Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 57 of 356
Found at i:18480245 original size:22 final size:20
Alignment explanation
Indices: 18480212--18480254 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 20
18480202 TAATACAAGT
18480212 AAAATATATTAATAATATATA
1 AAAATATATTAATAATA-ATA
*
18480233 AAAATAATGTTAATAATAATA
1 AAAAT-ATATTAATAATAATA
18480254 A
1 A
18480255 TAATTTGTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (20 bp):
AAAATATATTAATAATAATA
Found at i:18480367 original size:3 final size:3
Alignment explanation
Indices: 18480359--18480388 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
18480349 ATATATATAC
18480359 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
18480389 ATGAATATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:18482714 original size:210 final size:210
Alignment explanation
Indices: 18482081--18483069 Score: 1573
Period size: 210 Copynumber: 4.7 Consensus size: 210
18482071 CCCATTGAAT
* * * *
18482081 GTGGAGATGCCAGACTTTGATTTGTTCTCTAACAATACAGAA-ACGAC-AA--ATC----ATTTG
1 GTGGAAATGCCAGACTTCGATTTGTTCTCTGACCATACA-AAGACGACAAATCATCTTAGATTTG
*
18482138 CTTCATCGTAAACACGTGAAGGCCAAATCAGCTATATCTTTGATCTGCTCCCCGCCGAATACAGA
65 CTTCATCGTAAACACGTGAAAGCCAAATCAGCTATATCTTTGATCTGCTCCCCGCCGAATACAGA
* * *
18482203 GAGATAAGATCTGTCATCTTGGATCTGCTTCAGTGTAAACATCTGAAGGTGAGACCTGCTATGGG
130 GAGATAAGATCTGTCATCTTGGATCTGCTTCAGCGTAAACATCTGAAGGTGAGATCTGCTATGTG
18482268 TCTGCCTTCCATCAAA
195 TCTGCCTTCCATCAAA
* *
18482284 GTGGAAATGCCAGACTTCGATTTGTTCTCTGACAATACAAAGGCGACAAATCATCTTAGATTTGC
1 GTGGAAATGCCAGACTTCGATTTGTTCTCTGACCATACAAAGACGACAAATCATCTTAGATTTGC
* * * * *
18482349 TTCATCGTAAACACGTGAAAGCCAAATCTGCCATATC-TTCATCTGGTCCCCGCTGAATACAGAG
66 TTCATCGTAAACACGTGAAAGCCAAATCAGCTATATCTTTGATCTGCTCCCCGCCGAATACAGAG
* * *
18482413 AGATAAGATTTGTCATCTTGGATCTGCTTCAGCGTAAACATCTGGAGGTGAGATCTACTATGTGT
131 AGATAAGATCTGTCATCTTGGATCTGCTTCAGCGTAAACATCTGAAGGTGAGATCTGCTATGTGT
18482478 CTGCCTTCCATCAAA
196 CTGCCTTCCATCAAA
*
18482493 GTGGAAATGCTAGACTTCGATTTGTTCTCTGACCATACAAAGACGACAAATCATCTTAGATTTGC
1 GTGGAAATGCCAGACTTCGATTTGTTCTCTGACCATACAAAGACGACAAATCATCTTAGATTTGC
*
18482558 TTCATCGTAAACACGTGAAAGCTAAATCAGCTATATCTTTGATCTGCTCCCCGCCGAATACAGAG
66 TTCATCGTAAACACGTGAAAGCCAAATCAGCTATATCTTTGATCTGCTCCCCGCCGAATACAGAG
18482623 AGATAAGATCTGTCATCTTGGATCTGCTTCAGCGTAAACATCTGAAGGTGAGATCTGCTATGTGT
131 AGATAAGATCTGTCATCTTGGATCTGCTTCAGCGTAAACATCTGAAGGTGAGATCTGCTATGTGT
18482688 CTGCCTTCCATCAAA
196 CTGCCTTCCATCAAA
* * * *
18482703 GTGGGAATGCTAGACTTCGATTTGTTCTCTGACCATACAGAGACGACAAATCATTTTAGATTTGC
1 GTGGAAATGCCAGACTTCGATTTGTTCTCTGACCATACAAAGACGACAAATCATCTTAGATTTGC
*
18482768 TTCATCGTAAACACGTGAAAGCCAAATCAGCTATATCTTTGATCTGCTCCCCACCGAATACAGAG
66 TTCATCGTAAACACGTGAAAGCCAAATCAGCTATATCTTTGATCTGCTCCCCGCCGAATACAGAG
* *
18482833 AGATAAGATCTGTTATCTTGGATCTGCTTCAGCGTAAACATCTGAAGGTGAGATCTGCTATGTAT
131 AGATAAGATCTGTCATCTTGGATCTGCTTCAGCGTAAACATCTGAAGGTGAGATCTGCTATGTGT
*
18482898 TTGCCTTCCATCAAA
196 CTGCCTTCCATCAAA
* * * *
18482913 GTGGAAATGCCAGACTTCGATTTGTTCTCTAACCATACAGAGATGACAAATCATCTTAGATTTGA
1 GTGGAAATGCCAGACTTCGATTTGTTCTCTGACCATACAAAGACGACAAATCATCTTAGATTTGC
* * * *
18482978 TTCATCGTAAACATGTGAAATCCAAATCAGCTATATCTTCGATTTGCTCCCCGCCGAATACAGAG
66 TTCATCGTAAACACGTGAAAGCCAAATCAGCTATATCTTTGATCTGCTCCCCGCCGAATACAGAG
*
18483043 AGATAAGATCTGTTATCTTGGATCTGC
131 AGATAAGATCTGTCATCTTGGATCTGC
18483070 CCTGATAATG
Statistics
Matches: 730, Mismatches: 47, Indels: 11
0.93 0.06 0.01
Matches are distributed among these distances:
202 2 0.00
203 40 0.05
204 2 0.00
206 3 0.00
209 194 0.27
210 489 0.67
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (210 bp):
GTGGAAATGCCAGACTTCGATTTGTTCTCTGACCATACAAAGACGACAAATCATCTTAGATTTGC
TTCATCGTAAACACGTGAAAGCCAAATCAGCTATATCTTTGATCTGCTCCCCGCCGAATACAGAG
AGATAAGATCTGTCATCTTGGATCTGCTTCAGCGTAAACATCTGAAGGTGAGATCTGCTATGTGT
CTGCCTTCCATCAAA
Found at i:18491180 original size:14 final size:14
Alignment explanation
Indices: 18491157--18491186 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
18491147 ATTCTGGTTC
18491157 AATTTCATTTAGAA
1 AATTTCATTTAGAA
*
18491171 AATTTTATTTAGAA
1 AATTTCATTTAGAA
18491185 AA
1 AA
18491187 AGAATATCTT
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:0.47, C:0.03, G:0.07, T:0.43
Consensus pattern (14 bp):
AATTTCATTTAGAA
Found at i:18495087 original size:23 final size:24
Alignment explanation
Indices: 18495048--18495112 Score: 75
Period size: 23 Copynumber: 2.8 Consensus size: 24
18495038 ATACATAACA
*
18495048 TATATATAA-AAAAATAAT-AA-G
1 TATATAGAATAAAAATAATAAACG
18495069 TAATATAGAATAAAAATAATAAACG
1 T-ATATAGAATAAAAATAATAAACG
18495094 T-TATAGAATAAAACATAAT
1 TATATAGAATAAAA-ATAAT
18495113 TTGAATATAT
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
21 1 0.03
22 7 0.18
23 21 0.55
24 7 0.18
25 2 0.05
ACGTcount: A:0.63, C:0.03, G:0.06, T:0.28
Consensus pattern (24 bp):
TATATAGAATAAAAATAATAAACG
Found at i:18495193 original size:15 final size:15
Alignment explanation
Indices: 18495175--18495231 Score: 57
Period size: 15 Copynumber: 3.9 Consensus size: 15
18495165 ATGTAAGGGC
*
18495175 AATATATATATAATT
1 AATAAATATATAATT
*
18495190 AATAAATATATAATAC
1 AATAAATATATAAT-T
18495206 AAGTAAA-ATAT-ATT
1 AA-TAAATATATAATT
18495220 AAT-AATATATAA
1 AATAAATATATAA
18495232 AAATAATGTT
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
12 2 0.06
13 5 0.14
14 3 0.09
15 15 0.43
16 6 0.17
17 4 0.11
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (15 bp):
AATAAATATATAATT
Found at i:18495243 original size:22 final size:20
Alignment explanation
Indices: 18495210--18495252 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 20
18495200 TAATACAAGT
18495210 AAAATATATTAATAATATATA
1 AAAATATATTAATAATA-ATA
*
18495231 AAAATAATGTTAATAATAATA
1 AAAAT-ATATTAATAATAATA
18495252 A
1 A
18495253 TAATTTGTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (20 bp):
AAAATATATTAATAATAATA
Found at i:18497519 original size:3 final size:3
Alignment explanation
Indices: 18497511--18497559 Score: 91
Period size: 3 Copynumber: 16.7 Consensus size: 3
18497501 AGAATAGTAG
18497511 ATA ATA ATA ATA ATA ATA ATA AT- ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
18497558 AT
1 AT
18497560 GTAACAAAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 43 0.96
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:18497724 original size:11 final size:12
Alignment explanation
Indices: 18497705--18497734 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
18497695 ATAACAAGTA
18497705 AATAGTAATAAT
1 AATAGTAATAAT
18497717 AATA-TAATAAT
1 AATAGTAATAAT
18497728 AATAGTA
1 AATAGTA
18497735 TATGTTAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (12 bp):
AATAGTAATAAT
Found at i:18497777 original size:9 final size:9
Alignment explanation
Indices: 18497758--18497787 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
18497748 ACAATAATAG
18497758 AAAAT-AAA
1 AAAATAAAA
18497766 AAAATAAAA
1 AAAATAAAA
18497775 AAAATAAAA
1 AAAATAAAA
18497784 AAAA
1 AAAA
18497788 CTATGTCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 5 0.24
9 16 0.76
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (9 bp):
AAAATAAAA
Found at i:18497844 original size:12 final size:11
Alignment explanation
Indices: 18497818--18497870 Score: 52
Period size: 12 Copynumber: 4.4 Consensus size: 11
18497808 GAAATAACAG
*
18497818 TAATAAAAACAA
1 TAATAATAA-AA
18497830 TAATAATAAATA
1 TAATAATAAA-A
18497842 TAATAATAGAAAA
1 TAATAAT--AAAA
18497855 TAATAATGAAAA
1 TAATAAT-AAAA
18497867 TAAT
1 TAAT
18497871 TAATTTGAGA
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
11 1 0.03
12 25 0.68
13 8 0.22
14 3 0.08
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.26
Consensus pattern (11 bp):
TAATAATAAAA
Found at i:18498572 original size:13 final size:13
Alignment explanation
Indices: 18498554--18498584 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
18498544 AATAGATTTA
18498554 AAAAAATAAAAAT
1 AAAAAATAAAAAT
*
18498567 AAAAAATAATAAT
1 AAAAAATAAAAAT
18498580 AAAAA
1 AAAAA
18498585 GATGAAACCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (13 bp):
AAAAAATAAAAAT
Found at i:18500495 original size:14 final size:14
Alignment explanation
Indices: 18500476--18500509 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
18500466 TTAAATAGGT
*
18500476 TAATATTAAAATCC
1 TAATATTAAAATAC
18500490 TAATATTAAAATAC
1 TAATATTAAAATAC
18500504 TAATAT
1 TAATAT
18500510 AATTAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (14 bp):
TAATATTAAAATAC
Found at i:18506845 original size:4 final size:4
Alignment explanation
Indices: 18506829--18506874 Score: 67
Period size: 4 Copynumber: 11.8 Consensus size: 4
18506819 GTTTACTTAA
* *
18506829 AAAG AAA- AAAG AAAG AAAC AAAG AAAC AAAG AAAG AAAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
18506875 ACTTTTTCCA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
3 3 0.08
4 34 0.92
ACGTcount: A:0.78, C:0.04, G:0.17, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:18509384 original size:16 final size:16
Alignment explanation
Indices: 18509359--18509396 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
18509349 GTAGATCGGC
18509359 AAAAGCTGAAATACCG
1 AAAAGCTGAAATACCG
* *
18509375 AAAAGTTGAAATGCCG
1 AAAAGCTGAAATACCG
18509391 AAAAGC
1 AAAAGC
18509397 CAAAAGTTTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.50, C:0.16, G:0.21, T:0.13
Consensus pattern (16 bp):
AAAAGCTGAAATACCG
Found at i:18509543 original size:18 final size:19
Alignment explanation
Indices: 18509508--18509545 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
18509498 TAAATAGGCC
*
18509508 AAATGGGCCGGAATGGGCT
1 AAATGGGCCCGAATGGGCT
18509527 AAATGGGCCCG-ATGGGCT
1 AAATGGGCCCGAATGGGCT
18509545 A
1 A
18509546 TTGGGCCCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.26, C:0.18, G:0.39, T:0.16
Consensus pattern (19 bp):
AAATGGGCCCGAATGGGCT
Found at i:18509645 original size:28 final size:29
Alignment explanation
Indices: 18509614--18509765 Score: 161
Period size: 29 Copynumber: 5.3 Consensus size: 29
18509604 GTGAGCATGA
* * *
18509614 ATAT-AATGTGATTTGGGTCAGATGGACC
1 ATATGAATGTGAATTGGGCCAGATGGGCC
* *
18509642 ATATAAATGAG-ATTGGGCCTA-ATGGGCC
1 ATATGAATGTGAATTGGGCC-AGATGGGCC
*
18509670 ATATGAATGTGAATTGGGCCTGATGGGCC
1 ATATGAATGTGAATTGGGCCAGATGGGCC
*
18509699 ATATGAACGTGAATTGGGCCAGATGGGCC
1 ATATGAATGTGAATTGGGCCAGATGGGCC
* *
18509728 ATATAAATGAG-ATTGGGCCTAG-TGGGCC
1 ATATGAATGTGAATTGGGCC-AGATGGGCC
*
18509756 ATATGCATGT
1 ATATGAATGT
18509766 ATATAGGGGT
Statistics
Matches: 104, Mismatches: 15, Indels: 10
0.81 0.12 0.08
Matches are distributed among these distances:
28 46 0.44
29 58 0.56
ACGTcount: A:0.28, C:0.14, G:0.31, T:0.27
Consensus pattern (29 bp):
ATATGAATGTGAATTGGGCCAGATGGGCC
Found at i:18511624 original size:20 final size:19
Alignment explanation
Indices: 18511599--18511650 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 19
18511589 AGCAATGAAT
18511599 TTGTTCACCAAGAGATACAA
1 TTGTTCA-CAAGAGATACAA
*
18511619 TTGTTCA-AA-AGGTACAA
1 TTGTTCACAAGAGATACAA
*
18511636 CTGTTCATCAAGAGA
1 TTGTTCA-CAAGAGA
18511651 CAAAACATTG
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
17 13 0.50
18 2 0.08
19 2 0.08
20 9 0.35
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.27
Consensus pattern (19 bp):
TTGTTCACAAGAGATACAA
Found at i:18518031 original size:27 final size:27
Alignment explanation
Indices: 18518001--18518186 Score: 248
Period size: 27 Copynumber: 6.9 Consensus size: 27
18517991 GGCAAAATGA
* * * *
18518001 TAATTTTACCCCACAAGGGTATCTCGG
1 TAATTCTACCCTACAGGGGTATTTCGG
*
18518028 TAATTCTACCCTACAGGGGTATTTCAG
1 TAATTCTACCCTACAGGGGTATTTCGG
*
18518055 TAATTCTACCCTACAAGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCGG
* *
18518082 TAATTTTACCCTACAGGGGTATTTTGG
1 TAATTCTACCCTACAGGGGTATTTCGG
*
18518109 TAATTCTACCCTACAGGGGTATTTCAG
1 TAATTCTACCCTACAGGGGTATTTCGG
* * *
18518136 TAATTCTACCATATAGGGGTATTTCAG
1 TAATTCTACCCTACAGGGGTATTTCGG
*
18518163 TAA-TCTACCCTACAAGGGTATTTC
1 TAATTCTACCCTACAGGGGTATTTC
18518187 AATAATTTCA
Statistics
Matches: 141, Mismatches: 18, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
26 18 0.13
27 123 0.87
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.34
Consensus pattern (27 bp):
TAATTCTACCCTACAGGGGTATTTCGG
Found at i:18518136 original size:81 final size:81
Alignment explanation
Indices: 18518001--18518186 Score: 284
Period size: 81 Copynumber: 2.3 Consensus size: 81
18517991 GGCAAAATGA
* * *
18518001 TAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCC
1 TAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCA
*
18518066 TACAAGGGTATTTCGG
66 TACAAGGGTATTTCAG
* *
18518082 TAATTTTACCCTACAGGGGTATTTTGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCA
1 TAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCA
* *
18518147 TATAGGGGTATTTCAG
66 TACAAGGGTATTTCAG
*
18518163 TAA-TCTACCCTACAAGGGTATTTC
1 TAATTTTACCCTACAAGGGTATTTC
18518187 AATAATTTCA
Statistics
Matches: 94, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
80 18 0.19
81 76 0.81
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.34
Consensus pattern (81 bp):
TAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCA
TACAAGGGTATTTCAG
Found at i:18518219 original size:53 final size:54
Alignment explanation
Indices: 18518041--18518212 Score: 208
Period size: 54 Copynumber: 3.2 Consensus size: 54
18518031 TTCTACCCTA
* * **
18518041 CAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGGTAATTTTAC-CCT
1 CAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAGTAATTTCACAAAT
** * *
18518094 ACAGGGGTATTTTGGTAATTCTACCCTACAGGGGTATTTCAGTAA-TTCTACCATAT
1 -CAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAGTAATTTC-A-CAAAT
*
18518150 -AGGGGTATTTCAGTAA-TCTACCCTACAAGGGTATTTCAATAATTTCACAAAT
1 CAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAGTAATTTCACAAAT
18518202 CAGGGGTATTT
1 CAGGGGTATTT
18518213 TGGTAATTTC
Statistics
Matches: 101, Mismatches: 12, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
52 4 0.04
53 37 0.37
54 58 0.57
55 1 0.01
56 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (54 bp):
CAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAGTAATTTCACAAAT
Found at i:18518254 original size:54 final size:54
Alignment explanation
Indices: 18518189--18518329 Score: 228
Period size: 54 Copynumber: 2.6 Consensus size: 54
18518179 GGTATTTCAA
* *
18518189 TAATTTCACAAATCAGGGGTATTTTGGTAATTTCACAAACTAGGAGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGGTAATTTCACAAACTAGGAGTATTTTGG
* *
18518243 TAATTTTACAAACCAGTGGTATTTTGGTAATTTCACAAACTAGGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGGTAATTTCACAAACTAGGAGTATTTTGG
* *
18518297 CAATTTTACAAGCCAGGGGTATTTTGGTAATTT
1 TAATTTTACAAACCAGGGGTATTTTGGTAATTT
18518330 TGTTAATCAA
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 80 1.00
ACGTcount: A:0.30, C:0.11, G:0.21, T:0.38
Consensus pattern (54 bp):
TAATTTTACAAACCAGGGGTATTTTGGTAATTTCACAAACTAGGAGTATTTTGG
Found at i:18518264 original size:107 final size:108
Alignment explanation
Indices: 18518027--18518266 Score: 265
Period size: 107 Copynumber: 2.2 Consensus size: 108
18518017 GGGTATCTCG
** ** * *
18518027 GTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGGTAATTTTACC
1 GTAATTCTACCAAACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAATAATTTCACA
* ** *
18518092 CTACAGGGGTATTTTGGTAATTCTACCCTACAGGGGTATTTCA
66 ATACAGGGGTATTTTGGTAATTCTACCAAACAGGAGTATTTCA
* *
18518135 GTAATTCTACCATATAGGGGTATTTCAGTAA-TCTACCCTACAAGGGTATTTCAATAATTTCACA
1 GTAATTCTACCAAACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAATAATTTCACA
**
18518199 A-ATCAGGGGTATTTTGGTAATT-T-CACAAACTAGGAGTATTTTG
66 ATA-CAGGGGTATTTTGGTAATTCTAC-CAAAC-AGGAGTATTTCA
* *
18518242 GTAATTTTA-CAAACCAGTGGTATTT
1 GTAATTCTACCAAA-CAGGGGTATTT
18518267 TGGTAATTTC
Statistics
Matches: 112, Mismatches: 16, Indels: 9
0.82 0.12 0.07
Matches are distributed among these distances:
105 1 0.01
106 8 0.07
107 74 0.66
108 29 0.26
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (108 bp):
GTAATTCTACCAAACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAATAATTTCACA
ATACAGGGGTATTTTGGTAATTCTACCAAACAGGAGTATTTCA
Found at i:18518330 original size:27 final size:27
Alignment explanation
Indices: 18518189--18518330 Score: 194
Period size: 27 Copynumber: 5.3 Consensus size: 27
18518179 GGTATTTCAA
* *
18518189 TAATTTCACAAATCAGGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
* * *
18518216 TAATTTCACAAACTAGGAGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
*
18518243 TAATTTTACAAACCAGTGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
* *
18518270 TAATTTCACAAACTAGGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
* *
18518297 CAATTTTACAAGCCAGGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
18518324 TAATTTT
1 TAATTTT
18518331 GTTAATCAAG
Statistics
Matches: 100, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 100 1.00
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (27 bp):
TAATTTTACAAACCAGGGGTATTTTGG
Found at i:18518343 original size:27 final size:27
Alignment explanation
Indices: 18518313--18518389 Score: 73
Period size: 27 Copynumber: 2.9 Consensus size: 27
18518303 TACAAGCCAG
* *
18518313 GGGTATTTTGGTAATTTTGTTAATCAA
1 GGGTAATTTGGTAATTTTGTAAATCAA
*** *
18518340 GGGTAAAACGGTAATTCTGTAAATCAA
1 GGGTAATTTGGTAATTTTGTAAATCAA
* * *
18518367 TGGTACTTTGGTAATTTGGTAAA
1 GGGTAATTTGGTAATTTTGTAAA
18518390 CTAAAGTATT
Statistics
Matches: 37, Mismatches: 13, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.31, C:0.06, G:0.23, T:0.39
Consensus pattern (27 bp):
GGGTAATTTGGTAATTTTGTAAATCAA
Found at i:18518353 original size:81 final size:81
Alignment explanation
Indices: 18518189--18518355 Score: 185
Period size: 81 Copynumber: 2.1 Consensus size: 81
18518179 GGTATTTCAA
* *
18518189 TAATTTCACAAATCAGGGGTATTTTGGTAATTTCACAAACTAGGAGTATTTTGGTAATTTTACAA
1 TAATTTCACAAATCAGGGGTATTTTGGCAATTTCACAAACCAGGAGTATTTTGGTAATTTTACAA
* ****
18518254 ACCAGTGGTATTTTGG
66 ACAAGTGGTAAAACGG
* * * **
18518270 TAATTTCACAAA-CTAGGGGTATTTTGGCAATTTTACAAGCCAGGGGTATTTTGGTAATTTTGTT
1 TAATTTCACAAATC-AGGGGTATTTTGGCAATTTCACAAACCAGGAGTATTTTGGTAATTTT-AC
*
18518334 AATCAAG-GGTAAAACGG
64 AAACAAGTGGTAAAACGG
18518351 TAATT
1 TAATT
18518356 CTGTAAATCA
Statistics
Matches: 71, Mismatches: 13, Indels: 4
0.81 0.15 0.05
Matches are distributed among these distances:
80 1 0.01
81 65 0.92
82 5 0.07
ACGTcount: A:0.31, C:0.11, G:0.21, T:0.37
Consensus pattern (81 bp):
TAATTTCACAAATCAGGGGTATTTTGGCAATTTCACAAACCAGGAGTATTTTGGTAATTTTACAA
ACAAGTGGTAAAACGG
Found at i:18519365 original size:17 final size:18
Alignment explanation
Indices: 18519343--18519380 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
18519333 GTTTACCAAG
*
18519343 AGATACAATTGTTCAA-A
1 AGATACAACTGTTCAATA
18519360 AGATACAACTGTTCAATA
1 AGATACAACTGTTCAATA
18519378 AGA
1 AGA
18519381 GACAGAACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.26
Consensus pattern (18 bp):
AGATACAACTGTTCAATA
Found at i:18519672 original size:7 final size:7
Alignment explanation
Indices: 18519660--18519692 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
18519650 AAGTTTCTTT
18519660 TATTTAA
1 TATTTAA
18519667 TATTTAA
1 TATTTAA
18519674 TATTTAA
1 TATTTAA
18519681 TATTTAA
1 TATTTAA
18519688 TATTT
1 TATTT
18519693 GATTATTTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (7 bp):
TATTTAA
Found at i:18525075 original size:16 final size:17
Alignment explanation
Indices: 18525049--18525081 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
18525039 CTTTAATAAT
18525049 TTTACTTTCTTTATTTA
1 TTTACTTTCTTTATTTA
*
18525066 TTTA-TTTCTTTGTTTA
1 TTTACTTTCTTTATTTA
18525082 AATTCTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.15, C:0.09, G:0.03, T:0.73
Consensus pattern (17 bp):
TTTACTTTCTTTATTTA
Found at i:18525137 original size:23 final size:24
Alignment explanation
Indices: 18525111--18525156 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
18525101 TAAACTTCTC
* *
18525111 TTTTATATTATA-TTGTTTTAAAA
1 TTTTATATAATATTTATTTTAAAA
*
18525134 TTTTGTATAATATTTATTTTAAA
1 TTTTATATAATATTTATTTTAAA
18525157 TTACCTTTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (24 bp):
TTTTATATAATATTTATTTTAAAA
Found at i:18527420 original size:55 final size:56
Alignment explanation
Indices: 18527336--18527454 Score: 222
Period size: 55 Copynumber: 2.1 Consensus size: 56
18527326 ACAAGGGATG
18527336 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAA-AATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
18527391 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
*
18527447 ATGAGCAA
1 ATGGGCAA
18527455 TAAACTAATA
Statistics
Matches: 62, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
55 40 0.65
56 22 0.35
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
Found at i:18527540 original size:11 final size:11
Alignment explanation
Indices: 18527524--18527548 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
18527514 ATGCATGACC
18527524 AAAAAAAAAAG
1 AAAAAAAAAAG
18527535 AAAAAAAAAAG
1 AAAAAAAAAAG
18527546 AAA
1 AAA
18527549 GAAGAGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:18530097 original size:47 final size:47
Alignment explanation
Indices: 18530034--18530675 Score: 945
Period size: 47 Copynumber: 13.6 Consensus size: 47
18530024 CCCTTCGGGA
* * * *
18530034 CTTATCACATTTATACACT-TCCACATCCATCACATTGGTCATTCGGC
1 CTTATCACATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
18530081 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
* *
18530128 CTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
18530175 CTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
18530222 CTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
18530269 CTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
18530316 CTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
18530363 CTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
18530410 CTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
*
18530457 CTTATCACATATATATACACT-TTCACATTCATCACATTGGCCATTAGGC
1 CTTATCAC--ATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
*
18530506 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
* *
18530553 CTTATCACATATACACATGTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
*
18530600 CTTATCACATATATATACACT-TTCACATTCATCACATTGGCCATTAGGC
1 CTTATCAC--ATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
18530649 CTTATCACATATATACACT-TTCACATT
1 CTTATCACATATATACA-TGTTCACATT
18530676 TATTCAAATA
Statistics
Matches: 556, Mismatches: 31, Indels: 16
0.92 0.05 0.03
Matches are distributed among these distances:
46 2 0.00
47 466 0.84
49 86 0.15
50 2 0.00
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
Found at i:18530515 original size:22 final size:22
Alignment explanation
Indices: 18530487--18530609 Score: 68
Period size: 22 Copynumber: 5.3 Consensus size: 22
18530477 TTTCACATTC
18530487 ATCACATTGGCCATTAGGCCTT
1 ATCACATTGGCCATTAGGCCTT
*** *** *
18530509 ATCACATATATACACTTTCACATT
1 ATCACAT-TGGCCA-TTAGGCCTT
18530533 CATCACATTGGCCATTAGGCCTT
1 -ATCACATTGGCCATTAGGCCTT
* *** *
18530556 ATCACATAT-ACACATGTTCACATT
1 ATCACAT-TGGC-CAT-TAGGCCTT
18530580 CATCACATTGGCCATTAGGCCTT
1 -ATCACATTGGCCATTAGGCCTT
18530603 ATCACAT
1 ATCACAT
18530610 ATATATACAC
Statistics
Matches: 69, Mismatches: 24, Indels: 16
0.63 0.22 0.15
Matches are distributed among these distances:
22 22 0.32
23 16 0.23
24 16 0.23
25 15 0.22
ACGTcount: A:0.29, C:0.28, G:0.11, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTAGGCCTT
Found at i:18535719 original size:40 final size:39
Alignment explanation
Indices: 18535635--18535943 Score: 196
Period size: 40 Copynumber: 7.7 Consensus size: 39
18535625 TCGAATGATG
* * * *
18535635 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* *
18535675 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* *
18535715 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
18535754 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
** ** * * **
18535795 -CTAGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA-TGTA
1 TCCGGGCTAAGT-CCGAAG-GCATTTGTGCGAGTTACTAAA
** * * **
18535834 TCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGA-TGTA
1 TCCGGGCTAAG-TCCGAAG-GCATTTGTGCGAGTTACTAAA
** * * **
18535874 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA-TGTA
1 TCCGGGCTAAGT-CCGAAG-GCATTTGTGCGAGTTACTAAA
*
18535914 TCCGGGCTAAGTTCCGAAGAGCATTCGTGC
1 TCCGGGCTAAG-TCCGAAG-GCATTTGTGC
18535944 TAGTGATATA
Statistics
Matches: 235, Mismatches: 25, Indels: 18
0.85 0.09 0.06
Matches are distributed among these distances:
39 37 0.16
40 174 0.74
41 24 0.10
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:18535736 original size:39 final size:40
Alignment explanation
Indices: 18535635--18535818 Score: 198
Period size: 40 Copynumber: 4.6 Consensus size: 40
18535625 TCGAATGATG
* * *
18535635 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
*
18535674 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
18535715 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
18535754 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* **
18535793 AACTAGGCTAAGTCCCGAAGAGCATT
1 -TCCGGGCTAAGTCCCGAAG-GCATT
18535819 CATGCTAGTG
Statistics
Matches: 123, Mismatches: 14, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
39 36 0.29
40 72 0.59
41 15 0.12
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:18535771 original size:79 final size:80
Alignment explanation
Indices: 18535635--18535791 Score: 212
Period size: 79 Copynumber: 2.0 Consensus size: 80
18535625 TCGAATGATG
* *
18535635 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
18535700 GTGCGAGTTACTAAT
66 GTGCGAGTTACTAAT
* * * **
18535715 TCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
18535777 TTGTGCGAGTTACTA
64 TTGTGCGAGTTACTA
18535792 TAACTAGGCT
Statistics
Matches: 68, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
78 1 0.01
79 50 0.74
80 17 0.25
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGTTACTAAT
Found at i:18535891 original size:120 final size:120
Alignment explanation
Indices: 18535753--18536023 Score: 328
Period size: 120 Copynumber: 2.3 Consensus size: 120
18535743 GAGTTACTAA
* ** * *
18535753 ATCCGGGTTAAGTCCCGAAG-GCATTTGTGCGAGTTACTATAACTAGGCTAAGTCCCGAAGAGCA
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCGAGTGA-TATAACCAGGCTAAGTCCCGAAGAGCA
* *** *
18535817 TTCATGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATGT
65 TTCATGCTAGTGATATATCCGGGCTAAACCCCGAAGAGCATTCATGCTAGTGATAT
* * * * *
18535873 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCGAGTGATATAACCAGGCTAAGTCCCGAAGAGCAT
* * * * *
18535938 TCGTGCTAGTGATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTAT
66 TCATGCTAGTGATATATCCGGGCTAAACCCCGAAGAGCATTCATGCTAGTGATAT
* *
18535993 ATCCGGGCTAGGTCCCGAAGAGCAATCATGC
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGC
18536024 TGGTGACGTG
Statistics
Matches: 128, Mismatches: 22, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
120 116 0.91
121 12 0.09
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (120 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCATGCGAGTGATATAACCAGGCTAAGTCCCGAAGAGCAT
TCATGCTAGTGATATATCCGGGCTAAACCCCGAAGAGCATTCATGCTAGTGATAT
Found at i:18535945 original size:40 final size:40
Alignment explanation
Indices: 18535798--18536029 Score: 338
Period size: 40 Copynumber: 5.8 Consensus size: 40
18535788 ACTATAACTA
18535798 GGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCG
1 GGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCG
*
18535838 GGCTAAGTTCCGAAGAGCATTCATGCTAGTGATGTATCCG
1 GGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCG
18535878 GGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCG
1 GGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCG
* * *
18535918 GGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCG
1 GGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCG
* ** * * * *
18535958 TGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTATATCCG
1 GGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCG
* * *
18535998 GGCTAGGTCCCGAAGAGCAATCATGCTGGTGA
1 GGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
18536030 CGTGTATTCG
Statistics
Matches: 174, Mismatches: 18, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 174 1.00
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCG
Found at i:18537380 original size:56 final size:56
Alignment explanation
Indices: 18537294--18537413 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
18537284 ACAAGGGATG
18537294 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
18537350 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
18537406 ATGGGCAA
1 ATGGGCAA
18537414 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:18538927 original size:47 final size:47
Alignment explanation
Indices: 18538873--18539465 Score: 732
Period size: 47 Copynumber: 12.6 Consensus size: 47
18538863 TATTTGAATA
*
18538873 AATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAACA-TGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
18538920 AATGTGAA-AGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAACA-TG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
18538969 AATGTGAACATGTGTATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
18539016 AATGTGAA-AGTGTATATATATGTGATAATGGCATTTATGTGATAAGGCCAATG-GATG
1 AATGTGAACA-TG--TATATATGTGATAA-GGC-------CGA-ATGGCCAATGTGATG
18539073 AATG-GAACATG----TATGTGATAA-GCC-AAT-G-C-ATGTGATG
1 AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
18539110 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
18539157 AATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
18539204 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
18539251 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
18539298 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
18539345 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
18539392 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACA-TGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
18539439 GATGTGGAA-GTGTATAAATGTGATAAG
1 AATGT-GAACATGTATATATGTGATAAG
18539466 TCCCGAAGGG
Statistics
Matches: 492, Mismatches: 25, Indels: 58
0.86 0.04 0.10
Matches are distributed among these distances:
36 3 0.01
37 9 0.02
38 8 0.02
39 1 0.00
40 1 0.00
42 9 0.02
43 3 0.01
44 3 0.01
45 1 0.00
46 3 0.01
47 350 0.71
48 5 0.01
49 58 0.12
50 14 0.03
56 5 0.01
57 10 0.02
58 9 0.02
ACGTcount: A:0.34, C:0.10, G:0.29, T:0.28
Consensus pattern (47 bp):
AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:18538967 original size:22 final size:22
Alignment explanation
Indices: 18538939--18539014 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
18538929 GTGTATATAT
18538939 ATGTGATAAGGCCTAATGGCCA
1 ATGTGATAAGGCCTAATGGCCA
* *** *
18538961 ATGTGATGAATGTGAACATGTG-TA
1 ATGTGAT-AAGGCCTA-ATG-GCCA
18538985 TATGTGATAAGGCCTAATGGCCA
1 -ATGTGATAAGGCCTAATGGCCA
18539008 ATGTGAT
1 ATGTGAT
18539015 GAATGTGAAA
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 15 0.38
23 8 0.21
24 8 0.21
25 8 0.21
ACGTcount: A:0.32, C:0.12, G:0.28, T:0.29
Consensus pattern (22 bp):
ATGTGATAAGGCCTAATGGCCA
Found at i:18545645 original size:16 final size:15
Alignment explanation
Indices: 18545615--18545655 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
18545605 TACATTCATC
*
18545615 TCATGCATTTGCATT
1 TCATTCATTTGCATT
*
18545630 TGCATTCATTTTCATT
1 T-CATTCATTTGCATT
18545646 TCATTCATTT
1 TCATTCATTT
18545656 AAGGCATATG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 10 0.43
16 13 0.57
ACGTcount: A:0.20, C:0.20, G:0.07, T:0.54
Consensus pattern (15 bp):
TCATTCATTTGCATT
Found at i:18545652 original size:15 final size:15
Alignment explanation
Indices: 18545609--18545655 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
18545599 ATTCTTTACA
* *
18545609 TTCATCTCATGCATT
1 TTCATTTCATTCATT
*
18545624 TGCATTTGCATTCATT
1 TTCATTT-CATTCATT
18545640 TTCATTTCATTCATT
1 TTCATTTCATTCATT
18545655 T
1 T
18545656 AAGGCATATG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
15 14 0.52
16 13 0.48
ACGTcount: A:0.19, C:0.21, G:0.06, T:0.53
Consensus pattern (15 bp):
TTCATTTCATTCATT
Found at i:18549369 original size:61 final size:59
Alignment explanation
Indices: 18549298--18549440 Score: 225
Period size: 61 Copynumber: 2.4 Consensus size: 59
18549288 TTCTTTCATT
*
18549298 CTTTCCACAAGTAATTGTTTTATTCTTTCCATTTGAGTAATTATTTTAGTCTTTTTTTTTA
1 CTTTCTACAAGTAATTGTTTTATTCTTTCCATTTGAGTAATTATTTTAGTC--TTTTTTTA
18549359 CTTTCTACAAGTAATTGTTTTATTCTTTCCATTTGAGTAATTATTTTAGTCTTTTTTTA
1 CTTTCTACAAGTAATTGTTTTATTCTTTCCATTTGAGTAATTATTTTAGTCTTTTTTTA
* * *
18549418 CTTTCTTC-AGTCATTCTTTTATT
1 CTTTCTACAAGTAATTGTTTTATT
18549441 TCATTCATAA
Statistics
Matches: 78, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
58 13 0.17
59 15 0.19
61 50 0.64
ACGTcount: A:0.20, C:0.14, G:0.08, T:0.58
Consensus pattern (59 bp):
CTTTCTACAAGTAATTGTTTTATTCTTTCCATTTGAGTAATTATTTTAGTCTTTTTTTA
Found at i:18554650 original size:133 final size:133
Alignment explanation
Indices: 18554247--18554651 Score: 357
Period size: 133 Copynumber: 3.1 Consensus size: 133
18554237 AAGATGGTGA
* * * *
18554247 ATCTTATCTTCCCGAGGTAGCA-TGGGAGCAGATTTTAGCCACCAGCCTTATCTTTTTAAGGTAG
1 ATCTTATCTTCCCGAGGTAGCAGT-GGAGCAGATTTTAGCCACAAGCCTTATCTCTCTGAGGTAG
* * * * * *
18554311 CAAGAGAGTAGGTTGAAGATTATAGTCTTATTTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATT
65 CAAGAGAGTAGATTGAAGATTGTAGTCTTATCTTCTTAAGGTAGCAAGGAAGCAGACTGAAGATC
18554376 GAAG
130 GAAG
* * * ** * * * *
18554380 ATCTTATC-TCCCTGAGATAGCAGTAGAGCAGA--TCA-AAACAAGTCTTATCTCCCTGAAGTTG
1 ATCTTATCTTCCC-GAGGTAGCAGTGGAGCAGATTTTAGCCACAAGCCTTATCTCTCTGAGGTAG
* * * * *
18554441 C-AGTGGAGTAGACTAAAAATTGTAGATCTTATCTCCTTAAGCAGTAGC--GG-AGCAGA-TCGA
65 CAAG-AGAGTAGATTGAAGATTGTAG-TCTTATCTTCTTAAG--GTAGCAAGGAAGCAGACT-GA
18554501 AGATGGCG-A-
125 AGAT--CGAAG
* * * * *
18554510 ATCTTATCTTCTCGAGGTAGTAGTGGAGCAGATTTTAGCCACTAGCCTCATCTCTCTGAGGAAGC
1 ATCTTATCTTCCCGAGGTAGCAGTGGAGCAGATTTTAGCCACAAGCCTTATCTCTCTGAGGTAGC
* *
18554575 AAGAGAGCAGATTGAAGATTGTAGTCTTATCTTCTTTAGGTAGCAAGGAAGCAGACTGAAGATCG
66 AAGAGAGTAGATTGAAGATTGTAGTCTTATCTTCTTAAGGTAGCAAGGAAGCAGACTGAAGATCG
18554640 AAG
131 AAG
*
18554643 ATATTATCT
1 ATCTTATCT
18554652 CCCTAAGCAG
Statistics
Matches: 206, Mismatches: 46, Indels: 40
0.71 0.16 0.14
Matches are distributed among these distances:
129 3 0.01
130 73 0.35
131 21 0.10
132 23 0.11
133 82 0.40
134 4 0.02
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.28
Consensus pattern (133 bp):
ATCTTATCTTCCCGAGGTAGCAGTGGAGCAGATTTTAGCCACAAGCCTTATCTCTCTGAGGTAGC
AAGAGAGTAGATTGAAGATTGTAGTCTTATCTTCTTAAGGTAGCAAGGAAGCAGACTGAAGATCG
AAG
Found at i:18554907 original size:45 final size:46
Alignment explanation
Indices: 18554793--18554909 Score: 131
Period size: 41 Copynumber: 2.7 Consensus size: 46
18554783 GCAAGGAAGC
* *
18554793 AGACTGAAGATTGAAGATCTTATCTCCCT-GAGATAGCAGTAGAGT
1 AGACTCAAGATTGAAGATCTTATCTCCCTAAAGATAGCAGTAGAGT
* *
18554838 AGA-TCAA-A--GCAAG-TCTTATCTCCCTAAAG-TTGCAGTGGAGT
1 AGACTCAAGATTG-AAGATCTTATCTCCCTAAAGATAGCAGTAGAGT
*
18554879 AGACTCAAGATTGTAGATCTTATCTCCCTAA
1 AGACTCAAGATTGAAGATCTTATCTCCCTAA
18554910 GCAGTAGTGG
Statistics
Matches: 60, Mismatches: 5, Indels: 14
0.76 0.06 0.18
Matches are distributed among these distances:
41 26 0.43
42 9 0.15
43 2 0.03
44 5 0.08
45 18 0.30
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (46 bp):
AGACTCAAGATTGAAGATCTTATCTCCCTAAAGATAGCAGTAGAGT
Found at i:18554943 original size:44 final size:45
Alignment explanation
Indices: 18554851--18554947 Score: 110
Period size: 44 Copynumber: 2.2 Consensus size: 45
18554841 TCAAAGCAAG
** * *
18554851 TCTTATCTCCCTAAAGTTGCAGTGGAGTAGACTCAAGATTGTAGA
1 TCTTATCTCCCTAAAGCAGCAGTGGAGCAGACTCAAGATGGTAGA
*
18554896 TCTTATCTCCCT-AAGCAGTAGTGGAGCAGA-TCGAAGATGGT-GAA
1 TCTTATCTCCCTAAAGCAGCAGTGGAGCAGACTC-AAGATGGTAG-A
18554940 TCTTATCT
1 TCTTATCT
18554948 TCCTGAGGTA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
43 3 0.07
44 30 0.67
45 12 0.27
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.31
Consensus pattern (45 bp):
TCTTATCTCCCTAAAGCAGCAGTGGAGCAGACTCAAGATGGTAGA
Found at i:18555076 original size:133 final size:133
Alignment explanation
Indices: 18554692--18555094 Score: 347
Period size: 133 Copynumber: 3.1 Consensus size: 133
18554682 GGTGAATTTT
* * * * * *
18554692 ATAGCAGGGAAGTAGATTTTAGCCACCAATATCATCTCTCTGAGGTAACAGAAGAGCAGGTTGAA
1 ATAGCAGGGGAGTAGATTTTAGCCACCAGTCTCATCTCTCTAAGGTAGCAGAAGAGCAGATTGAA
* * * *
18554757 GATTATAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCT
66 GATTGTAGTCTTATCTTCCTGAGGTAGAAAAGAAGCAGACTGAAGATTGAAGATCTTATCTTCCT
18554822 GAG
131 GAG
** *** * * * * ** * * *
18554825 ATAGCAGTAGAGTAGATCAAAG-CA--AGTCTTATCTCCCTAAAGTTGCAGTGGAGTAGACTCAA
1 ATAGCAGGGGAGTAGATTTTAGCCACCAGTCTCATCTCTCTAAGGTAGCAGAAGAGCAGATTGAA
* * * * ** *
18554887 GATTGTAGATCTTATCTCCCT-AAGCAGTAGTGGAGCAGA-TCGAAGATGGTG-A-ATCTTATCT
66 GATTGTAG-TCTTATCTTCCTGAGGTAGAAAAGAAGCAGACT-GAAGAT--TGAAGATCTTATCT
18554948 TCCTGAG
127 TCCTGAG
* * * * *
18554955 GTAGTAGGGGAGTAAATTTTAGCCACCAGCCTCATCTCTCTAAGGTAGCA-AGAGAGCATATTGA
1 ATAGCAGGGGAGTAGATTTTAGCCACCAGTCTCATCTCTCTAAGGTAGCAGA-AGAGCAGATTGA
*
18555019 AGATTGTAGTCTTATCTTCTTGAGGTAGAAAAGAAGCAGACTGAAGATTGAAGATCTTAT-TTCC
65 AGATTGTAGTCTTATCTTCCTGAGGTAGAAAAGAAGCAGACTGAAGATTGAAGATCTTATCTT-C
18555083 CTGAG
129 CTGAG
*
18555088 ATTGCAG
1 ATAGCAG
18555095 TGGAACAGTG
Statistics
Matches: 198, Mismatches: 59, Indels: 26
0.70 0.21 0.09
Matches are distributed among these distances:
129 1 0.01
130 78 0.39
131 16 0.08
132 17 0.09
133 85 0.43
134 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.28
Consensus pattern (133 bp):
ATAGCAGGGGAGTAGATTTTAGCCACCAGTCTCATCTCTCTAAGGTAGCAGAAGAGCAGATTGAA
GATTGTAGTCTTATCTTCCTGAGGTAGAAAAGAAGCAGACTGAAGATTGAAGATCTTATCTTCCT
GAG
Found at i:18556627 original size:22 final size:21
Alignment explanation
Indices: 18556591--18556631 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
18556581 TATCTCTATT
18556591 AGTTTAATTTTATTTCAATTA
1 AGTTTAATTTTATTTCAATTA
*
18556612 AGTTTTATTTTCATTTCAAT
1 AGTTTAATTTT-ATTTCAAT
18556632 ATGTGTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.29, C:0.07, G:0.05, T:0.59
Consensus pattern (21 bp):
AGTTTAATTTTATTTCAATTA
Found at i:18556642 original size:21 final size:21
Alignment explanation
Indices: 18556595--18556643 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
18556585 TCTATTAGTT
*
18556595 TAATTTTATTTCAATTAAGTT
1 TAATTTTATTTCAATTAAGTG
* *
18556616 TTATTTTCATTTCAA-TATGTG
1 TAATTTT-ATTTCAATTAAGTG
18556637 TAATTTT
1 TAATTTT
18556644 TTTTTAAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 16 0.70
22 7 0.30
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.59
Consensus pattern (21 bp):
TAATTTTATTTCAATTAAGTG
Found at i:18556811 original size:28 final size:27
Alignment explanation
Indices: 18556757--18556816 Score: 75
Period size: 28 Copynumber: 2.2 Consensus size: 27
18556747 AATTCTAAAA
* *
18556757 TTATTGTTTTAAAATTCTCTTTTATAT
1 TTATTGTTTTAAAATTCTCTATAATAT
* *
18556784 TCTATTGTTTTAAAATTTTGTATAATAT
1 T-TATTGTTTTAAAATTCTCTATAATAT
18556812 TTATT
1 TTATT
18556817 TTAAATTACC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 5 0.18
28 23 0.82
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.62
Consensus pattern (27 bp):
TTATTGTTTTAAAATTCTCTATAATAT
Found at i:18556864 original size:34 final size:31
Alignment explanation
Indices: 18556804--18556865 Score: 79
Period size: 34 Copynumber: 1.9 Consensus size: 31
18556794 TAAAATTTTG
*
18556804 TATAATATTTATTTTAAATTACCTTTATATA
1 TATAATATTTATTTAAAATTACCTTTATATA
*
18556835 TATATATAGTTTATGTTAAAATTAGCTTTAT
1 TATA-ATA-TTTAT-TTAAAATTACCTTTAT
18556866 TCTATGTACA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
31 4 0.15
32 3 0.12
33 5 0.19
34 14 0.54
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.53
Consensus pattern (31 bp):
TATAATATTTATTTAAAATTACCTTTATATA
Found at i:18560124 original size:11 final size:11
Alignment explanation
Indices: 18560092--18560116 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
18560082 CCAACTACCG
18560092 AATTAAAACCC
1 AATTAAAACCC
18560103 AATTAAAACCC
1 AATTAAAACCC
18560114 AAT
1 AAT
18560117 ACAAACCCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.24, G:0.00, T:0.20
Consensus pattern (11 bp):
AATTAAAACCC
Found at i:18560626 original size:7 final size:7
Alignment explanation
Indices: 18560610--18560642 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
18560600 CCGCGGTGGC
18560610 CGGC-GA
1 CGGCGGA
18560616 CGGCGGA
1 CGGCGGA
18560623 CGGCGGA
1 CGGCGGA
18560630 CGGCGGA
1 CGGCGGA
18560637 CGGCGG
1 CGGCGG
18560643 CTACCGGCGC
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.15
7 22 0.85
ACGTcount: A:0.12, C:0.30, G:0.58, T:0.00
Consensus pattern (7 bp):
CGGCGGA
Found at i:18561467 original size:21 final size:21
Alignment explanation
Indices: 18561438--18561477 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
18561428 ATATTTTACG
*
18561438 TATATTATGTATACATTTTAA
1 TATAGTATGTATACATTTTAA
* *
18561459 TATAGTATGTGTATATTTT
1 TATAGTATGTATACATTTT
18561478 GTTTTGTATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.33, C:0.03, G:0.10, T:0.55
Consensus pattern (21 bp):
TATAGTATGTATACATTTTAA
Found at i:18563202 original size:31 final size:31
Alignment explanation
Indices: 18563166--18563255 Score: 84
Period size: 29 Copynumber: 3.0 Consensus size: 31
18563156 ATTATACATG
18563166 TGAAACTCTAATTGTAGTTCAAATATATATT
1 TGAAACTCTAATTGTAGTTCAAATATATATT
* * * *
18563197 TGAAACTTTAA-T-T--TTCATATAATCACACT
1 TGAAACTCTAATTGTAGTTCAAAT-AT-ATATT
18563226 TGAAACTCTAATTGTAGTT--AATATATATT
1 TGAAACTCTAATTGTAGTTCAAATATATATT
18563255 T
1 T
18563256 TAAAAATAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 14
0.67 0.12 0.21
Matches are distributed among these distances:
27 6 0.13
28 2 0.04
29 18 0.40
30 4 0.09
31 13 0.29
33 2 0.04
ACGTcount: A:0.38, C:0.11, G:0.08, T:0.43
Consensus pattern (31 bp):
TGAAACTCTAATTGTAGTTCAAATATATATT
Found at i:18564054 original size:3 final size:3
Alignment explanation
Indices: 18564046--18564076 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
18564036 TGACTCCTTC
18564046 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
18564077 TATACAATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:18566755 original size:6 final size:6
Alignment explanation
Indices: 18566744--18566770 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
18566734 TAAAAAAAGG
18566744 AAATTT AAATTT AAATTT AAATTT AAA
1 AAATTT AAATTT AAATTT AAATTT AAA
18566771 CAATAACTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (6 bp):
AAATTT
Found at i:18570390 original size:12 final size:12
Alignment explanation
Indices: 18570373--18570397 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
18570363 GTGTTATTGG
18570373 TTTGAATAAAAT
1 TTTGAATAAAAT
18570385 TTTGAATAAAAT
1 TTTGAATAAAAT
18570397 T
1 T
18570398 ATAAGAGAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (12 bp):
TTTGAATAAAAT
Found at i:18571724 original size:5 final size:5
Alignment explanation
Indices: 18571714--18571741 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
18571704 ATATTTATAT
18571714 ATAAA ATAAA ATAAA ATAAA ATAAA ATA
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATA
18571742 TATACTTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
ATAAA
Found at i:18571731 original size:39 final size:40
Alignment explanation
Indices: 18571682--18571760 Score: 101
Period size: 39 Copynumber: 2.0 Consensus size: 40
18571672 ATTAGAGAAC
*
18571682 AAATATAAATATAAATAAACA-A-ATATTTATATATAAAATA
1 AAATATAAATA-AAATAAA-ATATATACTTATATATAAAATA
*
18571722 AAATA-AAATAAAATAAAATATATACTTATATTTAAAATA
1 AAATATAAATAAAATAAAATATATACTTATATATAAAATA
18571761 TCAGATAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
37 1 0.03
38 8 0.23
39 21 0.60
40 5 0.14
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (40 bp):
AAATATAAATAAAATAAAATATATACTTATATATAAAATA
Found at i:18578921 original size:42 final size:44
Alignment explanation
Indices: 18578842--18578944 Score: 106
Period size: 42 Copynumber: 2.4 Consensus size: 44
18578832 ATCGACTTGA
* *
18578842 GATTTACGTGTAAGACCATGTCTGGGACATCGACATCG-TATAT
1 GATTTACGTGTAAAACCATATCTGGGACATCGACATCGATATAT
* * *
18578885 GATTT-CGTGTAAAACCCTATCTGGGACAGT-GGCATCGATATTT
1 GATTTACGTGTAAAACCATATCTGGGACA-TCGACATCGATATAT
* *
18578928 GA-TTACATGTAAGACCA
1 GATTTACGTGTAAAACCA
18578945 CGTCTATGAC
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
42 28 0.57
43 21 0.43
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.30
Consensus pattern (44 bp):
GATTTACGTGTAAAACCATATCTGGGACATCGACATCGATATAT
Found at i:18591404 original size:109 final size:108
Alignment explanation
Indices: 18591175--18591432 Score: 293
Period size: 109 Copynumber: 2.4 Consensus size: 108
18591165 ACGATGGCTG
* * * * *
18591175 AGATCCTGCATATGTCGTGGATTCTCTACAGCTTGTGTGAGAGCACCGTGAAATGGTGATTACTT
1 AGATCCTACATATGTTGTGAATTCTCTACAGCTTGTGTGAGAGCACCATGAAATGGTGAATACTT
* * * * * *
18591240 AGCAGGTACTATGTATTGGTGATACAGACTGTAGCGAGGGCTA
66 AGCAGGTACCATGTACTAGTGATACAAACTATAGCGAGGACTA
* * * * *
18591283 AGATCCTGCATATGTTGTGAATTCTCTACATCTTGTGTGAGCAGCATCATGAGATGGTGAATATT
1 AGATCCTACATATGTTGTGAATTCTCTACAGCTTGTGTGAG-AGCACCATGAAATGGTGAATACT
* * *
18591348 TAGTAGGTACCATGTACTAGTGTTACAAACTATAGCGATGACTA
65 TAGCAGGTACCATGTACTAGTGATACAAACTATAGCGAGGACTA
* * *
18591392 AGATCTTACATATGTTGT-AGATTCTCTGCAGCTCGTGTGAG
1 AGATCCTACATATGTTGTGA-ATTCTCTACAGCTTGTGTGAG
18591433 TAGTATCGTG
Statistics
Matches: 126, Mismatches: 22, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
108 39 0.31
109 87 0.69
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.32
Consensus pattern (108 bp):
AGATCCTACATATGTTGTGAATTCTCTACAGCTTGTGTGAGAGCACCATGAAATGGTGAATACTT
AGCAGGTACCATGTACTAGTGATACAAACTATAGCGAGGACTA
Found at i:18593886 original size:45 final size:45
Alignment explanation
Indices: 18593750--18593879 Score: 190
Period size: 45 Copynumber: 2.9 Consensus size: 45
18593740 CATGACATTT
*
18593750 TAAACTGTAAAAGCATAAGACCATAGTTGAAAGATACTATGGCAC
1 TAAACTGTAAAGGCATAAGACCATAGTTGAAAGATACTATGGCAC
** * *
18593795 TAAA-TAAAAAAGGCATAAGAACATAGTTGAAAGATAATATGGCAC
1 TAAACT-GTAAAGGCATAAGACCATAGTTGAAAGATACTATGGCAC
*
18593840 TAAACTGTAAAGGTATAAGACCATAGTTGAAAGATACTAT
1 TAAACTGTAAAGGCATAAGACCATAGTTGAAAGATACTAT
18593880 CACACTACCT
Statistics
Matches: 73, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
44 1 0.01
45 71 0.97
46 1 0.01
ACGTcount: A:0.48, C:0.12, G:0.18, T:0.23
Consensus pattern (45 bp):
TAAACTGTAAAGGCATAAGACCATAGTTGAAAGATACTATGGCAC
Found at i:18616909 original size:25 final size:25
Alignment explanation
Indices: 18616881--18616955 Score: 63
Period size: 25 Copynumber: 3.2 Consensus size: 25
18616871 AGATAGATTG
18616881 TACTAGAAACACTCAAGTTAGTGTA
1 TACTAGAAACACTCAAGTTAGTGTA
* * *
18616906 TACT----ATACT-ATAGATAGAT-TG
1 TACTAGAAACACTCA-AGTTAG-TGTA
18616927 TACTAGAAACACTCAAGTTAGTGTA
1 TACTAGAAACACTCAAGTTAGTGTA
18616952 TACT
1 TACT
18616956 GATACTGTAG
Statistics
Matches: 36, Mismatches: 6, Indels: 16
0.62 0.10 0.28
Matches are distributed among these distances:
20 1 0.03
21 14 0.39
22 1 0.03
24 1 0.03
25 18 0.50
26 1 0.03
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.32
Consensus pattern (25 bp):
TACTAGAAACACTCAAGTTAGTGTA
Found at i:18616925 original size:46 final size:47
Alignment explanation
Indices: 18616864--18616961 Score: 189
Period size: 46 Copynumber: 2.1 Consensus size: 47
18616854 TATACCGAGA
18616864 ATACTATAGATAGATTGTACTAGAAACACTCAAGTTAGTGTATACT-
1 ATACTATAGATAGATTGTACTAGAAACACTCAAGTTAGTGTATACTG
18616910 ATACTATAGATAGATTGTACTAGAAACACTCAAGTTAGTGTATACTG
1 ATACTATAGATAGATTGTACTAGAAACACTCAAGTTAGTGTATACTG
18616957 ATACT
1 ATACT
18616962 GTAGTAAAAC
Statistics
Matches: 51, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
46 46 0.90
47 5 0.10
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.33
Consensus pattern (47 bp):
ATACTATAGATAGATTGTACTAGAAACACTCAAGTTAGTGTATACTG
Found at i:18624625 original size:21 final size:22
Alignment explanation
Indices: 18624601--18624650 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
18624591 ATCAAAAGAT
* * *
18624601 CGTGTGAGGAGGGGCACTC-GC
1 CGTGTGAAGAGAGGCACACGGC
*
18624622 CGTGTAAAGAGAGGCACACGGC
1 CGTGTGAAGAGAGGCACACGGC
18624644 CGTGTGA
1 CGTGTGA
18624651 CTAAAGCACA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
21 15 0.65
22 8 0.35
ACGTcount: A:0.22, C:0.22, G:0.42, T:0.14
Consensus pattern (22 bp):
CGTGTGAAGAGAGGCACACGGC
Found at i:18627720 original size:92 final size:90
Alignment explanation
Indices: 18627541--18627722 Score: 240
Period size: 92 Copynumber: 2.0 Consensus size: 90
18627531 TAGACTGCGA
* * *
18627541 TACACGCCAAATAGATAATAGTACGTAGCGTAGTTGACGTACGTACAGTACAGTGCAATGCGATA
1 TACACGCCAAATAGATAATAGTACGTAGCATAGTTAACGTACGTACAGTACAATGCAATGCGATA
* *
18627606 ATCAGCTGTACAATCATGTTGCAGT
66 AACAGCTATACAATCATGTTGCAGT
* * *
18627631 TACACTGCCAAATCAGATAATAGTACGTAGCATAGTTAACGTATGTACGGTACAATGCAATGCGG
1 TACAC-GCCAAAT-AGATAATAGTACGTAGCATAGTTAACGTACGTACAGTACAATGCAATGCGA
* *
18627696 TAAACCGCTATACCAATTAT-TTGCAGT
64 TAAACAGCTATA-CAATCATGTTGCAGT
18627723 CAAATTGCTA
Statistics
Matches: 79, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
90 5 0.06
91 7 0.09
92 61 0.77
93 6 0.08
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.26
Consensus pattern (90 bp):
TACACGCCAAATAGATAATAGTACGTAGCATAGTTAACGTACGTACAGTACAATGCAATGCGATA
AACAGCTATACAATCATGTTGCAGT
Found at i:18627738 original size:92 final size:92
Alignment explanation
Indices: 18627546--18627742 Score: 236
Period size: 92 Copynumber: 2.2 Consensus size: 92
18627536 TGCGATACAC
* * * *
18627546 GCCAAAT-AGATAATAGTACGTAGCGTAGTTGACGTACGTACAGTACAGTGCAATGCGATAATCA
1 GCCAAATCAGATAATAGTACGTAGCATAGTTAACGTACGTACAGTACAATGCAATGCGATAAACA
* * *
18627610 GCTGTACAATCATGTTGCAGTTACACT
66 GCTATACAATCATGTTGCAGTCAAACT
* * * *
18627637 GCCAAATCAGATAATAGTACGTAGCATAGTTAACGTATGTACGGTACAATGCAATGCGGTAAACC
1 GCCAAATCAGATAATAGTACGTAGCATAGTTAACGTACGTACAGTACAATGCAATGCGATAAACA
* *
18627702 GCTATACCAATTAT-TTGCAGTCAAATT
66 GCTATA-CAATCATGTTGCAGTCAAACT
* *
18627729 GCTAGATCAGATAA
1 GCCAAATCAGATAA
18627743 AGGTACATGG
Statistics
Matches: 89, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
91 7 0.08
92 76 0.85
93 6 0.07
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.26
Consensus pattern (92 bp):
GCCAAATCAGATAATAGTACGTAGCATAGTTAACGTACGTACAGTACAATGCAATGCGATAAACA
GCTATACAATCATGTTGCAGTCAAACT
Found at i:18636303 original size:23 final size:23
Alignment explanation
Indices: 18636229--18636303 Score: 59
Period size: 23 Copynumber: 3.2 Consensus size: 23
18636219 TCTTCTTTTT
*
18636229 CCTTCC-CTTTCTTTCCTTTCT-
1 CCTTCCTCTTTTTTTCCTTTCTC
*
18636250 CCTCCCTCCTTTCTTTT-CTTTC-C
1 CCTTCCT-CTTT-TTTTCCTTTCTC
18636273 CTTTCTTCCTCTTTTTTTCCTTTCTC
1 C---CTTCCTCTTTTTTTCCTTTCTC
18636299 CCTTC
1 CCTTC
18636304 TCCTCTACTC
Statistics
Matches: 42, Mismatches: 3, Indels: 16
0.69 0.05 0.26
Matches are distributed among these distances:
21 5 0.12
23 14 0.33
24 7 0.17
25 9 0.21
26 7 0.17
ACGTcount: A:0.00, C:0.43, G:0.00, T:0.57
Consensus pattern (23 bp):
CCTTCCTCTTTTTTTCCTTTCTC
Found at i:18638033 original size:9 final size:9
Alignment explanation
Indices: 18638019--18638054 Score: 56
Period size: 9 Copynumber: 4.0 Consensus size: 9
18638009 CTCTGAGTCC
18638019 ATTTATTTT
1 ATTTATTTT
18638028 ATTTATTTT
1 ATTTATTTT
18638037 AATTT-TTTT
1 -ATTTATTTT
18638046 ATTTATTTT
1 ATTTATTTT
18638055 TTTCTTAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
8 4 0.16
9 17 0.68
10 4 0.16
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (9 bp):
ATTTATTTT
Found at i:18638047 original size:18 final size:19
Alignment explanation
Indices: 18638019--18638054 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
18638009 CTCTGAGTCC
18638019 ATTTATTTTATTTATTTTA
1 ATTTATTTTATTTATTTTA
18638038 ATTT-TTTTATTTATTTT
1 ATTTATTTTATTTATTTT
18638055 TTTCTTAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (19 bp):
ATTTATTTTATTTATTTTA
Found at i:18639925 original size:30 final size:30
Alignment explanation
Indices: 18639889--18639945 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
18639879 AGGCACTTCT
18639889 ACACGGGTAATCCACACGCCCGTGTGTGAC
1 ACACGGGTAATCCACACGCCCGTGTGTGAC
* *
18639919 ACACGGGTAGTCGACACGCCCGTGTGT
1 ACACGGGTAATCCACACGCCCGTGTGT
18639946 CATGGTCGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.21, C:0.32, G:0.30, T:0.18
Consensus pattern (30 bp):
ACACGGGTAATCCACACGCCCGTGTGTGAC
Found at i:18644537 original size:48 final size:47
Alignment explanation
Indices: 18644466--18644789 Score: 286
Period size: 48 Copynumber: 6.9 Consensus size: 47
18644456 AGCGTGAATT
* * **
18644466 GCCGATGCCATGTCCTAAACATGGTCTTACACTGGCTCACATGTTGAG
1 GCCGATGCCATGTCC-CAACATGGTCTTACACTGGCTCACATATCAAG
* * * *
18644514 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCCCATCTCAAT
1 GCCGATGCCATGTCCCA-ACATGGTCTTACACTGGCTCACATATCAAG
* * *
18644562 GCCGAGGCCATGT-CCAACATGGTCTTACACTGGCTCTCATAT-AGTG
1 GCCGATGCCATGTCCCAACATGGTCTTACACTGGCTCACATATCA-AG
* * * *
18644608 GCCAACGCCATGTCCCAGACATGGTCTTACATTGGCTCACA-ATCAAT
1 GCCGATGCCATGTCCCA-ACATGGTCTTACACTGGCTCACATATCAAG
* * *
18644655 GCCGATGCTATGT-CCAACATGGTCTTACATTGGCT-ATCATAATCAAC
1 GCCGATGCCATGTCCCAACATGGTCTTACACTGGCTCA-CAT-ATCAAG
* * **
18644702 GCCGATACCATGT-CCAACATGGTCTTACACTGGCAT-ACGAAAT-GTG
1 GCCGATGCCATGTCCCAACATGGTCTTACACTGGC-TCAC-ATATCAAG
* * *
18644748 GCCGATGCCATGTCCCTGACATGGTCTTACTCTAGCTCACAT
1 GCCGATGCCATGTCCC-AACATGGTCTTACACTGGCTCACAT
18644790 GTCACCCCAA
Statistics
Matches: 228, Mismatches: 35, Indels: 27
0.79 0.12 0.09
Matches are distributed among these distances:
44 1 0.00
45 22 0.10
46 49 0.21
47 62 0.27
48 94 0.41
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (47 bp):
GCCGATGCCATGTCCCAACATGGTCTTACACTGGCTCACATATCAAG
Found at i:18644628 original size:94 final size:93
Alignment explanation
Indices: 18644465--18644695 Score: 309
Period size: 94 Copynumber: 2.5 Consensus size: 93
18644455 GAGCGTGAAT
* * * * *
18644465 TGCCGATGCCATGTCCTAAACATGGTCTTACACTGGCTCACATGTTGAGGCCGATGCCATGTCCC
1 TGCCGATGCCATGTCC--AACATGGTCTTACACTGGCTCTCATATAGAGGCCAACGCCATGTCCC
* *
18644530 AGACATGGTCTTACACTAGCTCCCATCTCAA
64 AGACATGGTCTTACACTAGCTCACA-ATCAA
* *
18644561 TGCCGAGGCCATGTCCAACATGGTCTTACACTGGCTCTCATATAGTGGCCAACGCCATGTCCCAG
1 TGCCGATGCCATGTCCAACATGGTCTTACACTGGCTCTCATATAGAGGCCAACGCCATGTCCCAG
* *
18644626 ACATGGTCTTACATTGGCTCACAATCAA
66 ACATGGTCTTACACTAGCTCACAATCAA
* * *
18644654 TGCCGATGCTATGTCCAACATGGTCTTACATTGGCTATCATA
1 TGCCGATGCCATGTCCAACATGGTCTTACACTGGCTCTCATA
18644696 ATCAACGCCG
Statistics
Matches: 120, Mismatches: 15, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
93 42 0.35
94 63 0.52
96 15 0.12
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (93 bp):
TGCCGATGCCATGTCCAACATGGTCTTACACTGGCTCTCATATAGAGGCCAACGCCATGTCCCAG
ACATGGTCTTACACTAGCTCACAATCAA
Found at i:18644734 original size:140 final size:142
Alignment explanation
Indices: 18644472--18644789 Score: 367
Period size: 140 Copynumber: 2.3 Consensus size: 142
18644462 AATTGCCGAT
* * * **
18644472 GCCATGTCCTAAACATGGTCTTACACTGGCTCACATGTTGAGGCCGATGCCATGTCCCAGACATG
1 GCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAAGGCCGATGCCATGTCCCAGACATG
* * * *
18644537 GTCTTACACTAGCTCCCATCTCAATGCCGAGGCCATGTCCAACATGGTCTTACACTGGC-T-CTC
66 GTCTTACACTAGCTACCATATCAACGCCGAGACCATGTCCAACATGGTCTTACACTGGCATAC-C
*
18644600 ATATAGTGGCCAAC
130 AAAT-GTGGCCAAC
* * *
18644614 GCCATGTCCCAGACATGGTCTTACATTGGCTCACA-ATCAATGCCGATGCTATGT-CCA-ACATG
1 GCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAAGGCCGATGCCATGTCCCAGACATG
* * * * *
18644676 GTCTTACATTGGCTATCATAATCAACGCCGATACCATGTCCAACATGGTCTTACACTGGCATACG
66 GTCTTACACTAGCTACCAT-ATCAACGCCGAGACCATGTCCAACATGGTCTTACACTGGCATACC
* *
18644741 AAATGTGGCCGAT
130 AAATGTGGCCAAC
* * *
18644754 GCCATGTCCCTGACATGGTCTTACTCTAGCTCACAT
1 GCCATGTCCCAGACATGGTCTTACACTGGCTCACAT
18644790 GTCACCCCAA
Statistics
Matches: 148, Mismatches: 24, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
139 20 0.14
140 77 0.52
141 18 0.12
142 33 0.22
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (142 bp):
GCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAAGGCCGATGCCATGTCCCAGACATG
GTCTTACACTAGCTACCATATCAACGCCGAGACCATGTCCAACATGGTCTTACACTGGCATACCA
AATGTGGCCAAC
Found at i:18652733 original size:14 final size:14
Alignment explanation
Indices: 18652714--18652740 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
18652704 TATTAAAGCA
18652714 ATAATTAAGAACAC
1 ATAATTAAGAACAC
18652728 ATAATTAAGAACA
1 ATAATTAAGAACA
18652741 AGTCAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.11, G:0.07, T:0.22
Consensus pattern (14 bp):
ATAATTAAGAACAC
Found at i:18653066 original size:13 final size:13
Alignment explanation
Indices: 18653048--18653073 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18653038 ATGCCTAAAA
18653048 GCCTTCAAGAGTG
1 GCCTTCAAGAGTG
18653061 GCCTTCAAGAGTG
1 GCCTTCAAGAGTG
18653074 TCCTCTAATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.23, G:0.31, T:0.23
Consensus pattern (13 bp):
GCCTTCAAGAGTG
Found at i:18668151 original size:20 final size:21
Alignment explanation
Indices: 18668107--18668152 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
18668097 CTCTTTATTT
18668107 AACCCAATTTTTAACACTATAA
1 AACCCAATTTTTAACAC-ATAA
18668129 AACCCAATTTTATAAC-C-TAA
1 AACCCAATTTT-TAACACATAA
18668149 AACC
1 AACC
18668153 ATATCTACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 7 0.30
22 12 0.52
23 4 0.17
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.28
Consensus pattern (21 bp):
AACCCAATTTTTAACACATAA
Found at i:18668902 original size:17 final size:17
Alignment explanation
Indices: 18668880--18668914 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
18668870 AATAATATAA
18668880 TAGGCACAATTAAATAT
1 TAGGCACAATTAAATAT
*
18668897 TAGGCACAATTGAATAT
1 TAGGCACAATTAAATAT
18668914 T
1 T
18668915 TAAAATCCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.31
Consensus pattern (17 bp):
TAGGCACAATTAAATAT
Found at i:18669128 original size:19 final size:19
Alignment explanation
Indices: 18669104--18669143 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
18669094 TCATGTGTCT
18669104 CAAT-CCATATTTCAATTCA
1 CAATCCCAT-TTTCAATTCA
*
18669123 CAATCCCATTTTCATTTCA
1 CAATCCCATTTTCAATTCA
18669142 CA
1 CA
18669144 TATAATATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.33, C:0.30, G:0.00, T:0.38
Consensus pattern (19 bp):
CAATCCCATTTTCAATTCA
Found at i:18669319 original size:40 final size:40
Alignment explanation
Indices: 18669275--18669384 Score: 138
Period size: 37 Copynumber: 2.8 Consensus size: 40
18669265 TCAGTTAATT
*
18669275 CGAAGTAATAATTTGACACCCAGTGTCTCATCG-GCTAACC
1 CGAAGTAATAA-TTGACACCCAGTGTCTCATCGAACTAACC
* * *
18669315 CGAAGT-A-AATTGGCACCCAGTG-CTCATCGAATTAATC
1 CGAAGTAATAATTGACACCCAGTGTCTCATCGAACTAACC
*
18669352 CAAAGTAATAATTGACACCCAGTGTCTCATCGA
1 CGAAGTAATAATTGACACCCAGTGTCTCATCGA
18669385 CTCAAAGTCA
Statistics
Matches: 60, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
36 7 0.12
37 21 0.35
38 3 0.05
39 15 0.25
40 14 0.23
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (40 bp):
CGAAGTAATAATTGACACCCAGTGTCTCATCGAACTAACC
Found at i:18669657 original size:16 final size:16
Alignment explanation
Indices: 18669635--18669703 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
18669625 TTTGGTTCGC
18669635 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
18669651 CGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
18669667 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
18669684 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
18669700 TGTA
1 TGTA
18669704 ATAGCTAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.25, C:0.01, G:0.38, T:0.36
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:18669681 original size:33 final size:32
Alignment explanation
Indices: 18669635--18669703 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
18669625 TTTGGTTCGC
18669635 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
*
18669667 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGCGTATTGGATTAGAGG
18669700 TGTA
1 TGTA
18669704 ATAGCTAATC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 6 0.17
33 29 0.83
ACGTcount: A:0.25, C:0.01, G:0.38, T:0.36
Consensus pattern (32 bp):
TGTATTGGATTAGAGGCGTATTGGATTAGAGG
Found at i:18669849 original size:1 final size:1
Alignment explanation
Indices: 18669843--18669880 Score: 58
Period size: 1 Copynumber: 38.0 Consensus size: 1
18669833 TATATAAATA
* *
18669843 TTTTTTTATTTTATTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
18669881 ATTATATATT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
1 33 1.00
ACGTcount: A:0.05, C:0.00, G:0.00, T:0.95
Consensus pattern (1 bp):
T
Found at i:18669859 original size:13 final size:13
Alignment explanation
Indices: 18669841--18669883 Score: 68
Period size: 13 Copynumber: 3.3 Consensus size: 13
18669831 ATTATATAAA
*
18669841 TATTTTTTTATTT
1 TATTTTTTTTTTT
18669854 TATTTTTTTTTTT
1 TATTTTTTTTTTT
*
18669867 TTTTTTTTTTTTT
1 TATTTTTTTTTTT
18669880 TATT
1 TATT
18669884 ATATATTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.09, C:0.00, G:0.00, T:0.91
Consensus pattern (13 bp):
TATTTTTTTTTTT
Found at i:18670118 original size:44 final size:45
Alignment explanation
Indices: 18670069--18670159 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
18670059 ACCTCTATTC
* * *
18670069 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
18670113 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
18670158 CA
1 CA
18670160 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:18670161 original size:16 final size:16
Alignment explanation
Indices: 18670140--18670208 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
18670130 GATTAGCTAT
18670140 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
18670156 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
18670173 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
18670189 TACGCCTCTAATCCAA
1 TACACCTCTAATCCAA
18670205 TACA
1 TACA
18670209 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:18670182 original size:33 final size:32
Alignment explanation
Indices: 18670140--18670208 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
18670130 GATTAGCTAT
18670140 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
*
18670173 TACACCTCTAATCCAATACGCCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
18670205 TACA
1 TACA
18670209 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 8 0.23
33 27 0.77
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:18670507 original size:41 final size:40
Alignment explanation
Indices: 18670460--18670578 Score: 145
Period size: 41 Copynumber: 3.0 Consensus size: 40
18670450 TTTGACTTTG
*
18670460 AGTCGATGAGACACTGGGTGTCAAATTATTACTTTGGATT
1 AGTCGATGAGACACTGGGTGTCAAATTATTACTTCGGATT
* * * *
18670500 AATTCGATGAGGCACTGGGTG-CCAA-T-TTACTTCGGGTT
1 -AGTCGATGAGACACTGGGTGTCAAATTATTACTTCGGATT
* *
18670538 AGCCGATGAGACACTGGGTGTCAAATTATTACTTCGAATT
1 AGTCGATGAGACACTGGGTGTCAAATTATTACTTCGGATT
18670578 A
1 A
18670579 ACTGATAAGG
Statistics
Matches: 64, Mismatches: 11, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
37 17 0.27
38 13 0.20
39 2 0.03
40 14 0.22
41 18 0.28
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (40 bp):
AGTCGATGAGACACTGGGTGTCAAATTATTACTTCGGATT
Found at i:18670553 original size:37 final size:41
Alignment explanation
Indices: 18670463--18670579 Score: 143
Period size: 37 Copynumber: 3.0 Consensus size: 41
18670453 GACTTTGAGT
* **
18670463 CGATGAGACACTGGGTGTCAAATTATTACTTTGGATTAATT
1 CGATGAGACACTGGGTGTCAAATTATTACTTCGGATTAAGC
* * *
18670504 CGATGAGGCACTGGGTG-CCAA-T-TTACTTCGGGTT-AGC
1 CGATGAGACACTGGGTGTCAAATTATTACTTCGGATTAAGC
*
18670541 CGATGAGACACTGGGTGTCAAATTATTACTTCGAATTAA
1 CGATGAGACACTGGGTGTCAAATTATTACTTCGGATTAA
18670580 CTGATAAGGC
Statistics
Matches: 62, Mismatches: 10, Indels: 8
0.77 0.12 0.10
Matches are distributed among these distances:
37 17 0.27
38 13 0.21
39 2 0.03
40 13 0.21
41 17 0.27
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (41 bp):
CGATGAGACACTGGGTGTCAAATTATTACTTCGGATTAAGC
Found at i:18670730 original size:19 final size:19
Alignment explanation
Indices: 18670706--18670745 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
18670696 TGATATTATA
18670706 TGTGAAATGAAA-ATGGGAT
1 TGTGAAATGAAATAT-GGAT
*
18670725 TGTGAATTGAAATATGGAT
1 TGTGAAATGAAATATGGAT
18670744 TG
1 TG
18670746 AGACACATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 17 0.89
20 2 0.11
ACGTcount: A:0.38, C:0.00, G:0.30, T:0.33
Consensus pattern (19 bp):
TGTGAAATGAAATATGGAT
Found at i:18670984 original size:19 final size:17
Alignment explanation
Indices: 18670936--18670970 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
18670926 GTGGATTTTA
*
18670936 AATATTCAATTGTGCCT
1 AATATTTAATTGTGCCT
18670953 AATATTTAATTGTGCCT
1 AATATTTAATTGTGCCT
18670970 A
1 A
18670971 TTATATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.31, C:0.14, G:0.11, T:0.43
Consensus pattern (17 bp):
AATATTTAATTGTGCCT
Found at i:18671724 original size:20 final size:21
Alignment explanation
Indices: 18671699--18671744 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
18671689 AAGTAGATAT
18671699 GGTTT-TAG-GTTATAAAATTG
1 GGTTTATAGTGTTA-AAAATTG
18671719 GGTTTTATAGTGTTAAAAATTG
1 GG-TTTATAGTGTTAAAAATTG
18671741 GGTT
1 GGTT
18671745 AAATAAAGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
20 2 0.09
21 5 0.22
22 12 0.52
23 4 0.17
ACGTcount: A:0.28, C:0.00, G:0.26, T:0.46
Consensus pattern (21 bp):
GGTTTATAGTGTTAAAAATTG
Found at i:18686764 original size:13 final size:13
Alignment explanation
Indices: 18686746--18686771 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18686736 GATTAGAGGA
18686746 CACTCTTGAAGGC
1 CACTCTTGAAGGC
18686759 CACTCTTGAAGGC
1 CACTCTTGAAGGC
18686772 TTTTAGGCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.31, G:0.23, T:0.23
Consensus pattern (13 bp):
CACTCTTGAAGGC
Found at i:18687099 original size:14 final size:14
Alignment explanation
Indices: 18687080--18687106 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
18687070 ATATTTGACT
18687080 TGTTCTTAATTATG
1 TGTTCTTAATTATG
18687094 TGTTCTTAATTAT
1 TGTTCTTAATTAT
18687107 TGCTTTAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.07, G:0.11, T:0.59
Consensus pattern (14 bp):
TGTTCTTAATTATG
Found at i:18695341 original size:21 final size:22
Alignment explanation
Indices: 18695317--18695357 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
18695307 TAAGAATGAT
*
18695317 ATGAGTAA-TTATGTTATGAAA
1 ATGAGTAAGCTATGTTATGAAA
18695338 ATGAGTAAGCTATGTTATGA
1 ATGAGTAAGCTATGTTATGA
18695358 TCATGTTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.39, C:0.02, G:0.22, T:0.37
Consensus pattern (22 bp):
ATGAGTAAGCTATGTTATGAAA
Found at i:18718063 original size:88 final size:87
Alignment explanation
Indices: 18717915--18718088 Score: 339
Period size: 88 Copynumber: 2.0 Consensus size: 87
18717905 CTGAGTTTGG
18717915 GATCCTAGGCTAATGTCGAATTCTTTATTTTTTTAGTGCCGATTGGCTTTTCCATCTTTACTAGC
1 GATCCTAGGCTAATGTCGAATTCTTTATTTTTTTAGTGCCGATTGGCTTTTCCATCTTTACTAGC
18717980 TGATTCTTTTTCCATTCTTTCA
66 TGATTCTTTTTCCATTCTTTCA
18718002 GATCCTAGGCTAATGTCGAATTCTTTATTTTTTTTAGTGCCGATTGGCTTTTCCATCTTTACTAG
1 GATCCTAGGCTAATGTCGAATTCTTTA-TTTTTTTAGTGCCGATTGGCTTTTCCATCTTTACTAG
18718067 CTGATTCTTTTTCCATTCTTTC
65 CTGATTCTTTTTCCATTCTTTC
18718089 TCTCCTTAGA
Statistics
Matches: 86, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
87 27 0.31
88 59 0.69
ACGTcount: A:0.17, C:0.21, G:0.14, T:0.49
Consensus pattern (87 bp):
GATCCTAGGCTAATGTCGAATTCTTTATTTTTTTAGTGCCGATTGGCTTTTCCATCTTTACTAGC
TGATTCTTTTTCCATTCTTTCA
Found at i:18720468 original size:29 final size:29
Alignment explanation
Indices: 18720381--18720499 Score: 152
Period size: 29 Copynumber: 4.2 Consensus size: 29
18720371 GTAAGCATGA
18720381 ATAT-AATGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
* *
18720409 ACATAAATGTGATTTGGGCCTAAAGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
18720438 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
* * * * * *
18720467 ATGTGAATAT-AATTGGGTCTAGTGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
18720495 ATATA
1 ATATA
18720500 CAGGTATGTG
Statistics
Matches: 78, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 21 0.27
29 57 0.73
ACGTcount: A:0.29, C:0.13, G:0.28, T:0.30
Consensus pattern (29 bp):
ATATAAATGTGATTTGGGCCTAATGGGCC
Found at i:18726231 original size:34 final size:34
Alignment explanation
Indices: 18726193--18726257 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
18726183 GTACTAAAAA
*
18726193 GGGCTAAGGCCTAGACTATCACTGTTACTGAGAC
1 GGGCTAAGGCCCAGACTATCACTGTTACTGAGAC
* *
18726227 GGGCTAAGGCCCAGACTGTTACTGTTACTGA
1 GGGCTAAGGCCCAGACTATCACTGTTACTGA
18726258 AAAAGGAGCC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (34 bp):
GGGCTAAGGCCCAGACTATCACTGTTACTGAGAC
Found at i:18733841 original size:49 final size:49
Alignment explanation
Indices: 18733765--18733996 Score: 266
Period size: 49 Copynumber: 4.7 Consensus size: 49
18733755 TAGACAAGGC
* * *
18733765 TATCTGGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* * *
18733814 TATCTGGTATACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC-AAT
* * * * *
18733864 CATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-T
* * * * *
18733915 TATCGGGTACGCATAGTAGCCTGCAATTAGTACTACACATGCAACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* * *
18733964 TATCTGATACACTTAGTACCCTGCACTTAGTAC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTAC
18733997 CCTGCACTTA
Statistics
Matches: 152, Mismatches: 28, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
49 69 0.45
50 47 0.31
51 36 0.24
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
Found at i:18733951 original size:101 final size:98
Alignment explanation
Indices: 18733778--18733996 Score: 276
Period size: 101 Copynumber: 2.2 Consensus size: 98
18733768 CTGGTACGCA
* * * * *
18733778 TAGTAGCCTACACTTAGTACTACACATGCGACCAATTATCTGGTATACATAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCGGGTACACATAGTAGCCTGCAATTA
**
18733843 GTACTACACACGTGACCTAACCATCTGATACACG
66 GTACTACACACGCAACC-AACCATCTGATACACG
* * *
18733877 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCCTGCAAT
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCGGGTACACATAGTAGCCTGCAAT
* ** *
18733942 TAGTACTACACATGCAACCAATTATCTGATACACT
64 TAGTACTACACACGCAACCAACCATCTGATACACG
*
18733977 TAGTACCCTGCACTTAGTAC
1 TAGTAGCCTGCACTTAGTAC
18733997 CCTGCACTTA
Statistics
Matches: 103, Mismatches: 15, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
99 28 0.27
100 35 0.34
101 40 0.39
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (98 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCGGGTACACATAGTAGCCTGCAATTA
GTACTACACACGCAACCAACCATCTGATACACG
Found at i:18733992 original size:14 final size:14
Alignment explanation
Indices: 18733973--18734010 Score: 76
Period size: 14 Copynumber: 2.7 Consensus size: 14
18733963 TTATCTGATA
18733973 CACTTAGTACCCTG
1 CACTTAGTACCCTG
18733987 CACTTAGTACCCTG
1 CACTTAGTACCCTG
18734001 CACTTAGTAC
1 CACTTAGTAC
18734011 TACACACATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.24, C:0.34, G:0.13, T:0.29
Consensus pattern (14 bp):
CACTTAGTACCCTG
Found at i:18736591 original size:5 final size:5
Alignment explanation
Indices: 18736581--18736660 Score: 151
Period size: 5 Copynumber: 16.0 Consensus size: 5
18736571 TTTATTTAGT
18736581 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
*
18736631 TAATA TAATA TAATA TAATA TAGTA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA
18736661 CTTAACTTTT
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 73 1.00
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (5 bp):
TAATA
Found at i:18740964 original size:32 final size:31
Alignment explanation
Indices: 18740928--18740988 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 31
18740918 ATTTGTAATC
18740928 AGTAAATAATTAATGTATTTACTTATTATTTA
1 AGTAAATAATTAATGTATTTA-TTATTATTTA
18740960 AGTAAATAATTAATGTATTTATTATTATT
1 AGTAAATAATTAATGTATTTATTATTATT
18740989 AAATTGATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 8 0.28
32 21 0.72
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.51
Consensus pattern (31 bp):
AGTAAATAATTAATGTATTTATTATTATTTA
Found at i:18743532 original size:46 final size:46
Alignment explanation
Indices: 18743481--18743651 Score: 238
Period size: 46 Copynumber: 3.7 Consensus size: 46
18743471 GTGTGCTCCC
* *
18743481 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATAGCAATC-
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAA-CA
* *
18743527 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
**
18743573 TGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* *
18743619 TGACA-GAAAATGAGTAAGACCATAGTTGAAAGA
1 TGATATG-AAATGAGTAAGACCATGGTTGAAAGA
18743652 CACTGTGGCC
Statistics
Matches: 114, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
45 2 0.02
46 112 0.98
ACGTcount: A:0.42, C:0.13, G:0.23, T:0.22
Consensus pattern (46 bp):
TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
Found at i:18745789 original size:38 final size:38
Alignment explanation
Indices: 18745747--18745823 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
18745737 TGTAAAATGG
18745747 ATTGGAAATGAAATATATGCTGATAAATAAAGAATTTT
1 ATTGGAAATGAAATATATGCTGATAAATAAAGAATTTT
18745785 ATTGGAAATGAAATATATGCTGATAAATAAAGAATTTT
1 ATTGGAAATGAAATATATGCTGATAAATAAAGAATTTT
18745823 A
1 A
18745824 CATTTTAGAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.48, C:0.03, G:0.16, T:0.34
Consensus pattern (38 bp):
ATTGGAAATGAAATATATGCTGATAAATAAAGAATTTT
Found at i:18746259 original size:33 final size:33
Alignment explanation
Indices: 18746222--18746317 Score: 174
Period size: 33 Copynumber: 2.9 Consensus size: 33
18746212 TGGTTTGCTA
18746222 GTTGGATTAGCTCTTATGAGCATTGGTGTGATG
1 GTTGGATTAGCTCTTATGAGCATTGGTGTGATG
*
18746255 GTTGGATTAGCTCTTATGAGCATCGGTGTGATG
1 GTTGGATTAGCTCTTATGAGCATTGGTGTGATG
*
18746288 GTTGAATTAGCTCTTATGAGCATTGGTGTG
1 GTTGGATTAGCTCTTATGAGCATTGGTGTG
18746318 GTGGAGGGAT
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 60 1.00
ACGTcount: A:0.19, C:0.10, G:0.32, T:0.39
Consensus pattern (33 bp):
GTTGGATTAGCTCTTATGAGCATTGGTGTGATG
Found at i:18749451 original size:44 final size:44
Alignment explanation
Indices: 18749387--18749630 Score: 214
Period size: 44 Copynumber: 5.6 Consensus size: 44
18749377 TGAGTTCTTG
* * *
18749387 ATCTGCT-TCTTCGATCTGTTCCCCATAAACACAGGGATGCCAA
1 ATCTGCTATCTTCAATCTGTTCCCTATAAGCACAGGGATGCCAA
* * *
18749430 ATCTGCTGTCTTCAA-CTTGTTCCTTATAAACACAGGGATGCCAA
1 ATCTGCTATCTTCAATC-TGTTCCCTATAAGCACAGGGATGCCAA
* *
18749474 ATCTGCTATCTTCAA-CTTGTTCCCTATAAGCATAGGGATTCC--
1 ATCTGCTATCTTCAATC-TGTTCCCTATAAGCACAGGGATGCCAA
** * * * * *
18749516 ATGCTGAAATCTTCGATCTGCTTCACC-GTAAGCACAGGAATGTCAG
1 AT-CTGCTATCTTCAATCTG-TTC-CCTATAAGCACAGGGATGCCAA
* *
18749562 TTCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAA
1 ATCTGCTATCTTCAATCTGTTCCCTATAAGCACAGGGATGCCAA
* *
18749606 ATCTGCTGTTTTCAA-CTTGTTCCCT
1 ATCTGCTATCTTCAATC-TGTTCCCT
18749631 GACAATACGG
Statistics
Matches: 164, Mismatches: 27, Indels: 19
0.78 0.13 0.09
Matches are distributed among these distances:
42 2 0.01
43 23 0.14
44 121 0.74
45 17 0.10
46 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.32
Consensus pattern (44 bp):
ATCTGCTATCTTCAATCTGTTCCCTATAAGCACAGGGATGCCAA
Found at i:18750136 original size:205 final size:205
Alignment explanation
Indices: 18749770--18750285 Score: 802
Period size: 205 Copynumber: 2.5 Consensus size: 205
18749760 GGGAACATCC
* * * * * *
18749770 GAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGC
1 GAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTTGG
* ** *
18749835 ATCTTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCATTGAAGTGGA
66 ATC-TGCTTCAGTATAAACATCTGAAGGTGAGATCTGCTATGTATCTGCTCTCCATCAAAGTGAA
* * *
18749900 GATGCCAGACTTTGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCAT
130 GATGCCAAACTTCGATTCGTTCCCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCAT
*
18749965 CGTAATCACGT
195 CATAATCACGT
18749976 GAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTTGG
1 GAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTTGG
* * *
18750041 ATCTACTTCAGTGA-AATCATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAA
66 ATCTGCTTCAGT-ATAAACATCTGAAGGTGAGATCTGCTATGTATCTGCTCTCCATCAAAGTGAA
*
18750105 GATGCCAAACTTCGATTTGTTCCCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCAT
130 GATGCCAAACTTCGATTCGTTCCCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCAT
18750170 CATAATCACGT
195 CATAATCACGT
18750181 GAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTTGG
1 GAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTTGG
* ** *
18750246 ATCTGCTTCAGTAT-AACATCTGTAGGCCAGATCTGTTATG
66 ATCTGCTTCAGTATAAACATCTGAAGGTGAGATCTGCTATG
18750286 CTGCGGCCTA
Statistics
Matches: 284, Mismatches: 24, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
204 22 0.08
205 199 0.70
206 63 0.22
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (205 bp):
GAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTTGG
ATCTGCTTCAGTATAAACATCTGAAGGTGAGATCTGCTATGTATCTGCTCTCCATCAAAGTGAAG
ATGCCAAACTTCGATTCGTTCCCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATC
ATAATCACGT
Found at i:18760319 original size:48 final size:48
Alignment explanation
Indices: 18760248--18760342 Score: 190
Period size: 48 Copynumber: 2.0 Consensus size: 48
18760238 GTCCGAGTCA
18760248 ACTTCAATTCCTTTTTCACTGACTACGAAGCCTAACAACTTTCCGGAG
1 ACTTCAATTCCTTTTTCACTGACTACGAAGCCTAACAACTTTCCGGAG
18760296 ACTTCAATTCCTTTTTCACTGACTACGAAGCCTAACAACTTTCCGGA
1 ACTTCAATTCCTTTTTCACTGACTACGAAGCCTAACAACTTTCCGGA
18760343 TCTGGCTCCA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.27, C:0.29, G:0.12, T:0.32
Consensus pattern (48 bp):
ACTTCAATTCCTTTTTCACTGACTACGAAGCCTAACAACTTTCCGGAG
Found at i:18762277 original size:22 final size:22
Alignment explanation
Indices: 18762247--18762313 Score: 73
Period size: 22 Copynumber: 3.0 Consensus size: 22
18762237 TAAATACAAA
18762247 AATAA-AGAAAAATATAATAAC
1 AATAATAGAAAAATATAATAAC
* * * *
18762268 AGTAATAGAAAAATACAACAAT
1 AATAATAGAAAAATATAATAAC
18762290 AATAATAGTAAAAGATATAATAAC
1 AATAATAG-AAAA-ATATAATAAC
18762314 CTAATACTAT
Statistics
Matches: 35, Mismatches: 8, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
21 4 0.11
22 20 0.57
23 4 0.11
24 7 0.20
ACGTcount: A:0.66, C:0.06, G:0.07, T:0.21
Consensus pattern (22 bp):
AATAATAGAAAAATATAATAAC
Found at i:18762402 original size:3 final size:3
Alignment explanation
Indices: 18762394--18762510 Score: 71
Period size: 3 Copynumber: 38.7 Consensus size: 3
18762384 AAAGTAGTGC
* * *
18762394 TAA TAA TAA TAA TAA TAA TAA TAA TAA T-C TAT TAA GTTA TAA TGAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA T-AA
* * * * *
18762440 -AA TAA TGA TAA TGA TGA T-A TAT TAGA TAA TAA TAG TAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA
* *
18762483 TAA GTAA CAA TAA TAAA TTA TAA TAA TA
1 TAA -TAA TAA TAA T-AA TAA TAA TAA TA
18762511 GTGATGAGAA
Statistics
Matches: 89, Mismatches: 16, Indels: 18
0.72 0.13 0.15
Matches are distributed among these distances:
2 7 0.08
3 70 0.79
4 12 0.13
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:18762529 original size:16 final size:16
Alignment explanation
Indices: 18762510--18762541 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
18762500 TTATAATAAT
18762510 AGTGATGAGAATAACA
1 AGTGATGAGAATAACA
*
18762526 AGTGATGATAATAACA
1 AGTGATGAGAATAACA
18762542 GTAACAATAG
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:0.50, C:0.06, G:0.22, T:0.22
Consensus pattern (16 bp):
AGTGATGAGAATAACA
Found at i:18762675 original size:16 final size:15
Alignment explanation
Indices: 18762646--18762688 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
18762636 TATACGTCTG
*
18762646 AAAAATAATGATAGT
1 AAAAATAATAATAGT
18762661 AAAATATAATAATAGT
1 AAAA-ATAATAATAGT
*
18762677 AATAATAATAAT
1 AAAAATAATAAT
18762689 GGAATGAAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (15 bp):
AAAAATAATAATAGT
Found at i:18762794 original size:3 final size:3
Alignment explanation
Indices: 18762786--18762812 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
18762776 CTACCATATT
18762786 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
18762813 TAGAAATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:18766358 original size:27 final size:28
Alignment explanation
Indices: 18766315--18766368 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 28
18766305 GAAAAAAAAA
18766315 AGATTCAAGAAGAGATTTTT-TTTTTTG
1 AGATTCAAGAAGAGATTTTTGTTTTTTG
* *
18766342 AGATTCAAGAGGGGATTTTTGTTTTTT
1 AGATTCAAGAAGAGATTTTTGTTTTTT
18766369 TTTTTGAGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 18 0.75
28 6 0.25
ACGTcount: A:0.26, C:0.04, G:0.22, T:0.48
Consensus pattern (28 bp):
AGATTCAAGAAGAGATTTTTGTTTTTTG
Found at i:18766961 original size:3 final size:3
Alignment explanation
Indices: 18766953--18766991 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
18766943 TGTATTTCTA
18766953 TAT TAT 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
18766992 ATGGTAGTGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:18767117 original size:16 final size:15
Alignment explanation
Indices: 18767086--18767128 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
18767076 CCCTCATTCC
*
18767086 ATTATTATTATTACT
1 ATTATTATTTTTACT
18767101 ATTATTATATTTTACT
1 ATTATTAT-TTTTACT
*
18767117 ATCATTATTTTT
1 ATTATTATTTTT
18767129 CATACGTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (15 bp):
ATTATTATTTTTACT
Done.