACT CTGACT CTGACT
8297101 TCGACTCGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.19, C:0.33, G:0.14, T:0.33
Consensus pattern (6 bp):
CTGACT
Found at i:8303091 original size:25 final size:26
Alignment explanation
Indices: 8303048--8303096 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
8303038 TGGGGCAAAA
* *
8303048 AAAAATTCCACCACTTAAAAAAATAG
1 AAAAATTCCACAACCTAAAAAAATAG
*
8303074 AAAAA-TCCACAACCTAAATAAAT
1 AAAAATTCCACAACCTAAAAAAAT
8303097 TATTTTTTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 15 0.75
26 5 0.25
ACGTcount: A:0.59, C:0.20, G:0.02, T:0.18
Consensus pattern (26 bp):
AAAAATTCCACAACCTAAAAAAATAG
Found at i:8307218 original size:3 final size:3
Alignment explanation
Indices: 8307212--8307306 Score: 127
Period size: 3 Copynumber: 31.7 Consensus size: 3
8307202 TAATAATATA
* * * *
8307212 ATT ATT ATT ACT ATT ATT ATT ACT ATC ATT ATT ATT ATT ATT ACT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * *
8307260 ATC ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ACT ATT ATA ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
8307307 ATTTTCTTTT
Statistics
Matches: 78, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 78 1.00
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:8307365 original size:71 final size:69
Alignment explanation
Indices: 8307263--8307411 Score: 196
Period size: 71 Copynumber: 2.1 Consensus size: 69
8307253 TACTATTATC
* * *
8307263 ATTATTATTATTATTATTATTATTATTATTACTATTA-TAATTATATTT-TCTTTTTGTGTTTAT
1 ATTATTATTATTATTATTATTAATATTATTACTATTACT-ATCATATTTCT-TTTTTGTATTTAT
8307326 TTACAT
64 TTACAT
8307332 ATTATT-TTATTATTAATTAATTTAATATTATTACTATTACTATCATATTTCTTTTTTGTATTTA
1 ATTATTATTATTATT-ATT-A-TTAATATTATTACTATTACTATCATATTTCTTTTTTGTATTTA
*
8307396 TTTACTT
63 TTTACAT
8307403 ATTATTATT
1 ATTATTATT
8307412 CTTTAAATAC
Statistics
Matches: 70, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
68 8 0.11
69 9 0.13
70 1 0.01
71 48 0.69
72 4 0.06
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (69 bp):
ATTATTATTATTATTATTATTAATATTATTACTATTACTATCATATTTCTTTTTTGTATTTATTT
ACAT
Found at i:8310648 original size:3 final size:3
Alignment explanation
Indices: 8310636--8310778 Score: 105
Period size: 3 Copynumber: 47.0 Consensus size: 3
8310626 TAATTTAATC
* * *
8310636 TAT TATT TAT TA- TAG TAT TAT TAT TAT CT-T CTAT TAT CAT TAC TAT
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT -TAT -TAT TAT TAT TAT TAT
* * ** *
8310682 TTT TAT TCT TGC TGT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
8310730 TAT TAT TAT TAT GTTT TAC TAT T-T GTAAT TAT TAT TAT CAT TAT T-T
1 TAT TAT TAT TAT -TAT TAT TAT TAT -T-AT TAT TAT TAT TAT TAT TAT
8310776 TAT
1 TAT
8310779 ATGTTTTATT
Statistics
Matches: 113, Mismatches: 18, Indels: 18
0.76 0.12 0.12
Matches are distributed among these distances:
2 5 0.04
3 99 0.88
4 8 0.07
5 1 0.01
ACGTcount: A:0.28, C:0.06, G:0.03, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:8310957 original size:22 final size:21
Alignment explanation
Indices: 8310924--8310985 Score: 53
Period size: 18 Copynumber: 3.1 Consensus size: 21
8310914 ATATTTTACT
*
8310924 TTTAAATTTTA-TATTGATTAA
1 TTTAAATATTATTATT-ATTAA
8310945 TTTAATATATTATTATTATT-A
1 TTTAA-ATATTATTATTATTAA
*
8310966 -TT-ATTATTATTATT-TTAA
1 TTTAAATATTATTATTATTAA
8310984 TT
1 TT
8310986 ACTGTTACTA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
17 2 0.06
18 11 0.31
19 2 0.06
20 2 0.06
21 6 0.17
22 8 0.23
23 4 0.11
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (21 bp):
TTTAAATATTATTATTATTAA
Found at i:8310960 original size:3 final size:3
Alignment explanation
Indices: 8310952--8310979 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
8310942 TAATTTAATA
8310952 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
8310980 TTAATTACTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:8311108 original size:15 final size:17
Alignment explanation
Indices: 8311090--8311132 Score: 61
Period size: 19 Copynumber: 2.5 Consensus size: 17
8311080 TCTATATTTG
8311090 TTTTCTTAT-TATTTAT
1 TTTTCTTATATATTTAT
8311106 TTTTCATTTATATATTTAT
1 TTTTC--TTATATATTTAT
8311125 TTTTCTTA
1 TTTTCTTA
8311133 CCTACTTGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 5 0.21
17 3 0.12
18 4 0.17
19 12 0.50
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.72
Consensus pattern (17 bp):
TTTTCTTATATATTTAT
Found at i:8311252 original size:18 final size:18
Alignment explanation
Indices: 8311231--8311278 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
8311221 ATTTATCATG
*
8311231 CTATTATTATTATTATCA
1 CTATTATTATTATTAGCA
* *
8311249 CTATTATGACTATTAGCA
1 CTATTATTATTATTAGCA
*
8311267 CTATTTTTATTA
1 CTATTATTATTA
8311279 CTATTATTTT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.31, C:0.12, G:0.04, T:0.52
Consensus pattern (18 bp):
CTATTATTATTATTAGCA
Found at i:8311339 original size:3 final size:3
Alignment explanation
Indices: 8311232--8311330 Score: 54
Period size: 3 Copynumber: 32.3 Consensus size: 3
8311222 TTTATCATGC
* * * * * * * * *
8311232 TAT TAT TAT TAT TAT CAC TAT TAT GAC TAT TAG CAC TAT TTT TAT TAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
8311280 TAT TAT TTT TAT TCT TTT TAT TAT TATT TAT TAT CAA TATT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TA-T TAT TAT
8311327 TAT T
1 TAT T
8311331 GCTATTATTG
Statistics
Matches: 68, Mismatches: 26, Indels: 4
0.69 0.27 0.04
Matches are distributed among these distances:
3 63 0.93
4 5 0.07
ACGTcount: A:0.29, C:0.08, G:0.02, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:8311359 original size:15 final size:14
Alignment explanation
Indices: 8311341--8311383 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
8311331 GCTATTATTG
*
8311341 CTATTATATTTTAAT
1 CTATTTTATTTT-AT
8311356 CTATATTTATTTTAT
1 CTAT-TTTATTTTAT
8311371 CTAATTTTATTTT
1 CT-ATTTTATTTT
8311384 TCTCTTTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 16 0.64
16 9 0.36
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (14 bp):
CTATTTTATTTTAT
Found at i:8311564 original size:21 final size:20
Alignment explanation
Indices: 8311521--8311567 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
8311511 CCTTTATTAA
* **
8311521 TACTATATTATTCTTATTTT
1 TACTATATTATTATTATCAT
8311541 TACTACTATTATTATTATCAT
1 TACTA-TATTATTATTATCAT
8311562 TACTAT
1 TACTAT
8311568 CACATTATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.30, C:0.13, G:0.00, T:0.57
Consensus pattern (20 bp):
TACTATATTATTATTATCAT
Found at i:8311652 original size:15 final size:15
Alignment explanation
Indices: 8311625--8311660 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
8311615 GTCAACATTA
8311625 TTATTTTTATTTTAC
1 TTATTTTTATTTTAC
8311640 -TATTTTATATTTTAC
1 TTATTTT-TATTTTAC
8311655 TTATTT
1 TTATTT
8311661 ATTTATCGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 6 0.32
15 8 0.42
16 5 0.26
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.72
Consensus pattern (15 bp):
TTATTTTTATTTTAC
Found at i:8311726 original size:31 final size:31
Alignment explanation
Indices: 8311688--8311759 Score: 85
Period size: 31 Copynumber: 2.3 Consensus size: 31
8311678 TAAGTTTCTT
*
8311688 TTTTTATTCTT-ATTATCCTTATTTATTTTTA
1 TTTTTATTCTTCATCATCCTTA-TTATTTTTA
*
8311719 TTTTTATT-TTCATCATCTTTATTATTTTTA
1 TTTTTATTCTTCATCATCCTTATTATTTTTA
*
8311749 TCTGTTATTCT
1 T-TTTTATTCT
8311760 CTTCTTAAGT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
30 12 0.34
31 22 0.63
32 1 0.03
ACGTcount: A:0.18, C:0.11, G:0.01, T:0.69
Consensus pattern (31 bp):
TTTTTATTCTTCATCATCCTTATTATTTTTA
Found at i:8315514 original size:25 final size:25
Alignment explanation
Indices: 8315467--8315516 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
8315457 TTTTGATTGA
* *
8315467 TTCTCTATGTTTTTTTTTTAATTTT
1 TTCTCTATGTTTTTTATTCAATTTT
8315492 TTCTCTAT-TTTTTTAATTCAATTTT
1 TTCTCTATGTTTTTT-ATTCAATTTT
8315517 CTGTGTTTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 6 0.27
25 16 0.73
ACGTcount: A:0.16, C:0.10, G:0.02, T:0.72
Consensus pattern (25 bp):
TTCTCTATGTTTTTTATTCAATTTT
Found at i:8317751 original size:18 final size:18
Alignment explanation
Indices: 8317730--8317847 Score: 92
Period size: 18 Copynumber: 6.4 Consensus size: 18
8317720 GGCGGTGGCA
*
8317730 GCTGTCGCGGCGGTTGAG
1 GCTGTCGCTGCGGTTGAG
*
8317748 GCTGTTGCTGCGGTTGAG
1 GCTGTCGCTGCGGTTGAG
* * *
8317766 GTTGTCGCTGCAGTGGAG
1 GCTGTCGCTGCGGTTGAG
* * *
8317784 GCTGTCGAGGCAGCGGTGGCG
1 GCTGTC---GCTGCGGTTGAG
*
8317805 GCTGTCGCTGCGGTCGAG
1 GCTGTCGCTGCGGTTGAG
* * *
8317823 GTTGTCGTTGCGGTGGAG
1 GCTGTCGCTGCGGTTGAG
*
8317841 GTTGTCG
1 GCTGTCG
8317848 TGGCGGCAAT
Statistics
Matches: 81, Mismatches: 16, Indels: 6
0.79 0.16 0.06
Matches are distributed among these distances:
18 66 0.81
21 15 0.19
ACGTcount: A:0.07, C:0.19, G:0.47, T:0.26
Consensus pattern (18 bp):
GCTGTCGCTGCGGTTGAG
Found at i:8317755 original size:75 final size:74
Alignment explanation
Indices: 8317672--8317847 Score: 210
Period size: 75 Copynumber: 2.4 Consensus size: 74
8317662 CTGTGGCGGC
* * * *
8317672 GGCTGTTGCAGCTGTGGAGGTTGTCGCATTG-GTGGAGGCTATCGCGGCGGCGGTGGCAGCTGTC
1 GGCTGTTGCTGCGGTGGAGGTTGTCGC--TGAGTGGAGGCTATCGAGGCAGCGGTGGCAGCTGTC
*
8317736 GCGGCGGTTGA
64 GCGGCGGTCGA
* * *
8317747 GGCTGTTGCTGCGGTTGAGGTTGTCGCTGCAGTGGAGGCTGTCGAGGCAGCGGTGGCGGCTGTCG
1 GGCTGTTGCTGCGGTGGAGGTTGTCGCTG-AGTGGAGGCTATCGAGGCAGCGGTGGCAGCTGTCG
*
8317812 CTGCGGTCGA
65 CGGCGGTCGA
* * *
8317822 GGTTGTCGTTGCGGTGGAGGTTGTCG
1 GGCTGTTGCTGCGGTGGAGGTTGTCG
8317848 TGGCGGCAAT
Statistics
Matches: 86, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
73 2 0.02
75 84 0.98
ACGTcount: A:0.08, C:0.19, G:0.47, T:0.26
Consensus pattern (74 bp):
GGCTGTTGCTGCGGTGGAGGTTGTCGCTGAGTGGAGGCTATCGAGGCAGCGGTGGCAGCTGTCGC
GGCGGTCGA
Done.