Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008302.1 Hibiscus syriacus cultivar Beakdansim tig00110988_pilon, whole genome shotgun sequence
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: 3402722
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 17
Found at i:776527 original size:23 final size:23
Alignment explanation
Indices: 776462--776529 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 23
776452 CATAGATTTG
776462 TCTCG-AAGAACCACGTAGAATCA
1 TCTCGAAAG-ACCACGTAGAATCA
* ** *
776485 TCTCGAAGGACCACAAAGAATTA
1 TCTCGAAAGACCACGTAGAATCA
776508 TC-CAGAAAGACCACGTAGAATC
1 TCTC-GAAAGACCACGTAGAATC
776530 CCTCGACTCT
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
22 1 0.03
23 32 0.91
24 2 0.06
ACGTcount: A:0.41, C:0.25, G:0.18, T:0.16
Consensus pattern (23 bp):
TCTCGAAAGACCACGTAGAATCA
Found at i:777055 original size:22 final size:22
Alignment explanation
Indices: 777030--777083 Score: 108
Period size: 22 Copynumber: 2.5 Consensus size: 22
777020 TCTACACCTA
777030 GTACCGATACTTCCCTTCTATG
1 GTACCGATACTTCCCTTCTATG
777052 GTACCGATACTTCCCTTCTATG
1 GTACCGATACTTCCCTTCTATG
777074 GTACCGATAC
1 GTACCGATAC
777084 CTACCTCAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.20, C:0.31, G:0.15, T:0.33
Consensus pattern (22 bp):
GTACCGATACTTCCCTTCTATG
Found at i:778869 original size:21 final size:21
Alignment explanation
Indices: 778843--778882 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
778833 AGAATGTCTG
*
778843 GGGGGTACAGATTTTCCCCCA
1 GGGGGTACAGATTCTCCCCCA
*
778864 GGGGGTACCGATTCTCCCC
1 GGGGGTACAGATTCTCCCC
778883 TGTTTAACGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.15, C:0.33, G:0.30, T:0.23
Consensus pattern (21 bp):
GGGGGTACAGATTCTCCCCCA
Found at i:780474 original size:8 final size:8
Alignment explanation
Indices: 780458--780512 Score: 53
Period size: 8 Copynumber: 7.0 Consensus size: 8
780448 TGTTTGGATT
*
780458 GCAAATTG
1 GCAAGTTG
780466 GCAAGTTG
1 GCAAGTTG
780474 GCAAGTT-
1 GCAAGTTG
780481 G-AAGGCTT-
1 GCAA-G-TTG
780489 GCAAGTTG
1 GCAAGTTG
*
780497 ACAAGTTG
1 GCAAGTTG
780505 GCAAGTTG
1 GCAAGTTG
780513 CTAACTTGTG
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
6 2 0.05
7 4 0.10
8 32 0.80
9 2 0.05
ACGTcount: A:0.29, C:0.13, G:0.33, T:0.25
Consensus pattern (8 bp):
GCAAGTTG
Found at i:780603 original size:44 final size:43
Alignment explanation
Indices: 780501--780603 Score: 127
Period size: 43 Copynumber: 2.4 Consensus size: 43
780491 AAGTTGACAA
* * * *
780501 GTTGGCAAGTTG-CTAACTTGTGCACATGTGATAATTATCTTTG
1 GTTGGCAAGTTGAC-AACGTGAGCACATGGGATAATTATCCTTG
* *
780544 GTTAGCAAGTGGACAACGTGAGCACATGGGATAATTCATCCTTG
1 GTTGGCAAGTTGACAACGTGAGCACATGGGATAATT-ATCCTTG
780588 GTTGGCAAGTTGACAA
1 GTTGGCAAGTTGACAA
780604 GTTATGCAAG
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
43 29 0.58
44 21 0.42
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (43 bp):
GTTGGCAAGTTGACAACGTGAGCACATGGGATAATTATCCTTG
Found at i:790705 original size:14 final size:15
Alignment explanation
Indices: 790686--790719 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
790676 TTTAAGAAAA
790686 TATAATAA-AATATT
1 TATAATAATAATATT
790700 TATAATAATAATATT
1 TATAATAATAATATT
790715 T-TAAT
1 TATAAT
790720 CCTTAAAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TATAATAATAATATT
Found at i:790712 original size:25 final size:25
Alignment explanation
Indices: 790662--790713 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
790652 TTTGCATGAA
* *
790662 ATAATATAATATTTTTTAAGAAAAT
1 ATAATAAAATATTTTATAAGAAAAT
*
790687 ATAATAAAATA-TTTATAATAATAAT
1 ATAATAAAATATTTTATAAGAA-AAT
790712 AT
1 AT
790714 TTTAATCCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 8 0.35
25 15 0.65
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (25 bp):
ATAATAAAATATTTTATAAGAAAAT
Found at i:791404 original size:2 final size:2
Alignment explanation
Indices: 791397--791423 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
791387 AAATTAATGT
791397 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
791424 TAACATGACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:792849 original size:136 final size:136
Alignment explanation
Indices: 792606--793228 Score: 953
Period size: 136 Copynumber: 4.6 Consensus size: 136
792596 GTCTGAAGTT
* * *
792606 GAACAAGTTCTTCTCATTATGAACTTCTTCTCCCT-TGTTGGATGAATTCTTCTCATTATGAACT
1 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACT
* * * **
792670 CTCCATTAGAAATGTCAATCCCTCAAGCGAGGCGTCACTGATTCAAAATGTCGTGAATCGAGTGA
66 CTCCATTGGAAATGTCAATCCCTCAAGCGAGGCATCACTGATTCGAAATACCGTGAATCGAGTGA
792735 TAGGTC
131 TAGGTC
* *
792741 GAACAAGATCTTCTCATTATGAACTTCTTATCCCTCTGTCGGATGAGTTCTTCTCATTATGAACT
1 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACT
* * * * ** * *
792806 CTCAATTGGAAATTTCAATCCCTTAAGCGAGGTATCACTGATTCGAAATGTCATGAATCGAATGA
66 CTCCATTGGAAATGTCAATCCCTCAAGCGAGGCATCACTGATTCGAAATACCGTGAATCGAGTGA
792871 TAGGTC
131 TAGGTC
*
792877 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAATT
1 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACT
* **
792942 CTCCATTGGAAATGTCAATCCCTCAAGTGAGGTGTCACTGATTCGAAATACCGTGAATCGAGTGA
66 CTCCATTGGAAATGTCAATCCCTCAAGCGAGGCATCACTGATTCGAAATACCGTGAATCGAGTGA
*
793007 TAGATC
131 TAGGTC
* * *
793013 GAATAAGCTATTCTCATTATGAACTTCTTCTCCTTCTGTCGGATGAGTTCTTCTCATTATGAACT
1 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACT
* * * *
793078 CTTCACTGGAAATGTTGAA-CCCTCAAGCGAGGCATCACTGATTTGAAATACCGTGAATCGAGTG
66 CTCCATTGGAAATG-TCAATCCCTCAAGCGAGGCATCACTGATTCGAAATACCGTGAATCGAGTG
793142 ATAGGTC
130 ATAGGTC
793149 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACT
1 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACT
793214 CTCCATTGGAAATGT
66 CTCCATTGGAAATGT
793229 TGGTTCACCT
Statistics
Matches: 443, Mismatches: 43, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
135 34 0.08
136 406 0.92
137 3 0.01
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (136 bp):
GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACT
CTCCATTGGAAATGTCAATCCCTCAAGCGAGGCATCACTGATTCGAAATACCGTGAATCGAGTGA
TAGGTC
Found at i:794108 original size:9 final size:9
Alignment explanation
Indices: 794090--794137 Score: 64
Period size: 9 Copynumber: 5.4 Consensus size: 9
794080 CTTTTTTCTC
794090 TTCA-TTTT
1 TTCATTTTT
794098 TTCATTTTT
1 TTCATTTTT
794107 TTCATTTTT
1 TTCATTTTT
*
794116 TTCCTTTTT
1 TTCATTTTT
794125 TTC-TTTTT
1 TTCATTTTT
794133 CTTCA
1 -TTCA
794138 AGCATAATAC
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
8 9 0.25
9 27 0.75
ACGTcount: A:0.08, C:0.17, G:0.00, T:0.75
Consensus pattern (9 bp):
TTCATTTTT
Found at i:801423 original size:17 final size:19
Alignment explanation
Indices: 801401--801439 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
801391 CCAAAGTAAC
*
801401 CATTCTTAGAAA-AG-TTT
1 CATTCTTACAAAGAGCTTT
801418 CATTCTTACAAAGAGCTTT
1 CATTCTTACAAAGAGCTTT
801437 CAT
1 CAT
801440 CTTTACAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 11 0.58
18 2 0.11
19 6 0.32
ACGTcount: A:0.33, C:0.18, G:0.10, T:0.38
Consensus pattern (19 bp):
CATTCTTACAAAGAGCTTT
Found at i:802665 original size:199 final size:196
Alignment explanation
Indices: 802329--802723 Score: 738
Period size: 199 Copynumber: 2.0 Consensus size: 196
802319 TGTTGTGATG
802329 TCTTGCTAGACCCAGATTTTTTGCCTTTGTAGATTACGGTATTCCTTTTTAAATCAGCAGCTCGA
1 TCTTGCTAGACCCAGATTTTTTGCCTTTGTAGATTACGGTATTCCTTTTTAAATCAGCAGCTCGA
802394 GATCAACTTTCTCTTTATCTTCTTCAACAAATCACATTGTTTAACATGGAGACCCCTATCAAGAT
66 GATCAACTTTCTCTTTATCTTCTTCAACAAATCACATTGTTTAACATGGAGACCCCTATCAAGAT
*
802459 CTATCATGAACTTTTC-TGTCTTGCTTCTTCTATTGCTTTGTCCCATTTTTTCCTTTCAGCTTCA
131 CTATCATGAACTTTTCTTGTCTTGCTTCTTCCATTGCTTTGTCCCATTTTTTCCTTTCAGCTTCA
802523 A
196 A
802524 TCTTGCTAGACCCAGATTTTTTGCCTTTTGTAGATTACGGTATTCACTTTTTAAATCAGCTAGCT
1 TCTTGCTAGACCCAGATTTTTTGCC-TTTGTAGATTACGGTATTC-CTTTTTAAATCAGC-AGCT
802589 CGAGATCAACTTTCTCTTTATCTTTCTTCAACAAATCACATTGTTTAACATGGAGACCCCTATCA
63 CGAGATCAACTTTCTCTTTATC-TTCTTCAACAAATCACATTGTTTAACATGGAGACCCCTATCA
802654 AGATCTATCATGAACTTTTCTTGTCTTGCTTCTTCCATTGCTTTGTCCCATTTTTTCCTTTCAGC
127 AGATCTATCATGAACTTTTCTTGTCTTGCTTCTTCCATTGCTTTGTCCCATTTTTTCCTTTCAGC
802719 TTCAA
192 TTCAA
802724 ACTCGGCAGT
Statistics
Matches: 194, Mismatches: 1, Indels: 5
0.97 0.00 0.03
Matches are distributed among these distances:
195 25 0.13
196 19 0.10
197 14 0.07
198 26 0.13
199 62 0.32
200 48 0.25
ACGTcount: A:0.22, C:0.24, G:0.12, T:0.42
Consensus pattern (196 bp):
TCTTGCTAGACCCAGATTTTTTGCCTTTGTAGATTACGGTATTCCTTTTTAAATCAGCAGCTCGA
GATCAACTTTCTCTTTATCTTCTTCAACAAATCACATTGTTTAACATGGAGACCCCTATCAAGAT
CTATCATGAACTTTTCTTGTCTTGCTTCTTCCATTGCTTTGTCCCATTTTTTCCTTTCAGCTTCA
A
Found at i:807832 original size:46 final size:49
Alignment explanation
Indices: 807741--807835 Score: 151
Period size: 46 Copynumber: 2.0 Consensus size: 49
807731 CACAATGATT
*
807741 ATAACTGCATACTTAGAAAAGAAAAAAAAAACAAGAACAGACACATACAA
1 ATAAATGCATACTTAGAAAAG-AAAAAAAAACAAGAACAGACACATACAA
807791 ATAAATGCATACTTAG-AAAG-AAAAAAAA-AAGAACAGACACATACA
1 ATAAATGCATACTTAGAAAAGAAAAAAAAACAAGAACAGACACATACA
807836 CACGAATTGC
Statistics
Matches: 44, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
46 17 0.39
47 8 0.18
49 4 0.09
50 15 0.34
ACGTcount: A:0.62, C:0.15, G:0.11, T:0.13
Consensus pattern (49 bp):
ATAAATGCATACTTAGAAAAGAAAAAAAAACAAGAACAGACACATACAA
Found at i:810265 original size:15 final size:16
Alignment explanation
Indices: 810245--810278 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
810235 GATAAAATAC
810245 AAAAATAAT-TTTTTA
1 AAAAATAATATTTTTA
810260 AAAAATAATATTTTTA
1 AAAAATAATATTTTTA
810276 AAA
1 AAA
810279 TATTTTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
AAAAATAATATTTTTA
Found at i:810352 original size:21 final size:21
Alignment explanation
Indices: 810300--810368 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
810290 CGAAAATATT
* *
810300 AATATAAAAAATATTCATTTTA
1 AATAAAAAAAATA-ACATTTTA
** * * *
810322 GGTAACAAAATTAACATTTTC
1 AATAAAAAAAATAACATTTTA
*
810343 AATAAAAAAAATAATATTTTA
1 AATAAAAAAAATAACATTTTA
810364 AATAA
1 AATAA
810369 TACTTTACTA
Statistics
Matches: 34, Mismatches: 13, Indels: 1
0.71 0.27 0.02
Matches are distributed among these distances:
21 26 0.76
22 8 0.24
ACGTcount: A:0.57, C:0.06, G:0.03, T:0.35
Consensus pattern (21 bp):
AATAAAAAAAATAACATTTTA
Found at i:814209 original size:3 final size:3
Alignment explanation
Indices: 814201--814232 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
814191 CCTAAAATAC
814201 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
814233 CGATCAACAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:815698 original size:20 final size:20
Alignment explanation
Indices: 815661--815698 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
815651 ACCACTATCC
*
815661 AATATACAAAGATTAAATAA
1 AATATACAAAGATAAAATAA
815681 AATAGTACAAAGA-AAAAT
1 AATA-TACAAAGATAAAAT
815699 CAAACCTGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.66, C:0.05, G:0.08, T:0.21
Consensus pattern (20 bp):
AATATACAAAGATAAAATAA
Found at i:819209 original size:3 final size:3
Alignment explanation
Indices: 819201--819238 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
819191 ACAGGGACAT
819201 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
819239 AGAAAGTTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:836436 original size:23 final size:23
Alignment explanation
Indices: 836389--836437 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
836379 AATAACATAT
* **
836389 TAGGTAGCGTTTATATAATGTAA
1 TAGGTAGCGCTTATATAATAAAA
836412 TAGGTAGCGCTTATATAATAAAA
1 TAGGTAGCGCTTATATAATAAAA
836435 TAG
1 TAG
836438 ACATTTAACC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.06, G:0.20, T:0.35
Consensus pattern (23 bp):
TAGGTAGCGCTTATATAATAAAA
Found at i:836907 original size:198 final size:198
Alignment explanation
Indices: 836527--837209 Score: 921
Period size: 200 Copynumber: 3.4 Consensus size: 198
836517 TTATTTATAC
* * *
836527 CGGTAACATTGCAAATTTATC-TATTACATTATAATTATCGGTTTCGATATTTTTGGGATCAATA
1 CGGTTACATTGTAAATTTA-CATATTACATTATAATTATCGGTTTCGATATTTTTGGGATCGATA
** * * *
836591 CAATTT-TAAATGTATCGACACTTTATGCATGCACCTCGTTGGGCATTCATTCTGGAAAAAAAGT
65 CTTTTTATAAATGTATCGACACTTTATGCGTGCACCCCGTTTGGCATTCATTCTGG--AAAAAGT
* * * * * **
836655 ATCGGCACAAACTT-AAAAAGTGTCGATACATTATGTAGAACTATTTTATCATAAAACCAGTATC
128 ATCGACAC-AAGTTCCACAAGTGTCGATACATTATGTAGACCTATTTTATCATAAAACCAGTAAA
836719 TTTCTAT
192 TTTCTAT
* * * *
836726 CGGGTACATTGTAAATTTACATATTACATTGTAATTATCGGTTTCGATGTTTTTGGGATGGATAC
1 CGGTTACATTGTAAATTTACATATTACATTATAATTATCGGTTTCGATATTTTTGGGATCGATAC
* *
836791 TTTTAATAAATGTATCGACACTTTATGCGTGCACCCCGTTTGACATTCATTCTGGAAAAAGTATC
66 TTTTTATAAATGTATCGACACTTTATGCGTGCACCCCGTTTGGCATTCATTCTGGAAAAAGTATC
*
836856 GACACAAGTTCCACAAGTGTCGATACATTATGTAGACCTATTTTTTCATAAAA-CATGTAAATTT
131 GACACAAGTTCCACAAGTGTCGATACATTATGTAGACCTATTTTATCATAAAACCA-GTAAATTT
836920 CTA-
195 CTAT
* *
836923 CAGGTTACATTGTAAATTTACATATTACATTATAATTAT-GAGTTTCAATGTTTTTGGGATCGAT
1 C-GGTTACATTGTAAATTTACATATTACATTATAATTATCG-GTTTCGATATTTTTGGGATCGAT
** * *
836987 ACTTTTTATAAATGTATCGACACTTTATGCGTGCA-CCATTTTGGGCATTCATTATGAACAACAA
64 ACTTTTTATAAATGTATCGACACTTTATGCGTGCACCCCGTTT-GGCATTCATTCTGGA-AA-AA
* *
837051 GTATCGACACAAGTTCCACAAGTGTCGATACATTATGTAGACCTATTTTCTCATAAAACCGGTAA
126 GTATCGACACAAGTTCCACAAGTGTCGATACATTATGTAGACCTATTTTATCATAAAACCAGTAA
*
837116 ATTTATAT
191 ATTTCTAT
* * *
837124 TGGTTACATTGTAAATTTACCTATTACATTATAATTATGGGTTTCGATATTTTTGGGATCGATAC
1 CGGTTACATTGTAAATTTACATATTACATTATAATTATCGGTTTCGATATTTTTGGGATCGATAC
837189 TTTTTATAAATGTATCGACAC
66 TTTTTATAAATGTATCGACAC
837210 ATATTTAGGT
Statistics
Matches: 433, Mismatches: 39, Indels: 23
0.87 0.08 0.05
Matches are distributed among these distances:
197 13 0.03
198 164 0.38
199 60 0.14
200 194 0.45
201 2 0.00
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.38
Consensus pattern (198 bp):
CGGTTACATTGTAAATTTACATATTACATTATAATTATCGGTTTCGATATTTTTGGGATCGATAC
TTTTTATAAATGTATCGACACTTTATGCGTGCACCCCGTTTGGCATTCATTCTGGAAAAAGTATC
GACACAAGTTCCACAAGTGTCGATACATTATGTAGACCTATTTTATCATAAAACCAGTAAATTTC
TAT
Found at i:839496 original size:19 final size:19
Alignment explanation
Indices: 839472--839537 Score: 114
Period size: 19 Copynumber: 3.5 Consensus size: 19
839462 TTACATTCAC
839472 ATACAAAATTATAAATTGT
1 ATACAAAATTATAAATTGT
*
839491 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATTGT
*
839510 ATACAAAATTATGAATTGT
1 ATACAAAATTATAAATTGT
839529 ATACAAAAT
1 ATACAAAAT
839538 GTCCCCTACA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 44 1.00
ACGTcount: A:0.53, C:0.08, G:0.06, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATTGT
Found at i:841638 original size:198 final size:199
Alignment explanation
Indices: 841164--842351 Score: 1509
Period size: 198 Copynumber: 6.0 Consensus size: 199
841154 GCGTAATTTA
* * *
841164 AAAAAGTATCGACACAACTTTAAAAAGTGTCGATACATTATGCAGACCTATTTTCTAATTAACCG
1 AAAAAGTATCGACACAAATTCAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCG
* *
841229 GTATATTTCTACCGGTTACATTGGAAATTGACCTATTACATTATAATTATATTATTCGATGTTTA
66 GTATATTTCTACCGGTTACATTGGAAATTGACCTATTACATTATAATTATCTTATTCGATGTTTT
** *
841294 TGGGATCGATACTTTTTATAAATGTATCGACACTTTATTCGTGCA-CCTTGGTT-GGTCATTCAT
131 TGGGATCGATACAATTTATAAATGTATCGACACTTTATGCGTGCACCCTT--TTAGG-CATTCAT
*
841357 TATGGAC
193 TCTGGAC
* * * * * * *
841364 AAAAAATACCGATAC-AATTTAAAAAGTTTCGATACATTATATAGACCTATTTTCGAATTAACCG
1 AAAAAGTATCGACACAAATTCAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCG
* * *
841428 GTATATTTCTACCGGTTACATTGTAAAGTT-ACCTATTACATTATAATTATCGGT-TTCAATGTT
66 GTATATTTCTACCGGTTACATTGGAAA-TTGACCTATTACATTATAATTATC-TTATTCGATGTT
*
841491 TTTGGGATCGATACAATTT-TAAATGTATCGACACTTTATGAGTGCACCCTTTTAGGCATTCATT
129 TTTGGGATCGATACAATTTATAAATGTATCGACACTTTATGCGTGCACCCTTTTAGGCATTCATT
*
841555 TTGGAC
194 CTGGAC
* * * * *
841561 AAAAAGTATCGACACAAATTCCACAAGTGTCGATACATGATGTAGATCTATTTTCTAATTAACCA
1 AAAAAGTATCGACACAAATTCAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCG
* * * *
841626 ATATATTTCTACCGGTTACATTGGAAATTGACTTATTACATTATAATTATATTATTTGATGTTTT
66 GTATATTTCTACCGGTTACATTGGAAATTGACCTATTACATTATAATTATCTTATTCGATGTTTT
** * **
841691 TGGGATCGATACTTTTTATAAATGTATCGACACTTTATTCGTGCACCTCGGTT-GGTCATTCATT
131 TGGGATCGATACAATTTATAAATGTATCGACACTTTATGCGTGCACC-CTTTTAGG-CATTCATT
841755 CTGGAC
194 CTGGAC
* * * **
841761 AAAAAGTATCGACAC-AATTTAAAAAGTGTCGATA-TTTATGTAGACCAATTTTCTAATTAATTG
1 AAAAAGTATCGACACAAATTCAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCG
* * * * * *
841824 GCATATATCTATCAGTTACATTGTAAATTTACCTATTACATTATAATTATCTTATTCGATGTTTT
66 GTATATTTCTACCGGTTACATTGGAAATTGACCTATTACATTATAATTATCTTATTCGATGTTTT
* * * *
841889 TAGGATCGATACAAATT-TAAATGTATCAACACTTTATGCGTGCACTCTTTTAGGCATTCATTCT
131 TGGGATCGATACAATTTATAAATGTATCGACACTTTATGCGTGCACCCTTTTAGGCATTCATTCT
841953 GGAC
196 GGAC
* * * * * *
841957 AACAAGTATCGACACAAATTCCACAAGTGTCTATACATTATGTAGACATATTCTCTAATTAACCG
1 AAAAAGTATCGACACAAATTCAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCG
* * * *
842022 GTATATTTCTACCAGTTTCATTGTAAATTTACCTATTACATTATAATTATCTTATTCGATGTTTT
66 GTATATTTCTACCGGTTACATTGGAAATTGACCTATTACATTATAATTATCTTATTCGATGTTTT
*
842087 TGGGATCGATACAATTT-TAAATGTATCGACACTTTATGCGTGCACCCTTTTAGACATTCATTCT
131 TGGGATCGATACAATTTATAAATGTATCGACACTTTATGCGTGCACCCTTTTAGGCATTCATTCT
*
842151 GGAT
196 GGAC
* * * * * * * *
842155 AACAAGTATCGACACAAATTCCATAAGTATTGATATATTATGTAGACCTATTCTCTAATTAACTG
1 AAAAAGTATCGACACAAATTCAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCG
*
842220 GTATATTTCTACCGGTTACATTGGAAATTGATCTATTACATTATAATTATCTTATTCGATGTTTT
66 GTATATTTCTACCGGTTACATTGGAAATTGACCTATTACATTATAATTATCTTATTCGATGTTTT
* ** * ** *
842285 TGGGATCAATA-TTTTTAATAAATGTATCGACACTTTATTCGTGCACCTCGGTTGGGCATTCATT
131 TGGGATCGATACAATTT-ATAAATGTATCGACACTTTATGCGTGCACC-CTTTTAGGCATTCATT
842349 CTG
194 CTG
842352 AAAATTACTG
Statistics
Matches: 858, Mismatches: 114, Indels: 32
0.85 0.11 0.03
Matches are distributed among these distances:
196 31 0.04
197 76 0.09
198 499 0.58
199 191 0.22
200 61 0.07
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (199 bp):
AAAAAGTATCGACACAAATTCAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCG
GTATATTTCTACCGGTTACATTGGAAATTGACCTATTACATTATAATTATCTTATTCGATGTTTT
TGGGATCGATACAATTTATAAATGTATCGACACTTTATGCGTGCACCCTTTTAGGCATTCATTCT
GGAC
Found at i:843146 original size:128 final size:127
Alignment explanation
Indices: 842911--843150 Score: 419
Period size: 128 Copynumber: 1.9 Consensus size: 127
842901 CACACGTAAA
842911 GCATAAACCCGGTACAATTAACAATGTAAACGGATAAAAGTTCTCCGATATAATAAAAATTATCG
1 GCATAAACCCGGTACAATTAACAATGTAAACGGATAAAAGTTCTCCGATATAATAAAAATTATCG
*
842976 TAAATGACAAGTTCAGACGGTTGTCATGTACACCTATTATCATTGCATAAACCCTAGATCTT
66 TAAATGACAAGTTCAGAAGGTTGTCATGTACACCTATTATCATTGCATAAACCCTAGATCTT
* *
843038 GCATAAACCCCGGTACAATTAACAATGTAAACGGATAAAAGTTCTCCGGTATAATGAAAA-TAGT
1 GCATAAA-CCCGGTACAATTAACAATGTAAACGGATAAAAGTTCTCCGATATAATAAAAATTA-T
*
843102 CGTAAATGACAAGTTCAGAAGGTTGTCATGTACGCCTATTATCATTGCA
64 CGTAAATGACAAGTTCAGAAGGTTGTCATGTACACCTATTATCATTGCA
843151 CCGGTAGAAT
Statistics
Matches: 107, Mismatches: 4, Indels: 3
0.94 0.04 0.03
Matches are distributed among these distances:
127 9 0.08
128 98 0.92
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (127 bp):
GCATAAACCCGGTACAATTAACAATGTAAACGGATAAAAGTTCTCCGATATAATAAAAATTATCG
TAAATGACAAGTTCAGAAGGTTGTCATGTACACCTATTATCATTGCATAAACCCTAGATCTT
Found at i:846376 original size:15 final size:15
Alignment explanation
Indices: 846356--846388 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
846346 TTGTCCTTGA
846356 GAAGAGCTTGGTTGG
1 GAAGAGCTTGGTTGG
846371 GAAGAGCTTGGTTGG
1 GAAGAGCTTGGTTGG
846386 GAA
1 GAA
846389 TAGTTTTGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.24, C:0.06, G:0.45, T:0.24
Consensus pattern (15 bp):
GAAGAGCTTGGTTGG
Found at i:847038 original size:200 final size:200
Alignment explanation
Indices: 846655--847604 Score: 1422
Period size: 200 Copynumber: 4.8 Consensus size: 200
846645 CAAATTTAAA
* * * **
846655 AAGTGTCGATACATTATGTAGACCTATTTTATCATAAAACTGATAAATTTCTATTGGTTACATTG
1 AAGTGTCGATACATTATGTAGACCTATTTTCTCATAAAACCGGTAAATTTCTACCGGTTACATTG
846720 TAAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGATACTTTTTATAAAT
66 TAAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGATACTTTTTATAAAT
*
846785 GTATCGACACTTTATGCGTGCACCTTTTTAGGG-ATTCATTCTGGACAAAAAGTATCGACACAAG
131 GTATCGACACTTTATGCGTGCACCCTTTT-GGGCATTCATTCTGGACAAAAAGTATCGACACAAG
*
846849 TTCCAT
195 TTCCAC
* * *
846855 AAGTGTCGATACATTATGTAGACATGTTTTCTCAT-AAACCGGTAAATTTCTACCAGTTACATTG
1 AAGTGTCGATACATTATGTAGACCTATTTTCTCATAAAACCGGTAAATTTCTACCGGTTACATTG
* *
846919 TAAATTTACCTATTACATTATAATTATGGGTTTCGATATTTTTGTGATCGATACTTTTTATAAAT
66 TAAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGATACTTTTTATAAAT
* * *
846984 GTATCAACACTTTATGCGTGGACCCCTTTTGGGCATTCATTCTGGACAAAAAGTATAGACACAAG
131 GTATCGACACTTTATGCGTGCA-CCCTTTTGGGCATTCATTCTGGACAAAAAGTATCGACACAAG
847049 TTCCAC
195 TTCCAC
* * * * *
847055 AAGTGTCGATACATTATATAAACATGTTTTCTCAT-AATCCGGTAAATTTCTACCGGTTACATTG
1 AAGTGTCGATACATTATGTAGACCTATTTTCTCATAAAACCGGTAAATTTCTACCGGTTACATTG
* * *
847119 TAAATTTACCTATTATATTATAATTATGGGTTTTGATGTTTTTGGGATTGATACTTTTTATAAAT
66 TAAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGATACTTTTTATAAAT
*
847184 GTATCGACACTTTATGCATGCACCCTTTTGGGCATTCATTCTGGACAAAAAGTATCGACACAAGT
131 GTATCGACACTTTATGCGTGCACCCTTTTGGGCATTCATTCTGGACAAAAAGTATCGACACAAGT
847249 TCCAC
196 TCCAC
** * *
847254 AAGTGTCGATACATTATGTAGACCTATTTTCTTGTAAAACCGATAAATTTATACCGGTTACATTG
1 AAGTGTCGATACATTATGTAGACCTATTTTCTCATAAAACCGGTAAATTTCTACCGGTTACATTG
* * *
847319 TAAATTTACCTATTACATTATAATTATGGGTTTCGATATTTTTAGGATCAATACTTTTTATAAAT
66 TAAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGATACTTTTTATAAAT
** * * **
847384 GTATCGACACTTTATGTATACATCCCTTTTGGGCATTCATTCTGGACAAAAAGCATTTACACAAG
131 GTATCGACACTTTATGCGTGCA-CCCTTTTGGGCATTCATTCTGGACAAAAAGTATCGACACAAG
*
847449 CTCCAC
195 TTCCAC
* * * **
847455 AAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACCGGTATATTTATATAGGTTACATTG
1 AAGTGTCGATACATTATGTAGACCTATTTTCTCATAAAACCGGTAAATTTCTACCGGTTACATTG
* * *
847520 AAAAATTACCTATTAGATTATAATTATGGGCTTT-GATGTTTTTGGGATCGATACTTTTTATAAA
66 TAAATTTACCTATTACATTATAATTATGGG-TTTCGATGTTTTTGGGATCGATACTTTTTATAAA
847584 TGTATCGACACTTTATGCGTG
130 TGTATCGACACTTTATGCGTG
847605 TCTATTCTCT
Statistics
Matches: 680, Mismatches: 65, Indels: 9
0.90 0.09 0.01
Matches are distributed among these distances:
199 186 0.27
200 317 0.47
201 174 0.26
202 3 0.00
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.39
Consensus pattern (200 bp):
AAGTGTCGATACATTATGTAGACCTATTTTCTCATAAAACCGGTAAATTTCTACCGGTTACATTG
TAAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGATACTTTTTATAAAT
GTATCGACACTTTATGCGTGCACCCTTTTGGGCATTCATTCTGGACAAAAAGTATCGACACAAGT
TCCAC
Found at i:848056 original size:19 final size:19
Alignment explanation
Indices: 848032--848077 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
848022 TTACATTCAC
848032 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
848051 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
848070 ATACAAAA
1 ATACAAAA
848078 CCCTACATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.57, C:0.11, G:0.02, T:0.30
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:850291 original size:18 final size:18
Alignment explanation
Indices: 850268--850313 Score: 67
Period size: 18 Copynumber: 2.5 Consensus size: 18
850258 AGGCATTTGA
850268 TCCTCTGGCT-GTGCTTGT
1 TCCTCT-GCTCGTGCTTGT
850286 TCCTCTGCTCGTGCTTGT
1 TCCTCTGCTCGTGCTTGT
850304 TCCTCGTGCT
1 TCCTC-TGCT
850314 GTTCTGATAC
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
17 3 0.12
18 19 0.73
19 4 0.15
ACGTcount: A:0.00, C:0.33, G:0.24, T:0.43
Consensus pattern (18 bp):
TCCTCTGCTCGTGCTTGT
Found at i:852158 original size:18 final size:18
Alignment explanation
Indices: 852135--852180 Score: 67
Period size: 18 Copynumber: 2.5 Consensus size: 18
852125 AGGCATTTGA
852135 TCCTCTAGCT-GTGCTTGT
1 TCCTCT-GCTCGTGCTTGT
852153 TCCTCTGCTCGTGCTTGT
1 TCCTCTGCTCGTGCTTGT
852171 TCCTCATGCT
1 TCCTC-TGCT
852181 GCTCTGATAC
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
17 3 0.12
18 19 0.73
19 4 0.15
ACGTcount: A:0.04, C:0.33, G:0.20, T:0.43
Consensus pattern (18 bp):
TCCTCTGCTCGTGCTTGT
Found at i:857316 original size:182 final size:182
Alignment explanation
Indices: 856860--857604 Score: 1124
Period size: 182 Copynumber: 4.1 Consensus size: 182
856850 TACAATAACC
*
856860 TAAGTGTCGATACA-TTTTTTAAAGTATCGACACTTTATAGGCTCTATTACTACTTGTCTTTTAA
1 TAAGTGTCGATACATTTTTTTAAAGTATCGACACTTTATAGGCGCTATTACTACTTGTCTTTTAA
* *
856924 ATTCCAAAAGTGTCGATACTTATAATAAAGTATAGACACTTTCAACATATCCGATGGCGTTTTAC
66 ATTCCAAAAGTGTCGATACTTATAATAAAGTATCGACACTTTCAACATATCCGATGGCGCTTTAC
* * *
856989 CAGTTTTATCATTTTGAGACCGGTTTTATTATATTTTTACCTGGTATATTGT
131 CAGTTTTGTCATTTTGAGACCGGTTTTATCATATTTTTACCTGTTATATTGT
*
857041 TAAGTGTCGAT--ATTTTTTTAAAGTATCGACACTTTTTAGGCGCTATTACTACTTGTCTTTTAA
1 TAAGTGTCGATACATTTTTTTAAAGTATCGACACTTTATAGGCGCTATTACTACTTGTCTTTTAA
* *
857104 ATTCCAAAAGTGTCGATACTTATAATAAAGTATCGACACTTTTAACATATCCGGTGGCGCTTTAC
66 ATTCCAAAAGTGTCGATACTTATAATAAAGTATCGACACTTTCAACATATCCGATGGCGCTTTAC
* *
857169 CGGTTTTGTCATTTTGAGATCGGTTTTATCATATTTTTACCTGTTATATTGT
131 CAGTTTTGTCATTTTGAGACCGGTTTTATCATATTTTTACCTGTTATATTGT
* *
857221 TAAGTATCGATACATTTTTTTAAAGTATCGACACTTTATAGGCGCTATTACTTCTTGTCTTTTAA
1 TAAGTGTCGATACATTTTTTTAAAGTATCGACACTTTATAGGCGCTATTACTACTTGTCTTTTAA
* * * *
857286 ATTTCAAAAGTGTCGATACTTATAATAAAGTATCGACACTTTCAACATATCTGGTGGCGCTTTAT
66 ATTCCAAAAGTGTCGATACTTATAATAAAGTATCGACACTTTCAACATATCCGATGGCGCTTTAC
* *
857351 CAGTTTTGTCATTTTGAGACCGATTTTATCATATTTTTACTTGTTATATTGT
131 CAGTTTTGTCATTTTGAGACCGGTTTTATCATATTTTTACCTGTTATATTGT
* * * * *
857403 TAAGTGTCGATAAATTTTTTTAAAGTATCAACACTTTATAGGCGGTATGACTGCTTGTCTTTTAA
1 TAAGTGTCGATACATTTTTTTAAAGTATCGACACTTTATAGGCGCTATTACTACTTGTCTTTTAA
* * *
857468 ATTCCAAAAGTGTCGATACTTATAATAAAGTATCGACACTTTTAACATATCCGATAGCACTTTA-
66 ATTCCAAAAGTGTCGATACTTATAATAAAGTATCGACACTTTCAACATATCCGATGGCGCTTTAC
* * * * *
857532 CTGGTTTGATCATTTTGAGACCGGTTTTTTCATATTTTCACCTATTATATT-T
131 CAGTTTTG-TCATTTTGAGACCGGTTTTATCATATTTTTACCTGTTATATTGT
*
857584 CTATG-GATCGATACATTTTTT
1 -TAAGTG-TCGATACATTTTTT
857605 ATTTGTATCG
Statistics
Matches: 515, Mismatches: 43, Indels: 11
0.91 0.08 0.02
Matches are distributed among these distances:
179 1 0.00
180 166 0.32
181 19 0.04
182 329 0.64
ACGTcount: A:0.28, C:0.15, G:0.14, T:0.43
Consensus pattern (182 bp):
TAAGTGTCGATACATTTTTTTAAAGTATCGACACTTTATAGGCGCTATTACTACTTGTCTTTTAA
ATTCCAAAAGTGTCGATACTTATAATAAAGTATCGACACTTTCAACATATCCGATGGCGCTTTAC
CAGTTTTGTCATTTTGAGACCGGTTTTATCATATTTTTACCTGTTATATTGT
Found at i:858266 original size:166 final size:166
Alignment explanation
Indices: 857986--858314 Score: 552
Period size: 166 Copynumber: 2.0 Consensus size: 166
857976 GGGAACAACA
* *
857986 CATTCATATCTTCTCTACGGCCCTTTCAAATGCCCATTTATCGAGCTCAAATTCTTCTGCCAAAA
1 CATTCATATCTTCTCTACGACCCTTTCAAATGCCCATTTATCGAGCCCAAATTCTTCTGCCAAAA
* * *
858051 GTACGACCGACCCGATAGCAATTATCTCAAGTACCGATGGAAGCCCTTCTCCTGCAGTCTCCCCA
66 GTACGACCGACCCGATAACAATTATCTCAAGTACCGATGCAAGCCCTTCTCCTGCAGTCTCCCAA
* *
858116 GGTAAGTGATTACGATACATCGATTCCGTTCATACG
131 GGTAAGTGATTACGATACATCAATTCCATTCATACG
*
858152 CATTCATATCTTCTCTACGACCCTTTCAAATGCCCATTTATCGAGCCCGAATTCTTCTGCCAAAA
1 CATTCATATCTTCTCTACGACCCTTTCAAATGCCCATTTATCGAGCCCAAATTCTTCTGCCAAAA
* *
858217 GTATGACCGACCCGATAACAATTATCTCAAGTACCGATAGCAA-CCCTTCTCCTGTAGTCTCCCA
66 GTACGACCGACCCGATAACAATTATCTCAAGTACCGAT-GCAAGCCCTTCTCCTGCAGTCTCCCA
858281 AGGTAAGTGATTACGATACATCAATTCCATTCAT
130 AGGTAAGTGATTACGATACATCAATTCCATTCAT
858315 GTATAGAGTT
Statistics
Matches: 152, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
166 149 0.98
167 3 0.02
ACGTcount: A:0.27, C:0.30, G:0.14, T:0.29
Consensus pattern (166 bp):
CATTCATATCTTCTCTACGACCCTTTCAAATGCCCATTTATCGAGCCCAAATTCTTCTGCCAAAA
GTACGACCGACCCGATAACAATTATCTCAAGTACCGATGCAAGCCCTTCTCCTGCAGTCTCCCAA
GGTAAGTGATTACGATACATCAATTCCATTCATACG
Found at i:861566 original size:16 final size:16
Alignment explanation
Indices: 861540--861593 Score: 60
Period size: 16 Copynumber: 3.5 Consensus size: 16
861530 CAAAGAAAAG
861540 AAAAGAAATAAAATAAC
1 AAAA-AAATAAAATAAC
861557 AAAAAAATAAAAT-A-
1 AAAAAAATAAAATAAC
* *
861571 AAAAATA-AAAACAAC
1 AAAAAAATAAAATAAC
861586 AAAAAAAT
1 AAAAAAAT
861594 TATGTAGCTC
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
13 4 0.13
14 7 0.23
15 7 0.23
16 9 0.29
17 4 0.13
ACGTcount: A:0.81, C:0.06, G:0.02, T:0.11
Consensus pattern (16 bp):
AAAAAAATAAAATAAC
Found at i:861583 original size:26 final size:25
Alignment explanation
Indices: 861528--861590 Score: 63
Period size: 25 Copynumber: 2.4 Consensus size: 25
861518 AAGATAATGT
* *
861528 AACAAAGAAAAGAAAAGAAATAAAAT
1 AACAAA-AAAAGAAAAGAAAAAAAAA
* *
861554 AACAAAAAAATAAAATAAAAAATAAA
1 AACAAAAAAAGAAAAGAAAAAA-AAA
861580 AACAACAAAAA
1 AACAA-AAAAA
861591 AATTATGTAG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
25 13 0.42
26 13 0.42
27 5 0.16
ACGTcount: A:0.81, C:0.06, G:0.05, T:0.08
Consensus pattern (25 bp):
AACAAAAAAAGAAAAGAAAAAAAAA
Found at i:861589 original size:21 final size:21
Alignment explanation
Indices: 861545--861589 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
861535 AAAAGAAAAG
*
861545 AAATAAAATAACAAAAAAATA
1 AAATAAAATAACAAAAAAACA
*
861566 AAATAAAA-AATAAAAACAACA
1 AAATAAAATAACAAAAA-AACA
861587 AAA
1 AAA
861590 AAATTATGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.82, C:0.07, G:0.00, T:0.11
Consensus pattern (21 bp):
AAATAAAATAACAAAAAAACA
Found at i:866564 original size:8 final size:8
Alignment explanation
Indices: 866551--866576 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
866541 CTAAAATATA
866551 ATATATCT
1 ATATATCT
866559 ATATATCT
1 ATATATCT
866567 ATATATCT
1 ATATATCT
866575 AT
1 AT
866577 TCAAAGAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (8 bp):
ATATATCT
Found at i:871928 original size:3 final size:3
Alignment explanation
Indices: 871915--871956 Score: 75
Period size: 3 Copynumber: 13.7 Consensus size: 3
871905 TATTTTAGAT
871915 TAA TAAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
871957 CGTTATATAA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 35 0.92
4 3 0.08
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:878038 original size:163 final size:163
Alignment explanation
Indices: 877768--878098 Score: 662
Period size: 163 Copynumber: 2.0 Consensus size: 163
877758 AAGGAACAAA
877768 AAAGGGACAATAAAGTCAAGGCCATGAAGATAGCAAACGAATACCAGATAGCTAACAAACATTAA
1 AAAGGGACAATAAAGTCAAGGCCATGAAGATAGCAAACGAATACCAGATAGCTAACAAACATTAA
877833 GTTCCAGATATCAAGTTGCAGTTATATAATCTTGGGATTCGCATGCACAGAGGATATGAGCTACC
66 GTTCCAGATATCAAGTTGCAGTTATATAATCTTGGGATTCGCATGCACAGAGGATATGAGCTACC
877898 CAGCATATCCGAATATGCAGTACTGAAAATTAT
131 CAGCATATCCGAATATGCAGTACTGAAAATTAT
877931 AAAGGGACAATAAAGTCAAGGCCATGAAGATAGCAAACGAATACCAGATAGCTAACAAACATTAA
1 AAAGGGACAATAAAGTCAAGGCCATGAAGATAGCAAACGAATACCAGATAGCTAACAAACATTAA
877996 GTTCCAGATATCAAGTTGCAGTTATATAATCTTGGGATTCGCATGCACAGAGGATATGAGCTACC
66 GTTCCAGATATCAAGTTGCAGTTATATAATCTTGGGATTCGCATGCACAGAGGATATGAGCTACC
878061 CAGCATATCCGAATATGCAGTACTGAAAATTAT
131 CAGCATATCCGAATATGCAGTACTGAAAATTAT
878094 AAAGG
1 AAAGG
878099 AAAGTACTAC
Statistics
Matches: 168, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
163 168 1.00
ACGTcount: A:0.40, C:0.18, G:0.20, T:0.22
Consensus pattern (163 bp):
AAAGGGACAATAAAGTCAAGGCCATGAAGATAGCAAACGAATACCAGATAGCTAACAAACATTAA
GTTCCAGATATCAAGTTGCAGTTATATAATCTTGGGATTCGCATGCACAGAGGATATGAGCTACC
CAGCATATCCGAATATGCAGTACTGAAAATTAT
Found at i:880015 original size:18 final size:19
Alignment explanation
Indices: 879989--880030 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
879979 GTTGAATCTT
*
879989 AAATTATCTAT-AATTATA
1 AAATAATCTATGAATTATA
* *
880007 AAATAATCTTTGGATTATA
1 AAATAATCTATGAATTATA
880026 AAATA
1 AAATA
880031 TTATTTTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.40
Consensus pattern (19 bp):
AAATAATCTATGAATTATA
Found at i:880265 original size:60 final size:60
Alignment explanation
Indices: 880185--880297 Score: 158
Period size: 60 Copynumber: 1.9 Consensus size: 60
880175 ATACGAATAG
*
880185 TAGAATAATCATTTTGTAATTTTTAATAGA-AGAAAATTCTAACAAAATAACATACTATTGT
1 TAGAATAATCATTTTATAATTTTTAATA-ACAGAAAATTCTAA-AAAATAACATACTATTGT
* * *
880246 TAGAAT-ATCATTTTATAATTTTTAATAACTGAAAATTTTAAAAAATATCATA
1 TAGAATAATCATTTTATAATTTTTAATAACAGAAAATTCTAAAAAATAACATA
880298 TTGCAATCAA
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
59 11 0.23
60 30 0.64
61 6 0.13
ACGTcount: A:0.47, C:0.07, G:0.06, T:0.40
Consensus pattern (60 bp):
TAGAATAATCATTTTATAATTTTTAATAACAGAAAATTCTAAAAAATAACATACTATTGT
Found at i:880645 original size:64 final size:61
Alignment explanation
Indices: 880532--880658 Score: 200
Period size: 64 Copynumber: 2.0 Consensus size: 61
880522 CCCATACCAT
* *
880532 CGTTGTGGCCCTGTATAGCAATAATGAAGAATATTTTATAATAATAGAAATTCATGCAAAA
1 CGTTATGGCCCTGTATAGCAATAATGAAGAATATTTTATAATAATAGAAATCCATGCAAAA
*
880593 CGTTATGGCCCCTGTATAGCAATAATAGAAGAATTTTTTTATAATAATAGAAATCCATGCAAAA
1 CGTTATGG-CCCTGTATAGCAATAAT-GAAGAA-TATTTTATAATAATAGAAATCCATGCAAAA
880657 CG
1 CG
880659 CATGGAAGAG
Statistics
Matches: 60, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
61 7 0.12
62 17 0.28
63 6 0.10
64 30 0.50
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.31
Consensus pattern (61 bp):
CGTTATGGCCCTGTATAGCAATAATGAAGAATATTTTATAATAATAGAAATCCATGCAAAA
Found at i:881215 original size:20 final size:20
Alignment explanation
Indices: 881192--881229 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
881182 AAGAAGAGGA
881192 GAAGAAAGAAGAGAAAAGAT
1 GAAGAAAGAAGAGAAAAGAT
*
881212 GAAGAAATAAGAGAAAAG
1 GAAGAAAGAAGAGAAAAG
881230 CGAAAGAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.66, C:0.00, G:0.29, T:0.05
Consensus pattern (20 bp):
GAAGAAAGAAGAGAAAAGAT
Found at i:881236 original size:20 final size:20
Alignment explanation
Indices: 881192--881239 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
881182 AAGAAGAGGA
* *
881192 GAAGAAAGAAGAGAAAAGAT
1 GAAGAAATAAGAGAAAAGAC
881212 GAAGAAATAAGAGAAAAG-C
1 GAAGAAATAAGAGAAAAGAC
881231 GAAAGAAAT
1 G-AAGAAAT
881240 GAGAAGAAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 1 0.04
20 24 0.96
ACGTcount: A:0.65, C:0.02, G:0.27, T:0.06
Consensus pattern (20 bp):
GAAGAAATAAGAGAAAAGAC
Found at i:881415 original size:23 final size:23
Alignment explanation
Indices: 881391--881435 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
881381 TAAATATTTG
881391 TTAATTTTACGATTGTTGTTATGT
1 TTAATTTTACG-TTGTTGTTATGT
* *
881415 TTATTTTTATGTTGTTGTTAT
1 TTAATTTTACGTTGTTGTTAT
881436 ATATTATATC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.18, C:0.02, G:0.16, T:0.64
Consensus pattern (23 bp):
TTAATTTTACGTTGTTGTTATGT
Found at i:882477 original size:19 final size:19
Alignment explanation
Indices: 882450--882497 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
882440 ACAAAGCTTG
*
882450 GGTCATCACAAAGTACAAT
1 GGTCCTCACAAAGTACAAT
**
882469 GGTCCTCACACGGTACAAT
1 GGTCCTCACAAAGTACAAT
882488 GGTCCTCACA
1 GGTCCTCACA
882498 CATGTTTGCG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (19 bp):
GGTCCTCACAAAGTACAAT
Found at i:882498 original size:19 final size:19
Alignment explanation
Indices: 882462--882498 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
882452 TCATCACAAA
882462 GTACAATGGTCCTCACACG
1 GTACAATGGTCCTCACACG
882481 GTACAATGGTCCTCACAC
1 GTACAATGGTCCTCACAC
882499 ATGTTTGCGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.27, C:0.32, G:0.19, T:0.22
Consensus pattern (19 bp):
GTACAATGGTCCTCACACG
Found at i:884237 original size:14 final size:14
Alignment explanation
Indices: 884218--884244 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
884208 ACTTGATTTT
884218 ATAATAATTTATGC
1 ATAATAATTTATGC
884232 ATAATAATTTATG
1 ATAATAATTTATG
884245 TATATATATA
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:0.44, C:0.04, G:0.07, T:0.44
Consensus pattern (14 bp):
ATAATAATTTATGC
Found at i:887610 original size:23 final size:22
Alignment explanation
Indices: 887568--887672 Score: 81
Period size: 23 Copynumber: 4.7 Consensus size: 22
887558 AAAACCCATG
* *
887568 GGGGGTATCGATTCCC--TCAA
1 GGGGGAATCGGTTCCCATTCAA
* *
887588 GGAGGGAATTGGTTCCTATTCAAA
1 GG-GGGAATCGGTTCCCATTC-AA
887612 GGGGGAATCGGTTCCCATTCAAA
1 GGGGGAATCGGTTCCCATTC-AA
* *
887635 GGGAGAATCGGTTTCTC-TTCAA
1 GGGGGAATCGG-TTCCCATTCAA
* *
887657 GGGGGTATCGATTCCC
1 GGGGGAATCGGTTCCC
887673 TCTGCACTAA
Statistics
Matches: 68, Mismatches: 12, Indels: 9
0.76 0.13 0.10
Matches are distributed among these distances:
20 2 0.03
21 14 0.21
22 10 0.15
23 34 0.50
24 8 0.12
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (22 bp):
GGGGGAATCGGTTCCCATTCAA
Found at i:887666 original size:22 final size:23
Alignment explanation
Indices: 887586--887672 Score: 88
Period size: 23 Copynumber: 3.8 Consensus size: 23
887576 CGATTCCCTC
* *
887586 AAGGAGGGAATTGGTTCCTATTCA
1 AAGG-GGGAATCGGTTCCCATTCA
887610 AAGGGGGAATCGGTTCCCATTCA
1 AAGGGGGAATCGGTTCCCATTCA
* *
887633 AAGGGAGAATCGGTTTCTC-TTC-
1 AAGGGGGAATCGG-TTCCCATTCA
* *
887655 AAGGGGGTATCGATTCCC
1 AAGGGGGAATCGGTTCCC
887673 TCTGCACTAA
Statistics
Matches: 54, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
21 4 0.07
22 10 0.19
23 32 0.59
24 8 0.15
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.26
Consensus pattern (23 bp):
AAGGGGGAATCGGTTCCCATTCA
Found at i:894868 original size:20 final size:22
Alignment explanation
Indices: 894843--894888 Score: 69
Period size: 20 Copynumber: 2.2 Consensus size: 22
894833 TTTCTTTATA
894843 TTTTCTCTTATTT-TTC-CCTC
1 TTTTCTCTTATTTCTTCTCCTC
*
894863 TTTTCTCTTCTTTCTTCTCCTC
1 TTTTCTCTTATTTCTTCTCCTC
894885 TTTT
1 TTTT
894889 TTTCCATTCC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 12 0.52
21 3 0.13
22 8 0.35
ACGTcount: A:0.02, C:0.30, G:0.00, T:0.67
Consensus pattern (22 bp):
TTTTCTCTTATTTCTTCTCCTC
Found at i:895458 original size:29 final size:29
Alignment explanation
Indices: 895424--895486 Score: 74
Period size: 30 Copynumber: 2.2 Consensus size: 29
895414 CCTATTTCAC
* *
895424 GAAATAA-TCTGTCGAGTGCATTATTTGA
1 GAAATAATTCTGTCCACTGCATTATTTGA
* *
895452 GCAAATAATTTTTTCCACTGCATTATTTGA
1 G-AAATAATTCTGTCCACTGCATTATTTGA
895482 GAAAT
1 GAAAT
895487 TCAACCATTG
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
28 1 0.03
29 10 0.34
30 18 0.62
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.38
Consensus pattern (29 bp):
GAAATAATTCTGTCCACTGCATTATTTGA
Found at i:895910 original size:15 final size:15
Alignment explanation
Indices: 895890--895923 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
895880 AAATTAGATT
895890 AAATTAAAATAAATA
1 AAATTAAAATAAATA
* *
895905 AAATTATATTAAATA
1 AAATTAAAATAAATA
895920 AAAT
1 AAAT
895924 CCGAATCAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
AAATTAAAATAAATA
Found at i:896100 original size:17 final size:17
Alignment explanation
Indices: 896078--896118 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
896068 GACCAGATAA
896078 GAGTTGAATGTAGTAGG
1 GAGTTGAATGTAGTAGG
896095 GAGTTGAATGTAGTAGG
1 GAGTTGAATGTAGTAGG
896112 GAGTTGA
1 GAGTTGA
896119 CACCCCCTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.29, C:0.00, G:0.41, T:0.29
Consensus pattern (17 bp):
GAGTTGAATGTAGTAGG
Found at i:903319 original size:16 final size:17
Alignment explanation
Indices: 903291--903322 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
903281 CGTATTGCCG
903291 ACAAAATTTCACTATTC
1 ACAAAATTTCACTATTC
903308 ACAAAA-TTCACTATT
1 ACAAAATTTCACTATT
903323 TACGTGAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.44, C:0.22, G:0.00, T:0.34
Consensus pattern (17 bp):
ACAAAATTTCACTATTC
Found at i:905898 original size:2 final size:2
Alignment explanation
Indices: 905891--905920 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
905881 TATATCCAAT
905891 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
905921 ATTAAATATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:913657 original size:418 final size:417
Alignment explanation
Indices: 912874--913710 Score: 1539
Period size: 418 Copynumber: 2.0 Consensus size: 417
912864 CTTGCTCGCA
*
912874 TACACGCCAAGACTATAACTATTTTGTGGATCCCGTATACCTACTATATGAAGTTTTTAAGGTAT
1 TACACGCCAAGACTATAACTATTTTATGGATCCCGTATACCTACTATATGAAGTTTTTAAGGTAT
*
912939 ACAAATTTGAGTTTCCCCCATAGGTAATGGCAAAGACCCTGATGAGGTTCAAGATTGGCTTCCGA
66 ACAAATTTGAGTTTCCCCCATAGGTAATGACAAAGACCCTGATGAGGTTCAAGATTGGCTTCCGA
*
913004 TTGTACCAAATCTGAGTTTATTGAGGGAGCGTGGTCATCCAAAATCAAATCGAATTCATTGCGAT
131 TTGTACCAAATCTGAGTTTATTGAGGGAGCGTGGTCATCCAAAATCAAATCAAATTCATTGCGAT
*
913069 ATGGATATTCGAGAAAGATCTAGACAAGACAGAAGATGTGGGCATTGTAGAAACCCAGGACACAC
196 ATGGATATTCGAGAAAGATCTAGACAAGACAGAAGATGTGAGCATTGTAGAAACCCAGGACACAC
*
913134 TAGAAAAACATGTCCACTTCTGTTGTCATCAAGTAACAATTGATGAGGAAATGATTTAGTTGTTT
261 TAGAAAAACATGTCCACTTCTGTTGTCATCAAGTAACAATTGATGAGGAAATGATGTAGTTGTTT
* *
913199 ATCAAATAATAATTCTTGTATTTTGCTTTGCATTTACTTCAAGTTAATGTTATTCGATAACCGCT
326 ATCAAATAATAATTCTTGTACTTTACTTTGCATTTACTTCAAGTTAATGTTATTCGATAACCGCT
913264 GATGAAGATTAAAAAAAACGATACAAT
391 GATGAAGATTAAAAAAAACGATACAAT
* * * *
913291 TACACGTCAAGACTATAACTATTTTATGGATCCTGTATACCTACTGTCTGAAGTTTTTAAGGTAT
1 TACACGCCAAGACTATAACTATTTTATGGATCCCGTATACCTACTATATGAAGTTTTTAAGGTAT
*
913356 ACGAATTTGAGTTTCCCCCCATAGGTAATGACAAAGACCCTGATGAGGTTCAAGATTGGCTTCCG
66 ACAAATTTGAGTTT-CCCCCATAGGTAATGACAAAGACCCTGATGAGGTTCAAGATTGGCTTCCG
*
913421 ATTGTACCAAATCTGAGTTTATTGAGGGAGCGTGGTCATCCAAAATCCAATCAAATTCATTGCGA
130 ATTGTACCAAATCTGAGTTTATTGAGGGAGCGTGGTCATCCAAAATCAAATCAAATTCATTGCGA
913486 TATGGATATTCGAGAAAGATCTAGACAAGACAGAAGATGTGAGCATTGTAGAAACCCAGGACACA
195 TATGGATATTCGAGAAAGATCTAGACAAGACAGAAGATGTGAGCATTGTAGAAACCCAGGACACA
913551 CTAGAAAAACATGTCCACTTCTGTTGTCATCAAGTAACAATTGATGAGGAAATGATGTAGTTGTT
260 CTAGAAAAACATGTCCACTTCTGTTGTCATCAAGTAACAATTGATGAGGAAATGATGTAGTTGTT
913616 TATCAAATAATAATTCTTGTACTTTACTTTGCATTTACTTCAAGTTAATGTTATTCGATAACCGC
325 TATCAAATAATAATTCTTGTACTTTACTTTGCATTTACTTCAAGTTAATGTTATTCGATAACCGC
*
913681 TGATGAAGATTAAAAAAAATGATACAAT
390 TGATGAAGATTAAAAAAAACGATACAAT
913709 TA
1 TA
913711 TACGAGATTA
Statistics
Matches: 405, Mismatches: 14, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
417 73 0.18
418 332 0.82
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (417 bp):
TACACGCCAAGACTATAACTATTTTATGGATCCCGTATACCTACTATATGAAGTTTTTAAGGTAT
ACAAATTTGAGTTTCCCCCATAGGTAATGACAAAGACCCTGATGAGGTTCAAGATTGGCTTCCGA
TTGTACCAAATCTGAGTTTATTGAGGGAGCGTGGTCATCCAAAATCAAATCAAATTCATTGCGAT
ATGGATATTCGAGAAAGATCTAGACAAGACAGAAGATGTGAGCATTGTAGAAACCCAGGACACAC
TAGAAAAACATGTCCACTTCTGTTGTCATCAAGTAACAATTGATGAGGAAATGATGTAGTTGTTT
ATCAAATAATAATTCTTGTACTTTACTTTGCATTTACTTCAAGTTAATGTTATTCGATAACCGCT
GATGAAGATTAAAAAAAACGATACAAT
Found at i:913871 original size:13 final size:13
Alignment explanation
Indices: 913853--913900 Score: 62
Period size: 13 Copynumber: 3.8 Consensus size: 13
913843 ATAAATAATA
*
913853 AAAAAATTACAAT
1 AAAAAAGTACAAT
*
913866 AAAAAAGTCCAAT
1 AAAAAAGTACAAT
*
913879 AAACAAGTACAAT
1 AAAAAAGTACAAT
913892 -AAAAAGTAC
1 AAAAAAGTAC
913901 TAAATACAAG
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
12 8 0.27
13 22 0.73
ACGTcount: A:0.65, C:0.12, G:0.06, T:0.17
Consensus pattern (13 bp):
AAAAAAGTACAAT
Found at i:916137 original size:9 final size:8
Alignment explanation
Indices: 916084--916143 Score: 50
Period size: 9 Copynumber: 7.1 Consensus size: 8
916074 TATATCTGCA
916084 AAAAAATT
1 AAAAAATT
*
916092 AATTAAA-T
1 AA-AAAATT
*
916100 AAAATATT
1 AAAAAATT
*
916108 AAACAATT
1 AAAAAATT
916116 AAAATAATT
1 AAAA-AATT
916125 AAATAAATT
1 AAA-AAATT
916134 AAATAAATT
1 AAA-AAATT
916143 A
1 A
916144 CTAAAAAAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
7 2 0.05
8 15 0.36
9 24 0.57
10 1 0.02
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.32
Consensus pattern (8 bp):
AAAAAATT
Found at i:916789 original size:17 final size:18
Alignment explanation
Indices: 916750--916796 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
916740 TGTTTATGAG
916750 GGAATTGGAATCTGTGAA
1 GGAATTGGAATCTGTGAA
*
916768 GGAATTGGAATCTGT-TA
1 GGAATTGGAATCTGTGAA
916785 GGAATTGGAATC
1 GGAATTGGAATC
916797 CAATTCCATA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
17 13 0.46
18 15 0.54
ACGTcount: A:0.32, C:0.06, G:0.32, T:0.30
Consensus pattern (18 bp):
GGAATTGGAATCTGTGAA
Found at i:917611 original size:266 final size:255
Alignment explanation
Indices: 917112--917732 Score: 838
Period size: 266 Copynumber: 2.4 Consensus size: 255
917102 CTCCATCCAA
917112 GACCCGACCCGACCAAAATAAAGTTTCACCCA---ACCCGACCCGAATATATGAATTAGAAACCC
1 GACCCGACCCGA-CAAAATAAAGTTTCACCCACCTACCCGA-CC-AATATATGAATTAGAAACCC
**
917174 GACCCGACCCGAAATAATAAAAAAATTATTTTTATTCAATAAAAACAGTGACTTAATTGGGAAAA
63 GACCCGACCCGAAATAAT-AAAAAATTATTTTTATTCAATAAAAACAGTGACTTAATTGAAAAAA
*
917239 ATATATATAGAGAGGGGTATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATATATTTTT
127 ATATATATAGAGAGGGGTATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATATATTATT
* *
917304 TGGGTCGGGTCGGGTATTTTTCACCCTAAACCCGAACCCGACCCGAATATCAC-TTTAAAAAAAA
192 T--GTCGAGTCGGGTATTTTTCACCCTAAACCCGAACCCGACCCGAATATCACACTT-AAAAAAA
*
917368 CT
254 CC
917370 GACCCGACCCGACAAAATAAAGTTTCACCCGACCTGACCCGACTCAAATATATGAATTAGAAATC
1 GACCCGACCCGACAAAATAAAGTTTCACCC-ACCT-ACCCGAC-C-AATATATGAATTAG-AA--
917435 CGACCCGACCCGACCCGAAATAATAAAAAATTATTTTTATTCAATAAAAACAGTGACTTAATTGA
59 --ACCCGACCCGACCCGAAATAATAAAAAATTATTTTTATTCAATAAAAACAGTGACTTAATTGA
*
917500 AAAAAAT-TATATATAGAGGGGTATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATATA
122 AAAAAATATATATAGAGAGGGGTATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATATA
*
917564 -TATTT-TCGAGTCGGGTATTTTTCACCCTAAACTCGAACTTGACCCGACCCGAATATCACACTT
187 TTATTTGTCGAGTCGGGTATTTTTCACCCTAAACCCG-A----ACCCGACCCGAATATCACACTT
917627 AAAAAAACC
247 AAAAAAACC
*
917636 GACCCGA--C--CAAAATAAAGTTTCACCTAACCCTACCCG---AATATATGAATTAGAAACCCG
1 GACCCGACCCGACAAAATAAAGTTTCACC-CA-CCTACCCGACCAATATATGAATTAGAAACCCG
* *
917694 ATCCGACCCGAAATAATAAAAAAATATTTTTATTCAATA
64 ACCCGACCCGAAATAATAAAAAATTATTTTTATTCAATA
917733 TATAAATAAG
Statistics
Matches: 332, Mismatches: 12, Indels: 44
0.86 0.03 0.11
Matches are distributed among these distances:
252 42 0.13
256 2 0.01
257 32 0.10
258 13 0.04
261 29 0.09
262 45 0.14
263 5 0.02
264 5 0.02
265 56 0.17
266 79 0.24
267 24 0.07
ACGTcount: A:0.40, C:0.20, G:0.13, T:0.27
Consensus pattern (255 bp):
GACCCGACCCGACAAAATAAAGTTTCACCCACCTACCCGACCAATATATGAATTAGAAACCCGAC
CCGACCCGAAATAATAAAAAATTATTTTTATTCAATAAAAACAGTGACTTAATTGAAAAAAATAT
ATATAGAGAGGGGTATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATATATTATTTGTC
GAGTCGGGTATTTTTCACCCTAAACCCGAACCCGACCCGAATATCACACTTAAAAAAACC
Found at i:919756 original size:24 final size:24
Alignment explanation
Indices: 919710--919775 Score: 69
Period size: 24 Copynumber: 2.8 Consensus size: 24
919700 ACGGAGATAT
* * * *
919710 CAGAAACCAAAACAAAATTCAGAA
1 CAGAAATCATAACAGAATCCAGAA
* * *
919734 CATATATCATAACAGAATCCAGAT
1 CAGAAATCATAACAGAATCCAGAA
919758 CAGAAATCATAACAGAAT
1 CAGAAATCATAACAGAAT
919776 TTAGGTCATG
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.55, C:0.20, G:0.09, T:0.17
Consensus pattern (24 bp):
CAGAAATCATAACAGAATCCAGAA
Found at i:942823 original size:22 final size:22
Alignment explanation
Indices: 942795--942844 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
942785 AGCCACACAC
942795 GTTTTATTAACCTCAATATCAA
1 GTTTTATTAACCTCAATATCAA
*
942817 GTTTTATTAACCTTAATATCAA
1 GTTTTATTAACCTCAATATCAA
942839 GTTTTA
1 GTTTTA
942845 CATCAAGTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.34, C:0.14, G:0.06, T:0.46
Consensus pattern (22 bp):
GTTTTATTAACCTCAATATCAA
Found at i:944759 original size:34 final size:34
Alignment explanation
Indices: 944720--944787 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
944710 CAATCAGTTC
* *
944720 GGGTACTGGAATTTTGCTTGCGGTGACAATCATA
1 GGGTACTGGAATATTGCTTGAGGTGACAATCATA
*
944754 GGGTACTGGAGTATTGCTTGAGGTGACAATCATA
1 GGGTACTGGAATATTGCTTGAGGTGACAATCATA
944788 TACCAGTACT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.25, C:0.13, G:0.31, T:0.31
Consensus pattern (34 bp):
GGGTACTGGAATATTGCTTGAGGTGACAATCATA
Found at i:945734 original size:21 final size:22
Alignment explanation
Indices: 945710--945757 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
945700 ACTCTATGGC
* * *
945710 TTAAAATTA-AGATTTTAAGTT
1 TTAAAATTACAGAATCTAAATT
945731 TTAAAATTACAGAATCTAAATT
1 TTAAAATTACAGAATCTAAATT
945753 TTAAA
1 TTAAA
945758 TAATTTATGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 9 0.39
22 14 0.61
ACGTcount: A:0.48, C:0.04, G:0.06, T:0.42
Consensus pattern (22 bp):
TTAAAATTACAGAATCTAAATT
Found at i:945776 original size:16 final size:16
Alignment explanation
Indices: 945755--945785 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
945745 TCTAAATTTT
945755 AAATAATTTATGTATC
1 AAATAATTTATGTATC
945771 AAATAATTTATGTAT
1 AAATAATTTATGTAT
945786 ATATAACTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.45
Consensus pattern (16 bp):
AAATAATTTATGTATC
Found at i:948283 original size:33 final size:33
Alignment explanation
Indices: 948246--948322 Score: 145
Period size: 33 Copynumber: 2.3 Consensus size: 33
948236 ATATTGGGTT
*
948246 CTACCTAAAATGTTTAACATTTTTGGTAAATCG
1 CTACCTAAAATGTTTAACATTTTCGGTAAATCG
948279 CTACCTAAAATGTTTAACATTTTCGGTAAATCG
1 CTACCTAAAATGTTTAACATTTTCGGTAAATCG
948312 CTACCTAAAAT
1 CTACCTAAAAT
948323 ATTAATTTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.36
Consensus pattern (33 bp):
CTACCTAAAATGTTTAACATTTTCGGTAAATCG
Found at i:948604 original size:28 final size:28
Alignment explanation
Indices: 948573--948627 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
948563 TCCAAATATT
* *
948573 CTCATGTTTAATTCTA-TTAAAATTCGAA
1 CTCAGGTTTAATTCAAGTT-AAATTCGAA
*
948601 CTCAGGTTTGATTCAAGTTAAATTCGA
1 CTCAGGTTTAATTCAAGTTAAATTCGA
948628 GTTTGAACTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 21 0.91
29 2 0.09
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.40
Consensus pattern (28 bp):
CTCAGGTTTAATTCAAGTTAAATTCGAA
Found at i:949576 original size:20 final size:20
Alignment explanation
Indices: 949551--949592 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
949541 TGATTATGTT
949551 ATGAACTATGAATTTTAGTA
1 ATGAACTATGAATTTTAGTA
949571 ATGAACTATGAATTTTAGTA
1 ATGAACTATGAATTTTAGTA
949591 AT
1 AT
949593 CCCTCCGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.40, C:0.05, G:0.14, T:0.40
Consensus pattern (20 bp):
ATGAACTATGAATTTTAGTA
Found at i:952778 original size:4 final size:4
Alignment explanation
Indices: 952769--952793 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
952759 GTGGGAGATG
952769 AGGA AGGA AGGA AGGA AGGA AGGA A
1 AGGA AGGA AGGA AGGA AGGA AGGA A
952794 AAAGTTTCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (4 bp):
AGGA
Found at i:954455 original size:32 final size:31
Alignment explanation
Indices: 954383--954534 Score: 184
Period size: 32 Copynumber: 4.9 Consensus size: 31
954373 GAGTCAAGGG
* * * *
954383 TTACCTATGTTTTTCGAGACATATGGATAGT
1 TTACCTATGTATTTCGGGACATATGGACAGA
*
954414 TTACCTATGTCCTTT-GGGACATATGGACAGGA
1 TTACCTATGT-ATTTCGGGACATATGGACA-GA
954446 TTACCTATGTATTTCGGGACATATGGACAGGA
1 TTACCTATGTATTTCGGGACATATGGACA-GA
954478 TTACCTATGTATTTCGGGACATATGGACAG-
1 TTACCTATGTATTTCGGGACATATGGACAGA
* *
954508 TTACATATGT-TCTTCGGAACATATGGA
1 TTACCTATGTAT-TTCGGGACATATGGA
954535 TAGGTCATTC
Statistics
Matches: 110, Mismatches: 7, Indels: 9
0.87 0.06 0.07
Matches are distributed among these distances:
29 1 0.01
30 23 0.21
31 26 0.24
32 60 0.55
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (31 bp):
TTACCTATGTATTTCGGGACATATGGACAGA
Found at i:954864 original size:2 final size:2
Alignment explanation
Indices: 954857--954884 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
954847 GAAGATGATG
954857 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
954885 GTGTGTGTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:965924 original size:11 final size:11
Alignment explanation
Indices: 965896--965933 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
965886 AAGAGCAAAG
965896 AGAAAAATCAA
1 AGAAAAATCAA
965907 AGCAAAAATCAA
1 AG-AAAAATCAA
*
965919 AGAAAAAGCAA
1 AGAAAAATCAA
965930 AGAA
1 AGAA
965934 CAAAAGAGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 14 0.56
12 11 0.44
ACGTcount: A:0.71, C:0.11, G:0.13, T:0.05
Consensus pattern (11 bp):
AGAAAAATCAA
Found at i:967741 original size:154 final size:155
Alignment explanation
Indices: 967488--967770 Score: 410
Period size: 155 Copynumber: 1.8 Consensus size: 155
967478 TCTTTCAAAC
* * *
967488 AAATTTCGTCTCATTGAGACATTTTTCCTTTAAGATACAAAATTTGAATTTGTTTCACATTAAAC
1 AAATTGCGTCTCATTGAGACATTTTTCCTTTAAGATACAAAATTTGAATTTGATTCACATAAAAC
* * **
967553 AAAGTTGATCTCATTTTAGATCGTATTTATTTC-AAACAAATTTCGTCTCGCTTGAGACATTTTT
66 AAAATTAATCTCACCTTAGATCGTATTTATTTCAAAACAAATTTCGTCTCGCTTGAGACATTTTT
967617 CCACAAATTTTGAGAATTTTTAAAA
131 CCACAAATTTTGAGAATTTTTAAAA
* * *
967642 AAATTGCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTTGAATTTGATTCAC-TAAAA
1 AAATTGCGTCTC-ATTGAGACATTTTTCCTTTAAGATACAAAATTTGAATTTGATTCACATAAAA
* * *
967706 CAAAATTAATCTCACCTTAGATTGT-TGTTCTTTCAAAACAAATTTCGTCTCGCTTGAGACCTTT
65 CAAAATTAATCTCACCTTAGATCGTAT-TTATTTCAAAACAAATTTCGTCTCGCTTGAGACATTT
967770 T
129 T
967771 CCCTTTGAGA
Statistics
Matches: 113, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
153 1 0.01
154 41 0.36
155 71 0.63
ACGTcount: A:0.31, C:0.17, G:0.11, T:0.41
Consensus pattern (155 bp):
AAATTGCGTCTCATTGAGACATTTTTCCTTTAAGATACAAAATTTGAATTTGATTCACATAAAAC
AAAATTAATCTCACCTTAGATCGTATTTATTTCAAAACAAATTTCGTCTCGCTTGAGACATTTTT
CCACAAATTTTGAGAATTTTTAAAA
Found at i:967864 original size:36 final size:36
Alignment explanation
Indices: 967819--967903 Score: 102
Period size: 36 Copynumber: 2.4 Consensus size: 36
967809 ACAAAGTTGA
**
967819 TCTCACTTGAGATCGTTTTCTC-AAAAACAAACTTTG
1 TCTCACTTGAGA-CAATTTCTCTAAAAACAAACTTTG
* *
967855 TCTCGCTTGAGACAATTTCTCTAAAAACAAATTTTG
1 TCTCACTTGAGACAATTTCTCTAAAAACAAACTTTG
967891 TCTCA-TTCGAGAC
1 TCTCACTT-GAGAC
967904 TATATCTTAA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
35 9 0.21
36 33 0.79
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.35
Consensus pattern (36 bp):
TCTCACTTGAGACAATTTCTCTAAAAACAAACTTTG
Found at i:967936 original size:33 final size:36
Alignment explanation
Indices: 967837--967937 Score: 97
Period size: 36 Copynumber: 2.9 Consensus size: 36
967827 GAGATCGTTT
*
967837 TCTC-AAAAACAAACTTT-GTCTCGCTTGAGACAATT
1 TCTCTAAAAACAAA-TTTCGTCTCGCTTGAGACAATA
* * *
967872 TCTCTAAAAACAAATTTTGTCTC-ATTCGAGACTATA
1 TCTCTAAAAACAAATTTCGTCTCGCTT-GAGACAATA
*
967908 TCT-T-AAAGC-AATTTCGTCTCGCTTGAGACA
1 TCTCTAAAAACAAATTTCGTCTCGCTTGAGACA
967938 TCATTTTCTC
Statistics
Matches: 55, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
33 15 0.27
34 6 0.11
35 10 0.18
36 24 0.44
ACGTcount: A:0.33, C:0.22, G:0.12, T:0.34
Consensus pattern (36 bp):
TCTCTAAAAACAAATTTCGTCTCGCTTGAGACAATA
Found at i:968227 original size:29 final size:27
Alignment explanation
Indices: 968182--968306 Score: 139
Period size: 28 Copynumber: 4.5 Consensus size: 27
968172 TCTTTTGAGG
968182 AAAAATC-TTGAG-TTGTTCCTCTTGAAA
1 AAAAATCTTTGAGTTTGTTCCT-TTG-AA
968209 AAAAATCTTTGAGTTTGTTCCTTTTGAA
1 AAAAATCTTTGAGTTTGTTCC-TTTGAA
* *
968237 TAAAATCTTGGAGTTTGTTCCTTTGGAA
1 AAAAATCTTTGAGTTTGTTCCTTT-GAA
* *
968265 TAAAAATCTGTGAG-TTGTTTCGTTTGAA
1 -AAAAATCTTTGAGTTTG-TTCCTTTGAA
968293 AAAAATCTTTGAGT
1 AAAAATCTTTGAGT
968307 CTATTTACTT
Statistics
Matches: 84, Mismatches: 7, Indels: 13
0.81 0.07 0.12
Matches are distributed among these distances:
27 22 0.26
28 35 0.42
29 26 0.31
30 1 0.01
ACGTcount: A:0.30, C:0.10, G:0.18, T:0.42
Consensus pattern (27 bp):
AAAAATCTTTGAGTTTGTTCCTTTGAA
Found at i:968270 original size:57 final size:55
Alignment explanation
Indices: 968182--968306 Score: 155
Period size: 56 Copynumber: 2.2 Consensus size: 55
968172 TCTTTTGAGG
* *
968182 AAAAATCTTGAG-TTGTTCCTCTTGAAAAAAAATCTTTGAGTTTGTTCCTTTTGAA
1 AAAAATCTTGAGTTTGTTCCTCTTGAAAAAAAATCTGTGAG-TTGTTCCGTTTGAA
* * *
968237 TAAAATCTTGGAGTTTGTTCCT-TTGGAATAAAAATCTGTGAGTTGTTTCGTTTGAA
1 AAAAATCTT-GAGTTTGTTCCTCTT-GAAAAAAAATCTGTGAGTTGTTCCGTTTGAA
968293 AAAAATCTTTGAGT
1 AAAAATC-TTGAGT
968307 CTATTTACTT
Statistics
Matches: 60, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
55 8 0.13
56 27 0.45
57 25 0.42
ACGTcount: A:0.30, C:0.10, G:0.18, T:0.42
Consensus pattern (55 bp):
AAAAATCTTGAGTTTGTTCCTCTTGAAAAAAAATCTGTGAGTTGTTCCGTTTGAA
Found at i:968419 original size:28 final size:28
Alignment explanation
Indices: 968348--968639 Score: 111
Period size: 28 Copynumber: 9.7 Consensus size: 28
968338 TTGAGACAAT
968348 TTTGTGAAA-AAAATCTTTGAGATTGTTTC
1 TTTG-GAAACAAAATCTTTGAG-TTGTTTC
*
968377 TTTTGAAACAAAAATCTTTGAGTTGTTTC
1 TTTGGAAAC-AAAATCTTTGAGTTGTTTC
**
968406 TTTGGAAACAAAAT-TTTGTCTCTCTTAAGATAATTC
1 TTTGGAAACAAAATCTTTG----AGTT--G-T--TTC
*
968442 TTTTGAAACAAAATC-TTGAGTTTGTTTTGTTCC
1 TTTGGAAACAAAATCTTTGAG-TTG---T-TT-C
*
968475 TTTGGAATA-AAAATCTGTGAGTTGTTTC
1 TTTGGAA-ACAAAATCTTTGAGTTGTTTC
*
968503 GTTT-GAAA-AAAATCTTTGAGTCTATTTAC
1 -TTTGGAAACAAAATCTTTGAGT-TGTTT-C
* ** * *
968532 TTT-GAAACAAAGT-TTTGTCTCTCTTGAGAC
1 TTTGGAAACAAAATCTTTGAGT-TGTT---TC
968562 AATTTTGTGAAA-AAAATCTTTGAGATTGTTTC
1 ---TTTG-GAAACAAAATCTTTGAG-TTGTTTC
*
968594 TTTTGAAACAAAAATCTTTGAGTT-TTTC
1 TTTGGAAAC-AAAATCTTTGAGTTGTTTC
968622 TTTGGAAACAAAAT-TTTG
1 TTTGGAAACAAAATCTTTG
968640 TCTCTCTTAA
Statistics
Matches: 204, Mismatches: 25, Indels: 71
0.68 0.08 0.24
Matches are distributed among these distances:
26 4 0.02
27 22 0.11
28 49 0.24
29 33 0.16
30 26 0.13
31 3 0.01
32 3 0.01
33 23 0.11
34 10 0.05
35 11 0.05
36 20 0.10
ACGTcount: A:0.31, C:0.10, G:0.15, T:0.43
Consensus pattern (28 bp):
TTTGGAAACAAAATCTTTGAGTTGTTTC
Found at i:968429 original size:92 final size:88
Alignment explanation
Indices: 968258--968520 Score: 262
Period size: 97 Copynumber: 2.8 Consensus size: 88
968248 AGTTTGTTCC
* * *
968258 TTTG-GAATAAAAATCTGTGAGTTGTTTCGTTTGAAAAAAATCTTTGAGTCTATTTACTTTGAAA
1 TTTGTGAA-AAAAATCTTTGAGTTGTTTCCTTTGAAAAAAATCTTTGAGT-TGTTT-CTTTGAAA
* *
968322 CAAAGTTTTGTCTCTCTTGAGACAAT
63 CAAAATTTTGTCTCTCTTAAGACAAT
*
968348 TTTGTGAAAAAAATCTTTGAGATTGTTTCTTTTGAAACAAAAATCTTTGAGTTGTTTCTTTGGAA
1 TTTGTGAAAAAAATCTTTGAG-TTGTTTCCTTTG-AA-AAAAATCTTTGAGTTGTTTCTTT-GAA
*
968413 ACAAAATTTTGTCTCTCTTAAGATAAT
62 ACAAAATTTTGTCTCTCTTAAGACAAT
* *
968440 TCTTTTGAAACAAAATC-TTGAGTTTGTTTTGTTCCTTTGGAATAAAAATCTGTGAGTTGTTTCG
1 T-TTGTGAAA-AAAATCTTTGAG-TTG---T-TTCCTTT-GAA-AAAAATCTTTGAGTTGTTTC-
968504 TTTGAAA-AAAATCTTTG
56 TTTGAAACAAAAT-TTTG
968521 AGTCTATTTA
Statistics
Matches: 148, Mismatches: 11, Indels: 21
0.82 0.06 0.12
Matches are distributed among these distances:
90 16 0.11
91 18 0.12
92 34 0.23
93 29 0.20
94 6 0.04
96 6 0.04
97 35 0.24
98 4 0.03
ACGTcount: A:0.31, C:0.10, G:0.16, T:0.43
Consensus pattern (88 bp):
TTTGTGAAAAAAATCTTTGAGTTGTTTCCTTTGAAAAAAATCTTTGAGTTGTTTCTTTGAAACAA
AATTTTGTCTCTCTTAAGACAAT
Found at i:968554 original size:125 final size:126
Alignment explanation
Indices: 968348--968592 Score: 331
Period size: 125 Copynumber: 2.0 Consensus size: 126
968338 TTGAGACAAT
* * *
968348 TTTGTGAAAAAAATCTTTGAGATTGTTTCTTTTGAAACAAAAATCTTTGAGTTGTTTCTTTGGAA
1 TTTGTGAAAAAAATCTGTGAGATTGTTTCGTTTGAAACAAAAATCTTTGAGTTATTTCTTTGGAA
* * *
968413 ACAAAATTTTGTCTCTCTTAAGATAATTCTTTTGAAACAAAATC-TTGAGTTTGTTTTGTTCC
66 ACAAAATTTTGTCTCTCTTAAGACAATT-TTGTGAAA-AAAATCTTTGAGATTGTTTTGTTCC
968475 TTTG-GAATAAAAATCTGTGAG-TTGTTTCGTTTG-AA-AAAAATCTTTGAGTCTATTTACTTT-
1 TTTGTGAA-AAAAATCTGTGAGATTGTTTCGTTTGAAACAAAAATCTTTGAGT-TATTT-CTTTG
* *
968535 GAAACAAAGTTTTGTCTCTCTTGAGACAATTTTGTGAAAAAAATCTTTGAGATTGTTT
63 GAAACAAAATTTTGTCTCTCTTAAGACAATTTTGTGAAAAAAATCTTTGAGATTGTTT
968593 CTTTTGAAAC
Statistics
Matches: 106, Mismatches: 8, Indels: 11
0.85 0.06 0.09
Matches are distributed among these distances:
123 6 0.06
124 32 0.30
125 34 0.32
126 18 0.17
127 16 0.15
ACGTcount: A:0.31, C:0.10, G:0.16, T:0.44
Consensus pattern (126 bp):
TTTGTGAAAAAAATCTGTGAGATTGTTTCGTTTGAAACAAAAATCTTTGAGTTATTTCTTTGGAA
ACAAAATTTTGTCTCTCTTAAGACAATTTTGTGAAAAAAATCTTTGAGATTGTTTTGTTCC
Found at i:968630 original size:91 final size:94
Alignment explanation
Indices: 968475--968700 Score: 272
Period size: 91 Copynumber: 2.4 Consensus size: 94
968465 GTTTTGTTCC
* * *
968475 TTTG-GAATAAAAATCTGTGAGTTGTTTCGTTTG-AA-AAAAATCTTTGAGTCTATTTACTTTGA
1 TTTGTGAACAAAAATCTTTGAGTTGTTTCTTTTGAAACAAAAATCTTTGAGTCTATTTACTTTGA
* *
968537 AACAAAGTTTTGTCTCTCTTGAGACAA-T
66 AACAAAATTTTGTCTCTCTTAAGACAATT
968565 TTTGTGAA-AAAAATCTTTGAGATTGTTTCTTTTGAAACAAAAATCTTTGAGT-T-TTT-CTTTG
1 TTTGTGAACAAAAATCTTTGAG-TTGTTTCTTTTGAAACAAAAATCTTTGAGTCTATTTACTTT-
*
968626 GAAACAAAATTTTGTCTCTCTTAAGATAATT
64 GAAACAAAATTTTGTCTCTCTTAAGACAATT
* *
968657 TCTTTTGAAACAAAAATC-TTGAGTTTGTTTCTTTGGAAACAAAA
1 T-TTGTG-AACAAAAATCTTTGAG-TTGTTTCTTTTGAAACAAAA
968701 TTTTGTCTCT
Statistics
Matches: 119, Mismatches: 8, Indels: 14
0.84 0.06 0.10
Matches are distributed among these distances:
90 20 0.17
91 43 0.36
92 5 0.04
93 18 0.15
94 26 0.22
95 7 0.06
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.42
Consensus pattern (94 bp):
TTTGTGAACAAAAATCTTTGAGTTGTTTCTTTTGAAACAAAAATCTTTGAGTCTATTTACTTTGA
AACAAAATTTTGTCTCTCTTAAGACAATT
Found at i:968662 original size:217 final size:218
Alignment explanation
Indices: 968250--968686 Score: 851
Period size: 217 Copynumber: 2.0 Consensus size: 218
968240 AATCTTGGAG
968250 TTTGTTCCTTTGGAATAAAAATCTGTGAGTTGTTTCGTTTGAAAAAAATCTTTGAGTCTATTTAC
1 TTTGTTCCTTTGGAATAAAAATCTGTGAGTTGTTTCGTTTGAAAAAAATCTTTGAGTCTATTTAC
968315 TTTGAAACAAAGTTTTGTCTCTCTTGAGACAATTTTGTGAAAAAAATCTTTGAGATTGTTTCTTT
66 TTTGAAACAAAGTTTTGTCTCTCTTGAGACAATTTTGTGAAAAAAATCTTTGAGATTGTTTCTTT
968380 TGAAACAAAAATCTTTGAGTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAATTCTTT
131 TGAAACAAAAATCTTTGAGTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAATTCTTT
968445 TGAAAC-AAAATCTTGAGTTTGT
196 TGAAACAAAAATCTTGAGTTTGT
968467 TTTGTTCCTTTGGAATAAAAATCTGTGAGTTGTTTCGTTTGAAAAAAATCTTTGAGTCTATTTAC
1 TTTGTTCCTTTGGAATAAAAATCTGTGAGTTGTTTCGTTTGAAAAAAATCTTTGAGTCTATTTAC
968532 TTTGAAACAAAGTTTTGTCTCTCTTGAGACAATTTTGTGAAAAAAATCTTTGAGATTGTTTCTTT
66 TTTGAAACAAAGTTTTGTCTCTCTTGAGACAATTTTGTGAAAAAAATCTTTGAGATTGTTTCTTT
968597 TGAAACAAAAATCTTTGAGTT-TTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAATTTCTT
131 TGAAACAAAAATCTTTGAGTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAA-TTCTT
968661 TTGAAACAAAAATCTTGAGTTTGT
195 TTGAAACAAAAATCTTGAGTTTGT
968685 TT
1 TT
968687 CTTTGGAAAC
Statistics
Matches: 218, Mismatches: 0, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
216 37 0.17
217 163 0.75
218 18 0.08
ACGTcount: A:0.30, C:0.11, G:0.15, T:0.44
Consensus pattern (218 bp):
TTTGTTCCTTTGGAATAAAAATCTGTGAGTTGTTTCGTTTGAAAAAAATCTTTGAGTCTATTTAC
TTTGAAACAAAGTTTTGTCTCTCTTGAGACAATTTTGTGAAAAAAATCTTTGAGATTGTTTCTTT
TGAAACAAAAATCTTTGAGTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAATTCTTT
TGAAACAAAAATCTTGAGTTTGT
Found at i:968783 original size:67 final size:67
Alignment explanation
Indices: 968590--968820 Score: 409
Period size: 66 Copynumber: 3.5 Consensus size: 67
968580 TTTGAGATTG
968590 TTTCTTTTGAAACAAAAATCTTTGAG-TT-TTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT
1 TTTCTTTTGAAACAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT
968653 AA
66 AA
968655 TTTCTTTTGAAACAAAAATC-TTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT
1 TTTCTTTTGAAACAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT
968719 AA
66 AA
968721 TTTCTTTTGAAACAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT
1 TTTCTTTTGAAACAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT
968786 AA
66 AA
* *
968788 TTTCTTTTG-AA-AAAAATCTTTGAATCTGTTTCT
1 TTTCTTTTGAAACAAAAATCTTTGAGTTTGTTTCT
968821 CTTAAAATGA
Statistics
Matches: 161, Mismatches: 2, Indels: 6
0.95 0.01 0.04
Matches are distributed among these distances:
64 5 0.03
65 42 0.26
66 59 0.37
67 55 0.34
ACGTcount: A:0.31, C:0.12, G:0.11, T:0.45
Consensus pattern (67 bp):
TTTCTTTTGAAACAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT
AA
Found at i:968835 original size:131 final size:130
Alignment explanation
Indices: 968590--968862 Score: 392
Period size: 131 Copynumber: 2.1 Consensus size: 130
968580 TTTGAGATTG
968590 TTTCTTTTGAAACAAAAATCTTTGAGTTTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAA
1 TTTCTTTTGAAACAAAAATCTTTGAGTTTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAA
* * * *
968655 TTTCTTTTGAAACAAAAATCTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATA
66 TTTCTTTTGAAACAAAAATCTTGAATCTGTTTCTTT-GAAACAAAATTTTGTATCTCTTAAGACA
968720 A
130 A
968721 TTTCTTTTGAAACAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT
1 TTTCTTTTGAAACAAAAATCTTTGAG-TT-TTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT
* *
968786 AATTTCTTTTG-AA-AAAAATCTTTGAATCTGTTTCTCTT-AAA-ATGAATTTTGTATCTCTTGA
64 AATTTCTTTTGAAACAAAAATC-TTGAATCTGTTTCT-TTGAAACA-AAATTTTGTATCTCTTAA
**
968847 GACCG
126 GACAA
968852 TTTCTTTTGAA
1 TTTCTTTTGAA
968863 GTAAATCTTT
Statistics
Matches: 129, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
130 1 0.01
131 64 0.50
132 16 0.12
133 48 0.37
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.45
Consensus pattern (130 bp):
TTTCTTTTGAAACAAAAATCTTTGAGTTTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAA
TTTCTTTTGAAACAAAAATCTTGAATCTGTTTCTTTGAAACAAAATTTTGTATCTCTTAAGACAA
Found at i:968856 original size:64 final size:64
Alignment explanation
Indices: 968590--968881 Score: 288
Period size: 66 Copynumber: 4.5 Consensus size: 64
968580 TTTGAGATTG
* * *
968590 TTTCTTTTGAAACAAAAATCTTTGAGT-T-TTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT
1 TTTCTTTTG-AA-AAAAATCTTTGAATATGTTTCTTT-GAAACAAAATTTTGTATCTCTTAAGAC
968653 AA
63 AA
* * * *
968655 TTTCTTTTGAAACAAAAATC-TTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT
1 TTTCTTTTG-AA-AAAAATCTTTGAATATGTTTCTTT-GAAACAAAATTTTGTATCTCTTAAGAC
968719 AA
63 AA
* * * *
968721 TTTCTTTTGAAACAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT
1 TTTCTTTTG-AA-AAAAATCTTTGAATATGTTTCTTT-GAAACAAAATTTTGTATCTCTTAAGAC
968786 AA
63 AA
* * * *
968788 TTTCTTTTGAAAAAAATCTTTGAATCTGTTTCTCTT-AAA-ATGAATTTTGTATCTCTTGAGACC
1 TTTCTTTTGAAAAAAATCTTTGAATATGTTTCT-TTGAAACA-AAATTTTGTATCTCTTAAGACA
*
968851 G
64 A
**
968852 TTTCTTTTGAAGTAAATCTTTGAATATGTT
1 TTTCTTTTGAAAAAAATCTTTGAATATGTT
968882 CATTTTGAAA
Statistics
Matches: 211, Mismatches: 11, Indels: 11
0.91 0.05 0.05
Matches are distributed among these distances:
63 1 0.00
64 53 0.25
65 41 0.19
66 61 0.29
67 55 0.26
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.46
Consensus pattern (64 bp):
TTTCTTTTGAAAAAAATCTTTGAATATGTTTCTTTGAAACAAAATTTTGTATCTCTTAAGACAA
Found at i:969473 original size:27 final size:28
Alignment explanation
Indices: 969443--969523 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
969433 GAAACACATT
969443 ATCTTTGAG-CTTGTTT-TCTTGAAACAA
1 ATCTTTGAGTC-TGTTTCTCTTGAAACAA
*
969470 ATCTTTGAGTCTGTTTCTTTTGAAACAA
1 ATCTTTGAGTCTGTTTCTCTTGAAACAA
* *
969498 ATCTTT-AATTTGGTTTCTCTTGAAAC
1 ATCTTTGAGTCT-GTTTCTCTTGAAAC
969524 CATAACTCCT
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
27 17 0.36
28 30 0.64
ACGTcount: A:0.25, C:0.15, G:0.14, T:0.47
Consensus pattern (28 bp):
ATCTTTGAGTCTGTTTCTCTTGAAACAA
Found at i:969501 original size:28 final size:28
Alignment explanation
Indices: 969428--969503 Score: 93
Period size: 28 Copynumber: 2.6 Consensus size: 28
969418 GAGACAGTTG
969428 CTTTTGAAACACATTATCTTTGAGCTTGTTT
1 CTTTTGAAACA-A--ATCTTTGAGCTTGTTT
*
969459 -TCTTGAAACAAATCTTTGAG-TCTGTTT
1 CTTTTGAAACAAATCTTTGAGCT-TGTTT
969486 CTTTTGAAACAAATCTTT
1 CTTTTGAAACAAATCTTT
969504 AATTTGGTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
26 1 0.02
27 14 0.34
28 16 0.39
29 1 0.02
30 9 0.22
ACGTcount: A:0.26, C:0.16, G:0.12, T:0.46
Consensus pattern (28 bp):
CTTTTGAAACAAATCTTTGAGCTTGTTT
Found at i:969610 original size:40 final size:40
Alignment explanation
Indices: 969552--969741 Score: 159
Period size: 40 Copynumber: 4.5 Consensus size: 40
969542 CCAGCCGTCC
* * *
969552 TCATCATGTAGGAACCGTGTCATCCCCAGACCAGATCTCT
1 TCATCACGTATGAGCCGTGTCATCCCCAGACCAGATCTCT
* ** * *
969592 TCATCACGTATGAGCCGTGTCAACCATAGAAACCAG-CCGTCC
1 TCATCACGTATGAGCCGTGTCATCCCCAG--ACCAGATC-TCT
* * * * *
969634 TCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
1 TCATCACGTATGAGCCGTGTCATC-CC--CAGA---CCAGATCTCT
969680 TCATCACGTATGAGCCGTGTCATTCCCC-GACCAGATCTCT
1 TCATCACGTATGAGCCGTGTCA-TCCCCAGACCAGATCTCT
969720 TCATCACGTATGAGCCGTGTCA
1 TCATCACGTATGAGCCGTGTCA
969742 ACCATAGATA
Statistics
Matches: 119, Mismatches: 20, Indels: 22
0.74 0.12 0.14
Matches are distributed among these distances:
40 54 0.45
41 1 0.01
42 27 0.23
43 4 0.03
45 3 0.03
46 27 0.23
47 3 0.03
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (40 bp):
TCATCACGTATGAGCCGTGTCATCCCCAGACCAGATCTCT
Found at i:969699 original size:88 final size:82
Alignment explanation
Indices: 969542--969701 Score: 230
Period size: 82 Copynumber: 1.9 Consensus size: 82
969532 CTAAAGATGG
* *
969542 CCAGCCGTCCTCATCATGTAGGAACCGTGTCATCCCCAGACCAGATCTCTTCATCACGTATGAGC
1 CCAGCCGTCCTCATCACGTAGGAACCGTGTCATCCCCAGACCAGAACTCTTCATCACGTATGAGC
969607 CGTGTCAACCATAGAAA
66 CGTGTCAACCATAGAAA
* *
969624 CCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCATCACGT
1 CCAGCCGTCCTCATCACGTAGGAACCGTGTCATC-CC--CAGA---CCAGAACTCTTCATCACGT
969689 ATGAGCCGTGTCA
60 ATGAGCCGTGTCA
969702 TTCCCCGACC
Statistics
Matches: 68, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
82 32 0.47
83 2 0.03
85 3 0.04
88 31 0.46
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (82 bp):
CCAGCCGTCCTCATCACGTAGGAACCGTGTCATCCCCAGACCAGAACTCTTCATCACGTATGAGC
CGTGTCAACCATAGAAA
Found at i:969897 original size:130 final size:129
Alignment explanation
Indices: 969568--969902 Score: 428
Period size: 130 Copynumber: 2.6 Consensus size: 129
969558 TGTAGGAACC
* * *
969568 GTGTCA-TCCCCAGACCAGATCTCTTCATCACGTATGAGCCGTGTCAACCATAGA-AACCAGCCG
1 GTGTCATTCCCC-GACCAGATCTCCTCATCACGTAGGAACCGTGTCAACCATAGACAACCAGCCG
* * **
969631 TCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCATCACGTATGAGCC
65 TCCTCATCACGTAGGAACCGTGTTATCACCTTAAGATGGCCAGAACTCTTCATCACGTAGGAGAA
* * * *
969696 GTGTCATTCCCCGACCAGATCTCTTCATCACGTATGAGCCGTGTCAACCATAGATAACCAGCCGT
1 GTGTCATTCCCCGACCAGATCTCCTCATCACGTAGGAACCGTGTCAACCATAGACAACCAGCCGT
969761 CCTCATCACGTAGGAACCGTGTTATCACCTTAAGATGGCCACGAACTCTTCATCACGTAGGAGAA
66 CCTCATCACGTAGGAACCGTGTTATCACCTTAAGATGGCCA-GAACTCTTCATCACGTAGGAGAA
* * * * * *
969826 GTGTCA-TCCCTCGACCATATTTCCTCATCATGTAGGAACCTTGTC-ACCTTTAGACGACCAGAC
1 GTGTCATTCCC-CGACCAGATCTCCTCATCACGTAGGAACCGTGTCAACC-ATAGACAACCAG-C
*
969889 C-TCTTCATCACGTA
63 CGTCCTCATCACGTA
969903 TGAGCAGTGT
Statistics
Matches: 186, Mismatches: 15, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
128 48 0.26
129 62 0.33
130 74 0.40
131 2 0.01
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.25
Consensus pattern (129 bp):
GTGTCATTCCCCGACCAGATCTCCTCATCACGTAGGAACCGTGTCAACCATAGACAACCAGCCGT
CCTCATCACGTAGGAACCGTGTTATCACCTTAAGATGGCCAGAACTCTTCATCACGTAGGAGAA
Found at i:969912 original size:83 final size:85
Alignment explanation
Indices: 969760--969918 Score: 205
Period size: 83 Copynumber: 1.9 Consensus size: 85
969750 TAACCAGCCG
* *
969760 TCCTCATCACGTAGGAACCGTGTTATCACCTTAAGATGGCCACGAACTCTTCATCACGTAGGAGA
1 TCCTCATCACGTAGGAACC--GTTATCACCTTAAGACGACCACGAACTCTTCATCACGTAGGAGA
969825 AGTGTCATCCCTCGACCATATT
64 AGTGTCATCCCTCGACCATATT
* * * * * *
969847 TCCTCATCATGTAGGAACC-TTGTCACCTTTAGACGACCA-GACCTCTTCATCACGTATGAGCAG
1 TCCTCATCACGTAGGAACCGTTATCACCTTAAGACGACCACGAACTCTTCATCACGTAGGAGAAG
*
969910 TGTCGTCCC
66 TGTCATCCC
969919 CACCAACAAA
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
83 29 0.46
84 16 0.25
87 18 0.29
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (85 bp):
TCCTCATCACGTAGGAACCGTTATCACCTTAAGACGACCACGAACTCTTCATCACGTAGGAGAAG
TGTCATCCCTCGACCATATT
Found at i:970081 original size:3 final size:3
Alignment explanation
Indices: 970070--970136 Score: 68
Period size: 3 Copynumber: 23.0 Consensus size: 3
970060 GTTTTTTTCG
** * *
970070 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TCG TCA -TC TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
970116 TT- TTA TTA TTA TTTA TTA TTA
1 TTA TTA TTA TTA -TTA TTA TTA
970137 CAAATTTTTG
Statistics
Matches: 54, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
2 4 0.07
3 47 0.87
4 3 0.06
ACGTcount: A:0.28, C:0.04, G:0.01, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:971396 original size:14 final size:13
Alignment explanation
Indices: 971367--971393 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
971357 TATTAATGTA
971367 TGTTATGTCATTT
1 TGTTATGTCATTT
971380 TGTTATGTCATTT
1 TGTTATGTCATTT
971393 T
1 T
971394 TGTGGATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.07, G:0.15, T:0.63
Consensus pattern (13 bp):
TGTTATGTCATTT
Found at i:975079 original size:25 final size:25
Alignment explanation
Indices: 975045--975095 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
975035 GATTTTGGCA
975045 TTGAAAGCATCGTCAAGAAATATTT
1 TTGAAAGCATCGTCAAGAAATATTT
975070 TTGAAAGCATCGTCAAGAAATATTT
1 TTGAAAGCATCGTCAAGAAATATTT
975095 T
1 T
975096 GGGGCTTCAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.33
Consensus pattern (25 bp):
TTGAAAGCATCGTCAAGAAATATTT
Found at i:977007 original size:24 final size:26
Alignment explanation
Indices: 976973--977027 Score: 96
Period size: 25 Copynumber: 2.2 Consensus size: 26
976963 ATATAATCAT
976973 TGATTGCATCAA-CCAAAATAGGCCA
1 TGATTGCATCAACCCAAAATAGGCCA
976998 TGATT-CATCAACCCAAAATAGGCCA
1 TGATTGCATCAACCCAAAATAGGCCA
977023 TGATT
1 TGATT
977028 ATTGTTGTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
24 6 0.21
25 23 0.79
ACGTcount: A:0.38, C:0.24, G:0.15, T:0.24
Consensus pattern (26 bp):
TGATTGCATCAACCCAAAATAGGCCA
Found at i:979324 original size:54 final size:54
Alignment explanation
Indices: 979165--979391 Score: 241
Period size: 54 Copynumber: 4.3 Consensus size: 54
979155 CGATAGATGG
* * ** * * *
979165 CGTGCCCACGCCATAACTGAATATTTCTTCTGCGAAAGATGTGGGTGAATAA--
1 CGTGCCCACGCCTTAACTGAAGATTTCTTCTGCGTTAGCTCTGGATGAATAAGC
* * * * * *
979217 -GTTCCCACGCCTTAAGT-AGAGA-TTCTTTTGCAG-TAGCTCGGGATGGATCAGC
1 CGTGCCCACGCCTTAACTGA-AGATTTCTTCTGC-GTTAGCTCTGGATGAATAAGC
*
979269 CGTGCCCACGCCTTAACTGAAGATTTCTTCTGCGTTAGCTCCGGATGAATAAGC
1 CGTGCCCACGCCTTAACTGAAGATTTCTTCTGCGTTAGCTCTGGATGAATAAGC
* * *
979323 CGTGCCCAAGCCTTAACTGAAGACTTCTTCTGCGTTAGCTTTGGATGAATAAGC
1 CGTGCCCACGCCTTAACTGAAGATTTCTTCTGCGTTAGCTCTGGATGAATAAGC
979377 CGTGCCCACGCCTTA
1 CGTGCCCACGCCTTA
979392 TGCGAACGCC
Statistics
Matches: 144, Mismatches: 23, Indels: 14
0.80 0.13 0.08
Matches are distributed among these distances:
50 19 0.13
51 17 0.12
53 19 0.13
54 89 0.62
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (54 bp):
CGTGCCCACGCCTTAACTGAAGATTTCTTCTGCGTTAGCTCTGGATGAATAAGC
Found at i:980973 original size:20 final size:20
Alignment explanation
Indices: 980948--980985 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
980938 TTGATAAAAC
*
980948 TCTACCGGTTTTATTATTTT
1 TCTACCGATTTTATTATTTT
*
980968 TCTACCGATTTTGTTATT
1 TCTACCGATTTTATTATT
980986 ATTGGGTACT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.16, C:0.16, G:0.11, T:0.58
Consensus pattern (20 bp):
TCTACCGATTTTATTATTTT
Found at i:989183 original size:2 final size:2
Alignment explanation
Indices: 989176--989205 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
989166 TATCGTAAAT
989176 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
989206 AGCAATCCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1002621 original size:91 final size:91
Alignment explanation
Indices: 1002526--1002693 Score: 309
Period size: 91 Copynumber: 1.8 Consensus size: 91
1002516 AAAAAGTGAC
* *
1002526 CACTTGGCGTAGTATCAATTTTAATCTTTTAAATATATAGATTTTATAGATTTTCAATATATAAT
1 CACTTGGCATAGTATCAATTTTAATCTTTTAAATATATAAATTTTATAGATTTTCAATATATAAT
1002591 AATTTAATAAATGAAAAAAGTGGCTT
66 AATTTAATAAATGAAAAAAGTGGCTT
*
1002617 CACTTGGTATAGTATCAATTTTAATCTTTTAAATATATAAATTTTATAGATTTTCAATATATAAT
1 CACTTGGCATAGTATCAATTTTAATCTTTTAAATATATAAATTTTATAGATTTTCAATATATAAT
1002682 AATTTAATAAAT
66 AATTTAATAAAT
1002694 TTAACTATTA
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
91 74 1.00
ACGTcount: A:0.40, C:0.07, G:0.08, T:0.44
Consensus pattern (91 bp):
CACTTGGCATAGTATCAATTTTAATCTTTTAAATATATAAATTTTATAGATTTTCAATATATAAT
AATTTAATAAATGAAAAAAGTGGCTT
Found at i:1002685 original size:26 final size:24
Alignment explanation
Indices: 1002643--1002695 Score: 61
Period size: 26 Copynumber: 2.1 Consensus size: 24
1002633 AATTTTAATC
* *
1002643 TTTTAAATATATAAATTTTATAGA
1 TTTTAAATATATAAATTTAATAAA
*
1002667 TTTTCAATATATAATAATTTAATAAA
1 TTTTAAATATAT-A-AATTTAATAAA
1002693 TTT
1 TTT
1002696 AACTATTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 11 0.46
25 1 0.04
26 12 0.50
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (24 bp):
TTTTAAATATATAAATTTAATAAA
Found at i:1023384 original size:18 final size:17
Alignment explanation
Indices: 1023361--1023407 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 17
1023351 AGGGTCTTAA
* *
1023361 ATTTATATAATATATTAT
1 ATTTATATAA-AAATAAT
1023379 ATTTATATAAAAATAAT
1 ATTTATATAAAAATAAT
1023396 AGTTTATATAAA
1 A-TTTATATAAA
1023408 TTATAGGGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 6 0.23
18 20 0.77
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (17 bp):
ATTTATATAAAAATAAT
Found at i:1023448 original size:32 final size:30
Alignment explanation
Indices: 1023407--1023539 Score: 110
Period size: 32 Copynumber: 4.3 Consensus size: 30
1023397 GTTTATATAA
1023407 ATTA-TAGGGTTTAATTATTTTTTAATATTT
1 ATTATTAGGGTTTAA-TATTTTTTAATATTT
* * *
1023437 ATTATTGAGGGTCTAATTTTATTTTAATTTTT
1 ATTATT-AGGGTTTAATATT-TTTTAATATTT
**
1023469 ATTATTATAGTTACTAATATTTTTTTAATATTT
1 ATTATTAGGGTT--TAATA-TTTTTTAATATTT
* * *
1023502 ATTTTTAAAGG-TTCA-ATTTTTTAATATTT
1 ATTATT-AGGGTTTAATATTTTTTAATATTT
1023531 ATTATTAGG
1 ATTATTAGG
1023540 AGTACAATTT
Statistics
Matches: 82, Mismatches: 14, Indels: 16
0.73 0.12 0.14
Matches are distributed among these distances:
28 2 0.02
29 18 0.22
30 5 0.06
31 9 0.11
32 24 0.29
33 20 0.24
34 4 0.05
ACGTcount: A:0.30, C:0.02, G:0.09, T:0.59
Consensus pattern (30 bp):
ATTATTAGGGTTTAATATTTTTTAATATTT
Found at i:1023495 original size:33 final size:31
Alignment explanation
Indices: 1023418--1023536 Score: 111
Period size: 32 Copynumber: 3.8 Consensus size: 31
1023408 TTATAGGGTT
*
1023418 TAATTATTTTTTAATATTTATTATTGAGGGTC
1 TAATT-TTTTTTAATATTTATTATTGAAGGTC
* *
1023450 TAATTTTATTTTAATTTTTATTATT-ATAGTTAC
1 TAATTTT-TTTTAATATTTATTATTGA-AGGT-C
* *
1023483 TAATATTTTTTTAATATTTATTTTTAAAGGT-
1 TAAT-TTTTTTTAATATTTATTATTGAAGGTC
1023514 TCAA--TTTTTTAATATTTATTATT
1 T-AATTTTTTTTAATATTTATTATT
1023537 AGGAGTACAA
Statistics
Matches: 74, Mismatches: 7, Indels: 15
0.77 0.07 0.16
Matches are distributed among these distances:
29 18 0.24
31 4 0.05
32 25 0.34
33 23 0.31
34 4 0.05
ACGTcount: A:0.30, C:0.03, G:0.06, T:0.61
Consensus pattern (31 bp):
TAATTTTTTTTAATATTTATTATTGAAGGTC
Found at i:1023552 original size:30 final size:31
Alignment explanation
Indices: 1023424--1023570 Score: 110
Period size: 29 Copynumber: 4.7 Consensus size: 31
1023414 GGTTTAATTA
1023424 TTTTTTAATATTTATTATTGAGG-GT-CTAATT
1 TTTTTTAATATTTATTATT-AGGAGTACTAA-T
* *
1023455 TTATTTTAATTTTTATTATTA-TAGTTACTAATAT
1 TT-TTTTAATATTTATTATTAGGAG-TACT-A-AT
* * *
1023489 TTTTTTAATATTTATTTTTA-AAGGTTC-AA-
1 TTTTTTAATATTTATTATTAGGA-GTACTAAT
1023518 TTTTTTAATATTTATTATTAGGAGTAC-AAT
1 TTTTTTAATATTTATTATTAGGAGTACTAAT
** *
1023548 TTTTTCGATATTTGTTATTAGGA
1 TTTTTTAATATTTATTATTAGGA
1023571 ACATATTTCT
Statistics
Matches: 95, Mismatches: 12, Indels: 19
0.75 0.10 0.15
Matches are distributed among these distances:
29 24 0.25
30 22 0.23
31 5 0.05
32 17 0.18
33 21 0.22
34 5 0.05
35 1 0.01
ACGTcount: A:0.29, C:0.03, G:0.10, T:0.58
Consensus pattern (31 bp):
TTTTTTAATATTTATTATTAGGAGTACTAAT
Found at i:1028205 original size:29 final size:29
Alignment explanation
Indices: 1028165--1028223 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
1028155 GGGATAATGA
*
1028165 TTTCAAAAGAAACCGACTCAAAGATGATG
1 TTTCAAAAGAAACAGACTCAAAGATGATG
* *
1028194 TTTCAAAGGAAACATACTCAAAGATGATG
1 TTTCAAAAGAAACAGACTCAAAGATGATG
1028223 T
1 T
1028224 GTTTTAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.44, C:0.15, G:0.17, T:0.24
Consensus pattern (29 bp):
TTTCAAAAGAAACAGACTCAAAGATGATG
Found at i:1028908 original size:16 final size:16
Alignment explanation
Indices: 1028887--1028917 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1028877 TGTAACATGT
*
1028887 ATGTATGTGTTGATGC
1 ATGTATGTATTGATGC
1028903 ATGTATGTATTGATG
1 ATGTATGTATTGATG
1028918 TATTGATGTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.03, G:0.29, T:0.45
Consensus pattern (16 bp):
ATGTATGTATTGATGC
Found at i:1034790 original size:2 final size:2
Alignment explanation
Indices: 1034783--1034836 Score: 90
Period size: 2 Copynumber: 27.0 Consensus size: 2
1034773 TGTATTGTAT
*
1034783 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TC
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
1034825 TA TA TC TA TA TA
1 TA TA TA TA TA TA
1034837 CTTACACGTA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1037017 original size:29 final size:29
Alignment explanation
Indices: 1036977--1037035 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
1036967 GGGATAATGA
*
1036977 TTTCAAAAGAAACCGACTCAAAGATGATG
1 TTTCAAAAGAAACAGACTCAAAGATGATG
* *
1037006 TTTCAAAGGAAACATACTCAAAGATGATG
1 TTTCAAAAGAAACAGACTCAAAGATGATG
1037035 T
1 T
1037036 GTTTTAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.44, C:0.15, G:0.17, T:0.24
Consensus pattern (29 bp):
TTTCAAAAGAAACAGACTCAAAGATGATG
Found at i:1037721 original size:16 final size:16
Alignment explanation
Indices: 1037700--1037730 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1037690 TGTAACATGT
*
1037700 ATGTATGTGTTGATGC
1 ATGTATGTATTGATGC
1037716 ATGTATGTATTGATG
1 ATGTATGTATTGATG
1037731 TATTGATGTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.03, G:0.29, T:0.45
Consensus pattern (16 bp):
ATGTATGTATTGATGC
Found at i:1043380 original size:2 final size:2
Alignment explanation
Indices: 1043373--1043415 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
1043363 TGTATTGTAT
*
1043373 TA TA TA TA TA TA TA TC TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1043415 T
1 T
1043416 CTATCTATAC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1045452 original size:29 final size:29
Alignment explanation
Indices: 1045412--1045470 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
1045402 GGGATAATGA
*
1045412 TTTCAAAAGAAACCGACTCAAAGATGATG
1 TTTCAAAAGAAACAGACTCAAAGATGATG
* *
1045441 TTTCAAAGGAAACATACTCAAAGATGATG
1 TTTCAAAAGAAACAGACTCAAAGATGATG
1045470 T
1 T
1045471 GTTTTAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.44, C:0.15, G:0.17, T:0.24
Consensus pattern (29 bp):
TTTCAAAAGAAACAGACTCAAAGATGATG
Found at i:1051086 original size:16 final size:18
Alignment explanation
Indices: 1051065--1051103 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
1051055 AAATGTCTTT
1051065 AAAAACA-ATTTTAAGA-
1 AAAAACATATTTTAAGAC
*
1051081 AAAAACATTTTTTAAGAC
1 AAAAACATATTTTAAGAC
1051099 AAAAA
1 AAAAA
1051104 TAGCATGCGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 7 0.35
17 8 0.40
18 5 0.25
ACGTcount: A:0.62, C:0.08, G:0.05, T:0.26
Consensus pattern (18 bp):
AAAAACATATTTTAAGAC
Found at i:1052056 original size:176 final size:181
Alignment explanation
Indices: 1051845--1052197 Score: 630
Period size: 180 Copynumber: 2.0 Consensus size: 181
1051835 TATATATAAC
1051845 ATGATATATTAATTTTAATGTTAATAAACAATGG-AA-ATCTAATTAATATGCAAAGAACTCACA
1 ATGATATATTAATTTTAATGTTAATAAACAATGGAAATATCTAATTAATATGCAAAGAACTCACA
1051908 CACAATATTCAATAATGTAATATAAA-ATAAATATGCCATAATATTAGTTCATAAAAAAAACAAA
66 CACAATATTCAATAATGTAATATAAAGATAAATATGCCATAATATTAGTTCATAAAAAAAACAAA
1051972 GATGAAGTAAATAAAATAAAAT-AAATACAACATAAAA-AT-AATAAACAACA
131 GATGAAGTAAATAAAATAAAATAAAATA-AA-ATAAAACATAAATAAACAACA
1052022 ATGATATATTAA-TTTAATGTTAATAAACAATGGAAATATCTAATTAATATGCAAAGAACTCACA
1 ATGATATATTAATTTTAATGTTAATAAACAATGGAAATATCTAATTAATATGCAAAGAACTCACA
1052086 CACAATATTCAATAATGTAATATAAAGTATAAATATGCCATAATATTAGTTCATAAAAAAAACAA
66 CACAATATTCAATAATGTAATATAAAG-ATAAATATGCCATAATATTAGTTCATAAAAAAAACAA
1052151 AGATGAAGTAAATAAAATAAAATAAAATAAAATAAAACATAAATAAA
130 AGATGAAGTAAATAAAATAAAATAAAATAAAATAAAACATAAATAAA
1052198 TAAACTCAAC
Statistics
Matches: 169, Mismatches: 0, Indels: 10
0.94 0.00 0.06
Matches are distributed among these distances:
176 21 0.12
177 14 0.08
178 53 0.31
179 6 0.04
180 64 0.38
181 11 0.07
ACGTcount: A:0.57, C:0.09, G:0.07, T:0.27
Consensus pattern (181 bp):
ATGATATATTAATTTTAATGTTAATAAACAATGGAAATATCTAATTAATATGCAAAGAACTCACA
CACAATATTCAATAATGTAATATAAAGATAAATATGCCATAATATTAGTTCATAAAAAAAACAAA
GATGAAGTAAATAAAATAAAATAAAATAAAATAAAACATAAATAAACAACA
Found at i:1052170 original size:5 final size:5
Alignment explanation
Indices: 1052160--1052201 Score: 59
Period size: 5 Copynumber: 8.4 Consensus size: 5
1052150 AAGATGAAGT
*
1052160 AAATA AAATA AAATA AAATA AAATA AAACA TAAAT- AAATA AA
1 AAATA AAATA AAATA AAATA AAATA AAATA -AAATA AAATA AA
1052202 CTCAACACAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
4 4 0.12
5 26 0.79
6 3 0.09
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:1061651 original size:156 final size:157
Alignment explanation
Indices: 1061366--1061682 Score: 609
Period size: 156 Copynumber: 2.0 Consensus size: 157
1061356 TTCAGAAGGC
*
1061366 TAAAAGTCAAACTAAGTAATTTGAACTCAGAAGCACTCATTCGGTCGGAGGTTTTTTCTTCTCTG
1 TAAAAGTCAAACTAAGTAATTTGAACTCAGAAGCACTCATTCGGTCAGAGGTTTTTTCTTCTCTG
1061431 TGATTCAAGCAGCATTCATTTTAAAGGAAACTGAAATCTATCATTACTTTCACGTAAACCTGTTG
66 TGATTCAAGCAGCATTCATTTTAAAGGAAACTGAAATCTATCATTACTTTCACGTAAACCTGTTG
1061496 CAAATTGACCTTATAAAACTTGGCATT
131 CAAATTGACCTTATAAAACTTGGCATT
1061523 TAAAAGTCAAACTAAGTAATTTGAACTCAGAAGCACTCATTCGGTCAGAGG-TTTTTCTTCTCTG
1 TAAAAGTCAAACTAAGTAATTTGAACTCAGAAGCACTCATTCGGTCAGAGGTTTTTTCTTCTCTG
*
1061587 TGATTCAAGCAGCATTCATTTTAAAGGAAACTGAAATCTATCATTACTTTCGCGTAAACCTGTTG
66 TGATTCAAGCAGCATTCATTTTAAAGGAAACTGAAATCTATCATTACTTTCACGTAAACCTGTTG
1061652 CAAATTGACCTTATAAAACTTGGCATT
131 CAAATTGACCTTATAAAACTTGGCATT
1061679 TAAA
1 TAAA
1061683 GATATTTTAT
Statistics
Matches: 158, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
156 108 0.68
157 50 0.32
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.33
Consensus pattern (157 bp):
TAAAAGTCAAACTAAGTAATTTGAACTCAGAAGCACTCATTCGGTCAGAGGTTTTTTCTTCTCTG
TGATTCAAGCAGCATTCATTTTAAAGGAAACTGAAATCTATCATTACTTTCACGTAAACCTGTTG
CAAATTGACCTTATAAAACTTGGCATT
Found at i:1066279 original size:16 final size:18
Alignment explanation
Indices: 1066247--1066280 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1066237 ACACAAAAAT
1066247 GTTAAAGATACAACCTAA
1 GTTAAAGATACAACCTAA
1066265 GTTAAAGA-A-AACCTAA
1 GTTAAAGATACAACCTAA
1066281 AGAAGATAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 1 0.06
18 8 0.50
ACGTcount: A:0.53, C:0.15, G:0.12, T:0.21
Consensus pattern (18 bp):
GTTAAAGATACAACCTAA
Found at i:1077506 original size:31 final size:31
Alignment explanation
Indices: 1077468--1077536 Score: 111
Period size: 31 Copynumber: 2.2 Consensus size: 31
1077458 CAAATGACTG
* *
1077468 AAACTTAATAAAATAATAATGTAAGTGACCA
1 AAACTTAATAAAACAATAACGTAAGTGACCA
*
1077499 AAACTTAATAAAACAATAACGTAAGTGGCCA
1 AAACTTAATAAAACAATAACGTAAGTGACCA
1077530 AAACTTA
1 AAACTTA
1077537 TGTTTTTTGA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.54, C:0.13, G:0.10, T:0.23
Consensus pattern (31 bp):
AAACTTAATAAAACAATAACGTAAGTGACCA
Found at i:1077884 original size:16 final size:16
Alignment explanation
Indices: 1077863--1077893 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
1077853 TATTATTATT
1077863 TATTGATTTAAAATGC
1 TATTGATTTAAAATGC
1077879 TATTGATTTAAAATG
1 TATTGATTTAAAATG
1077894 AAAAAAAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.03, G:0.13, T:0.45
Consensus pattern (16 bp):
TATTGATTTAAAATGC
Found at i:1084539 original size:2 final size:2
Alignment explanation
Indices: 1084532--1084567 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
1084522 TGTTGTTCAA
1084532 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1084568 TTATTTATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1094183 original size:12 final size:12
Alignment explanation
Indices: 1094162--1094212 Score: 61
Period size: 12 Copynumber: 4.2 Consensus size: 12
1094152 ATTACGTATT
1094162 TATT-TTATGTA
1 TATTATTATGTA
1094173 TATTATTATGTA
1 TATTATTATGTA
1094185 T-TTATTTTATGTA
1 TATTA--TTATGTA
*
1094198 TATTATTATATA
1 TATTATTATGTA
1094210 TAT
1 TAT
1094213 ACTTTATTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
11 7 0.20
12 17 0.49
13 8 0.23
14 3 0.09
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (12 bp):
TATTATTATGTA
Found at i:1094206 original size:25 final size:25
Alignment explanation
Indices: 1094141--1094224 Score: 107
Period size: 25 Copynumber: 3.4 Consensus size: 25
1094131 TACCATTAAG
* *
1094141 TATGTTTATGTATTACGTATTTATTT
1 TATGTATAT-TATTATGTATTTATTT
1094167 TATGTATATTATTATGTATTTATTT
1 TATGTATATTATTATGTATTTATTT
* * *
1094192 TATGTATATTATTATATATATACTT
1 TATGTATATTATTATGTATTTATTT
1094217 TAT-TATAT
1 TATGTATAT
1094225 ATTTATATAA
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
24 5 0.09
25 40 0.75
26 8 0.15
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.61
Consensus pattern (25 bp):
TATGTATATTATTATGTATTTATTT
Found at i:1094219 original size:30 final size:25
Alignment explanation
Indices: 1094158--1094233 Score: 102
Period size: 25 Copynumber: 3.1 Consensus size: 25
1094148 ATGTATTACG
*
1094158 TATTTATTTTATGTATATTATTATG
1 TATTTATTTTATGTATATTATTATA
1094183 TATTTATTTTATGTATATTATTATA
1 TATTTATTTTATGTATATTATTATA
* *
1094208 TATATACTTTAT-TATA-TATTTATA
1 TATTTATTTTATGTATATTA-TTATA
1094232 TA
1 TA
1094234 ATACTACATA
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
23 2 0.04
24 11 0.23
25 34 0.72
ACGTcount: A:0.33, C:0.01, G:0.04, T:0.62
Consensus pattern (25 bp):
TATTTATTTTATGTATATTATTATA
Done.