Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009174.1 Hibiscus syriacus cultivar Beakdansim tig00112737_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: 1358226
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 7
Found at i:470069 original size:2 final size:2
Alignment explanation
Indices: 470062--470090 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
470052 ACATTACAAA
470062 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
470091 CAAAAGAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:470560 original size:24 final size:24
Alignment explanation
Indices: 470533--470588 Score: 87
Period size: 24 Copynumber: 2.3 Consensus size: 24
470523 CACCAAACTG
470533 CCACGTAG-AGTTTGTCCCGAAGGA
1 CCACGTAGAAG-TTGTCCCGAAGGA
*
470557 CCACGTAGAAGTTGTCCCTAAGGA
1 CCACGTAGAAGTTGTCCCGAAGGA
470581 CCACGTAG
1 CCACGTAG
470589 GAATATCTCG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 28 0.93
25 2 0.07
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.20
Consensus pattern (24 bp):
CCACGTAGAAGTTGTCCCGAAGGA
Found at i:471222 original size:48 final size:48
Alignment explanation
Indices: 471151--471248 Score: 178
Period size: 48 Copynumber: 2.0 Consensus size: 48
471141 GTAGTATCGA
471151 TACTACCTCAAGGGTACCGATACTTCCCTTGGTTGGTATCGATACATG
1 TACTACCTCAAGGGTACCGATACTTCCCTTGGTTGGTATCGATACATG
* *
471199 TACTACCTCAAGGGTACCGATACTTCCCTTGGTTGGTATTGATACCTG
1 TACTACCTCAAGGGTACCGATACTTCCCTTGGTTGGTATCGATACATG
471247 TA
1 TA
471249 TATTGCATTC
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.33
Consensus pattern (48 bp):
TACTACCTCAAGGGTACCGATACTTCCCTTGGTTGGTATCGATACATG
Found at i:473334 original size:24 final size:24
Alignment explanation
Indices: 473315--473368 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
473305 GGAACCAATG
**
473315 AGGGAACCAAAGAGAAAACCGGCA
1 AGGGAACCAAAGAGAAAACCAACA
*
473339 AGGGAACCAAAGAGGAAACCAACGA
1 AGGGAACCAAAGAGAAAACCAAC-A
473364 AGGGA
1 AGGGA
473369 CCGGCGAGGG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 20 0.77
25 6 0.23
ACGTcount: A:0.50, C:0.19, G:0.31, T:0.00
Consensus pattern (24 bp):
AGGGAACCAAAGAGAAAACCAACA
Found at i:474489 original size:3 final size:3
Alignment explanation
Indices: 474473--474540 Score: 50
Period size: 3 Copynumber: 23.0 Consensus size: 3
474463 TTTGTTCATG
* * * * *
474473 ATT ATT ATC GTT ATT ATT ATT AAT AAT -TT ATT ATT ATT ATT ATT GTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
474520 AATT A-T AAT ATT ATT AGT ATT
1 -ATT ATT ATT ATT ATT ATT ATT
474541 TTCATATTAC
Statistics
Matches: 51, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
2 3 0.06
3 46 0.90
4 2 0.04
ACGTcount: A:0.35, C:0.01, G:0.04, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:474768 original size:3 final size:3
Alignment explanation
Indices: 474762--474809 Score: 64
Period size: 3 Copynumber: 16.7 Consensus size: 3
474752 ATAATAATAA
* *
474762 TAT TAT TAT TA- TAT TAC TAT TAT TAT TA- TAT TAA TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
474808 TA
1 TA
474810 CAACCCAATT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
2 4 0.10
3 35 0.90
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:474784 original size:17 final size:17
Alignment explanation
Indices: 474759--474807 Score: 89
Period size: 17 Copynumber: 2.9 Consensus size: 17
474749 TATATAATAA
474759 TAATATTATTATTATAT
1 TAATATTATTATTATAT
*
474776 TACTATTATTATTATAT
1 TAATATTATTATTATAT
474793 TAATATTATTATTAT
1 TAATATTATTATTAT
474808 TACAACCCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (17 bp):
TAATATTATTATTATAT
Found at i:481995 original size:73 final size:70
Alignment explanation
Indices: 481916--482084 Score: 171
Period size: 74 Copynumber: 2.3 Consensus size: 70
481906 TACCCTATTC
* * * *
481916 AAAAAGGGTACATATCTCAACACATAGCAAAAAG-ACAAGAATGTGACCCGTCAAGAAGAAGATG
1 AAAAAGGGCACATATCTCAA-ACATAGCAAAAAGTA-AAG-ATGCGACCAGTCAAGAA-AAGATC
*
481980 ATCACATTT
62 ACCACATTT
* * *
481989 AAAAAGGGGCACATATCCCAGTACATAGTAAAAAGTAAAGATGCGACCAGTCAAGAAAAGATCAC
1 AAAAA-GGGCACATATCTCA-AACATAGCAAAAAGTAAAGATGCGACCAGTCAAGAAAAGATCAC
*
482054 CTCATTT
64 CACATTT
*
482061 -GAAAGAGGCACATATCTCAAACAT
1 AAAAAG-GGCACATATCTCAAACAT
482085 TTCTGTCAGA
Statistics
Matches: 80, Mismatches: 12, Indels: 11
0.78 0.12 0.11
Matches are distributed among these distances:
70 5 0.06
71 15 0.19
72 12 0.15
73 20 0.25
74 27 0.34
75 1 0.01
ACGTcount: A:0.46, C:0.19, G:0.18, T:0.18
Consensus pattern (70 bp):
AAAAAGGGCACATATCTCAAACATAGCAAAAAGTAAAGATGCGACCAGTCAAGAAAAGATCACCA
CATTT
Found at i:482015 original size:74 final size:71
Alignment explanation
Indices: 481937--482076 Score: 165
Period size: 73 Copynumber: 1.9 Consensus size: 71
481927 ATATCTCAAC
* * * * *
481937 ACATAGCAAAAAG-ACAAGAATGTGACCCGTCAAGAAGAAGATGATCACATTTAAAAAGGGGCAC
1 ACATAGCAAAAAGTA-AAG-ATGCGACCAGTCAAGAA-AAGATCACCACATTT-AAAAGAGGCAC
482001 ATATCCCAGT
62 ATATCCCAGT
* * *
482011 ACATAGTAAAAAGTAAAGATGCGACCAGTCAAGAAAAGATCACCTCATTTGAAAGAGGCACATAT
1 ACATAGCAAAAAGTAAAGATGCGACCAGTCAAGAAAAGATCACCACATTTAAAAGAGGCACATAT
482076 C
66 C
482077 TCAAACATTT
Statistics
Matches: 57, Mismatches: 8, Indels: 5
0.81 0.11 0.07
Matches are distributed among these distances:
71 14 0.25
72 12 0.21
73 15 0.26
74 15 0.26
75 1 0.02
ACGTcount: A:0.45, C:0.19, G:0.19, T:0.17
Consensus pattern (71 bp):
ACATAGCAAAAAGTAAAGATGCGACCAGTCAAGAAAAGATCACCACATTTAAAAGAGGCACATAT
CCCAGT
Found at i:483971 original size:20 final size:20
Alignment explanation
Indices: 483928--483982 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
483918 TTCTAGAAAA
* **
483928 TAAAATCCTCCGGGTGATTTG
1 TAAAA-CCTCCGGGTCATCCG
483949 TAAAACCTCCGGGTCATCCG
1 TAAAACCTCCGGGTCATCCG
* *
483969 TAAAGCCTCAGGGT
1 TAAAACCTCCGGGT
483983 AGGATGTTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 24 0.83
21 5 0.17
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.25
Consensus pattern (20 bp):
TAAAACCTCCGGGTCATCCG
Found at i:484004 original size:119 final size:119
Alignment explanation
Indices: 483825--484111 Score: 457
Period size: 119 Copynumber: 2.4 Consensus size: 119
483815 TTTCCCACAA
* * * * * *
483825 ATTTGTAAATCCTCTAGGCCATCTGTAAAACCTCAGGGTATGATGTTTTTGCATGAAAATGAGAA
1 ATTTGTAAAACCTCTGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAAAA
483890 AGCGATTTTCAAAGTTTCTCATTTAATGTTCTAGAAAATAAAATCCTCCGGGTG
66 AGCGATTTTCAAAGTTTCTCATTTAATGTTCTAGAAAATAAAATCCTCCGGGTG
* * *
483944 ATTTGTAAAACCTCCGGGTCATCCGTAAAGCCTCAGGGTAGGATGTTTTCGCATGAAAATGAAAA
1 ATTTGTAAAACCTCTGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAAAA
*
484009 AGCGATTTTCAAAGTTTCTCATTTAATGTTCTAGAAAATCAAATCCTCCGGGTG
66 AGCGATTTTCAAAGTTTCTCATTTAATGTTCTAGAAAATAAAATCCTCCGGGTG
* * *
484063 ATCTGTAAAACTTCTGGGTCATCTGTAAAACCACAGGGTAGGATGTTTT
1 ATTTGTAAAACCTCTGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTT
484112 TTATTTTTGA
Statistics
Matches: 152, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
119 152 1.00
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (119 bp):
ATTTGTAAAACCTCTGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAAAA
AGCGATTTTCAAAGTTTCTCATTTAATGTTCTAGAAAATAAAATCCTCCGGGTG
Found at i:484101 original size:20 final size:20
Alignment explanation
Indices: 484058--484101 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
484048 CAAATCCTCC
* ** *
484058 GGGTGATCTGTAAAACTTCT
1 GGGTCATCTGTAAAACCACA
484078 GGGTCATCTGTAAAACCACA
1 GGGTCATCTGTAAAACCACA
484098 GGGT
1 GGGT
484102 AGGATGTTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.27
Consensus pattern (20 bp):
GGGTCATCTGTAAAACCACA
Found at i:484265 original size:3 final size:3
Alignment explanation
Indices: 484259--484362 Score: 160
Period size: 3 Copynumber: 35.7 Consensus size: 3
484249 ATAATAATAA
* *
484259 TAT TAT TAT TAT TAT TGT TAT TGT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
484307 TAT TAT TAT TA- TAC TAT TAT TAT TAT TAT TA- TAT TA- TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
484352 TAT TAT TAT TA
1 TAT TAT TAT TA
484363 CCAATAATAC
Statistics
Matches: 93, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
2 6 0.06
3 87 0.94
ACGTcount: A:0.33, C:0.01, G:0.02, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:488589 original size:16 final size:16
Alignment explanation
Indices: 488554--488595 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
488544 AACACCAAAC
*
488554 TTTAATATCATTAATT
1 TTTAATATTATTAATT
488570 TTTAATATTATT-ATT
1 TTTAATATTATTAATT
488585 ATTTAA-ATTAT
1 -TTTAATATTAT
488596 ACTTTTAGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 8 0.33
16 16 0.67
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (16 bp):
TTTAATATTATTAATT
Found at i:490683 original size:67 final size:67
Alignment explanation
Indices: 490575--490818 Score: 350
Period size: 67 Copynumber: 3.7 Consensus size: 67
490565 GATTGTCTGT
* * **
490575 AACCTTAGAGATTGTTTCTCTTGAAACAAAGTTTTGTCTCGCTTGAAATAGCTTCTCTTGAAACA
1 AACCTTTGAGATTGTTTCTCTTGAAACAAAGTTTTGTCTCGCTTGAAACATTTTCTCTTGAAACA
490640 TA
66 TA
* * * *
490642 AACCTTTGAGATTGTTTCTCTTTAAATAAAGTTTTGTCTCGCTTGAGACATTTTCTCTTGAAACG
1 AACCTTTGAGATTGTTTCTCTTGAAACAAAGTTTTGTCTCGCTTGAAACATTTTCTCTTGAAACA
490707 TA
66 TA
*
490709 AACCTTTGAGATT-TCTTCTCTTGAAACAAAGTTTTGTCTCGCTTGACACATTTTCTCTTGAAAC
1 AACCTTTGAGATTGT-TTCTCTTGAAACAAAGTTTTGTCTCGCTTGAAACATTTTCTCTTGAAAC
490773 ATA
65 ATA
* * *
490776 AACCTTTTAGATTATTTCTCTTGAAATAAAG--TTGTCTCGCTTG
1 AACCTTTGAGATTGTTTCTCTTGAAACAAAGTTTTGTCTCGCTTG
490819 CGGGAGTAAA
Statistics
Matches: 161, Mismatches: 14, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
65 12 0.07
66 1 0.01
67 147 0.91
68 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.41
Consensus pattern (67 bp):
AACCTTTGAGATTGTTTCTCTTGAAACAAAGTTTTGTCTCGCTTGAAACATTTTCTCTTGAAACA
TA
Found at i:491207 original size:67 final size:66
Alignment explanation
Indices: 491099--491298 Score: 231
Period size: 67 Copynumber: 3.0 Consensus size: 66
491089 AGCGTATGGG
* * *
491099 CAGTTTCTCTTTAAACATAAACCTTTGAGATCGTTTCTCTTGAAACAAAGTTTTGTCTCGCTTGA
1 CAGTTTCTCTTGAAACA-AAACCTTTGAGATTGTTTCTCTTGAAACAAAGTTTTGTCTCACTTGA
491164 GA
65 GA
*
491166 CAGTTTCTCTTGAAACACAAACCTTTGAGATTGTTTCTCTTGAAACAAAGTTTTGTCTCATTTGA
1 CAGTTTCTCTTGAAACA-AAACCTTTGAGATTGTTTCTCTTGAAACAAAGTTTTGTCTCACTTGA
491231 GA
65 GA
* * * ** * * * * **
491233 CGGTTTTCCCTCGAAACAAAAATTTTGAAATTGTTGCACTTGAAACAAA-ATTAATCTCACTTGA
1 CAG-TTTCTCTTGAAACAAAACCTTTGAGATTGTTTCTCTTGAAACAAAGTTTTGTCTCACTTGA
491297 GA
65 GA
491299 TTATTTTCTT
Statistics
Matches: 115, Mismatches: 17, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
66 13 0.11
67 90 0.78
68 12 0.10
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.36
Consensus pattern (66 bp):
CAGTTTCTCTTGAAACAAAACCTTTGAGATTGTTTCTCTTGAAACAAAGTTTTGTCTCACTTGAG
A
Found at i:492176 original size:3 final size:3
Alignment explanation
Indices: 492168--492237 Score: 106
Period size: 3 Copynumber: 23.7 Consensus size: 3
492158 TTTATTCATG
* * *
492168 ATT ATT ATT GTT GTT ATT ATT ATT AAT -TT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
492215 ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT AT
492238 ATTTATATTA
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
2 1 0.02
3 61 0.98
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:494214 original size:2 final size:2
Alignment explanation
Indices: 494207--494234 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
494197 ATTTAAGCAA
494207 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
494235 TATTAAAATT
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:496036 original size:3 final size:3
Alignment explanation
Indices: 496030--496085 Score: 66
Period size: 3 Copynumber: 20.0 Consensus size: 3
496020 ATTATTTATT
* *
496030 TAA TAA TAA TAA T-A TAA T-A TAA TAA TAA TAT TAA -AA CAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
496074 TAA TAA TAA TAA
1 TAA TAA TAA TAA
496086 ATAAAACTAA
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
2 8 0.17
3 39 0.83
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:496052 original size:19 final size:19
Alignment explanation
Indices: 496030--496082 Score: 70
Period size: 19 Copynumber: 2.8 Consensus size: 19
496020 ATTATTTATT
* *
496030 TAATAATAATAATATAATA
1 TAATAATAATAATAAAACA
*
496049 TAATAATAATATTAAAACA
1 TAATAATAATAATAAAACA
*
496068 AAATAATAATAATAA
1 TAATAATAATAATAA
496083 TAAATAAAAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (19 bp):
TAATAATAATAATAAAACA
Found at i:496055 original size:22 final size:21
Alignment explanation
Indices: 496008--496089 Score: 83
Period size: 22 Copynumber: 3.8 Consensus size: 21
495998 TGTAAAAATG
* * *
496008 TAATAATAATAAATTATTTATT
1 TAATAATAATAAATAATATA-A
496030 TAATAATAATAATATAATATAA
1 TAATAATAATAA-ATAATATAA
* * *
496052 TAATAATATTAAAACAAAATAA
1 TAATAATAAT-AAATAATATAA
496074 TAATAATAATAAATAA
1 TAATAATAATAAATAA
496090 AACTAATGAA
Statistics
Matches: 50, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
21 5 0.10
22 37 0.74
23 8 0.16
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (21 bp):
TAATAATAATAAATAATATAA
Found at i:496089 original size:16 final size:15
Alignment explanation
Indices: 496030--496085 Score: 66
Period size: 14 Copynumber: 4.0 Consensus size: 15
496020 ATTATTTATT
496030 TAATAATAATAAT-A
1 TAATAATAATAATAA
496044 TAAT-ATAATAATAA
1 TAATAATAATAATAA
* *
496058 TATTAA-AACAA-AA
1 TAATAATAATAATAA
496071 TAATAATAATAATAA
1 TAATAATAATAATAA
496086 ATAAAACTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
13 15 0.44
14 16 0.47
15 3 0.09
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (15 bp):
TAATAATAATAATAA
Found at i:496096 original size:16 final size:16
Alignment explanation
Indices: 496031--496085 Score: 60
Period size: 16 Copynumber: 3.5 Consensus size: 16
496021 TTATTTATTT
496031 AATAATAATAATATAA
1 AATAATAATAATATAA
*
496047 TATAATAATAATATTAA
1 AATAATAATAATA-TAA
* *
496064 AACAA-AATAATA-AT
1 AATAATAATAATATAA
496078 AATAATAA
1 AATAATAA
496086 ATAAAACTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
14 5 0.16
15 2 0.06
16 19 0.59
17 6 0.19
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (16 bp):
AATAATAATAATATAA
Found at i:496096 original size:22 final size:21
Alignment explanation
Indices: 496030--496096 Score: 80
Period size: 22 Copynumber: 3.0 Consensus size: 21
496020 ATTATTTATT
*
496030 TAATAATAATAATATAATATAA
1 TAATAATAATAA-ATAAAATAA
* *
496052 TAATAATATTAAAACAAAATAA
1 TAATAATAAT-AAATAAAATAA
496074 TAATAATAATAAATAAAACTAA
1 TAATAATAATAAATAAAA-TAA
496096 T
1 T
496097 GAAATAAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
21 7 0.18
22 29 0.76
23 2 0.05
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (21 bp):
TAATAATAATAAATAAAATAA
Found at i:496504 original size:39 final size:40
Alignment explanation
Indices: 496450--496547 Score: 189
Period size: 40 Copynumber: 2.5 Consensus size: 40
496440 TCGAACAAGC
496450 TCTTCTCATTATGAACTTTTT-TTCTTTCTTCAGATGAGT
1 TCTTCTCATTATGAACTTTTTCTTCTTTCTTCAGATGAGT
496489 TCTTCTCATTATGAACTTTTTCTTCTTTCTTCAGATGAGT
1 TCTTCTCATTATGAACTTTTTCTTCTTTCTTCAGATGAGT
496529 TCTTCTCATTATGAACTTT
1 TCTTCTCATTATGAACTTT
496548 CTCTGGAAAA
Statistics
Matches: 58, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
39 21 0.36
40 37 0.64
ACGTcount: A:0.18, C:0.19, G:0.09, T:0.53
Consensus pattern (40 bp):
TCTTCTCATTATGAACTTTTTCTTCTTTCTTCAGATGAGT
Found at i:496780 original size:113 final size:112
Alignment explanation
Indices: 496488--496770 Score: 451
Period size: 112 Copynumber: 2.5 Consensus size: 112
496478 TTCAGATGAG
* *
496488 TTCTTCTCATTATGAACTTTTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
* * * **
496553 GAAAAGTTGATCCATCTTGTGATGATTCAAACAAAAAGTTGAACAAA
66 GCAAAGCTAATCCATCGGGTGATGATTCAAACAAAAAGTTGAACAAA
*
496600 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
* *
496665 GCAATGCTAATCCATCGGGTGATGAATT-AAAGCAAAAGGTTGAACAAA
66 GCAAAGCTAATCCATCGGGTGATG-ATTCAAA-CAAAAAGTTGAACAAA
496713 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT
496771 CTACCTGGCA
Statistics
Matches: 158, Mismatches: 11, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
112 83 0.53
113 75 0.47
ACGTcount: A:0.26, C:0.20, G:0.13, T:0.41
Consensus pattern (112 bp):
TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
GCAAAGCTAATCCATCGGGTGATGATTCAAACAAAAAGTTGAACAAA
Found at i:497671 original size:53 final size:54
Alignment explanation
Indices: 497572--497678 Score: 135
Period size: 53 Copynumber: 2.0 Consensus size: 54
497562 AAAATAACTG
** *
497572 GTTTGTAAAATATTTGACAACACATTCATCATCTCATGTGGTTTCTGCTCAGAT
1 GTTTGTAAAATATTTGACAACACATTCATCATCTCATGTGACTTCTGCACAGAT
* * * **
497626 GTTTGTAAAGTATTTGTCAA-ACATTCATCATTTTTTGTGACTTCTGCACAGAT
1 GTTTGTAAAATATTTGACAACACATTCATCATCTCATGTGACTTCTGCACAGAT
497679 TTCTGGTCAG
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
53 27 0.60
54 18 0.40
ACGTcount: A:0.27, C:0.17, G:0.15, T:0.41
Consensus pattern (54 bp):
GTTTGTAAAATATTTGACAACACATTCATCATCTCATGTGACTTCTGCACAGAT
Found at i:503836 original size:26 final size:27
Alignment explanation
Indices: 503773--503837 Score: 73
Period size: 26 Copynumber: 2.5 Consensus size: 27
503763 TTATGCAAAT
* *
503773 ATGC-AAATGCAAAAATGAAAATATAA
1 ATGCTAAATGTAAAAATGAAAATAAAA
* *
503799 AT-ATAAACGTAAAAATGAAAA-AAAA
1 ATGCTAAATGTAAAAATGAAAATAAAA
503824 ATGCTAAATGTAAA
1 ATGCTAAATGTAAA
503838 TGCAAATGTA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
25 5 0.16
26 26 0.84
ACGTcount: A:0.63, C:0.06, G:0.11, T:0.20
Consensus pattern (27 bp):
ATGCTAAATGTAAAAATGAAAATAAAA
Found at i:503846 original size:12 final size:13
Alignment explanation
Indices: 503822--503850 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
503812 AATGAAAAAA
503822 AAATGCTAAATGT
1 AAATGCTAAATGT
503835 AAATGC-AAATGT
1 AAATGCTAAATGT
503847 AAAT
1 AAAT
503851 ATGTGAATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.52, C:0.07, G:0.14, T:0.28
Consensus pattern (13 bp):
AAATGCTAAATGT
Found at i:505441 original size:20 final size:19
Alignment explanation
Indices: 505405--505454 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
505395 AATACTTGAA
*
505405 AAAAAAATAAAACATTAAT-
1 AAAATAATAAAACATT-ATG
*
505424 AAAATAATATAAATATTATG
1 AAAATAATA-AAACATTATG
505444 AAAATAATAAA
1 AAAATAATAAA
505455 TATATATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 12 0.44
20 15 0.56
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (19 bp):
AAAATAATAAAACATTATG
Found at i:506545 original size:3 final size:3
Alignment explanation
Indices: 506537--506586 Score: 66
Period size: 3 Copynumber: 16.7 Consensus size: 3
506527 GGCCTGTTTG
**
506537 TAA TAA TAA TAA TTT TAA TAA TAA TAA TAA TAAA TAA -AA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA
506582 TAA TA
1 TAA TA
506587 TCAATAAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
2 2 0.05
3 36 0.88
4 3 0.07
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:506592 original size:24 final size:24
Alignment explanation
Indices: 506552--506600 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 24
506542 ATAATAATTT
*
506552 TAATAATAATAATAATAAATAAAA
1 TAATAATAATAATAATAAAAAAAA
506576 TAATAATAAT-ATCAATAAAAAAAA
1 TAATAATAATAAT-AATAAAAAAAA
506600 T
1 T
506601 GGGTAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 2 0.09
24 21 0.91
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (24 bp):
TAATAATAATAATAATAAAAAAAA
Found at i:506596 original size:21 final size:21
Alignment explanation
Indices: 506537--506595 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 21
506527 GGCCTGTTTG
* **
506537 TAATAATAATAATTTTAATAA
1 TAATAATAATAAATAAAATAA
506558 TAATAATAATAAATAAAATAA
1 TAATAATAATAAATAAAATAA
*
506579 TAATAAT-ATCAATAAAA
1 TAATAATAATAAATAAAA
506596 AAAATGGGTA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 9 0.26
21 25 0.74
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (21 bp):
TAATAATAATAAATAAAATAA
Found at i:508444 original size:2 final size:2
Alignment explanation
Indices: 508437--508462 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
508427 CTTGTATAAA
508437 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
508463 ATATATATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:509359 original size:36 final size:36
Alignment explanation
Indices: 509301--509379 Score: 104
Period size: 36 Copynumber: 2.2 Consensus size: 36
509291 CAGCGAGGAG
* *
509301 ACCAATGCGGGAATTGAAGAGGAAACCGACAAGGGA
1 ACCAATGCGAGAACTGAAGAGGAAACCGACAAGGGA
* * * *
509337 ACCAATGCGAGAACTGACGAGGAAACTGGCGAGGGA
1 ACCAATGCGAGAACTGAAGAGGAAACCGACAAGGGA
509373 ACCAATG
1 ACCAATG
509380 AAGAAACCGA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.39, C:0.19, G:0.33, T:0.09
Consensus pattern (36 bp):
ACCAATGCGAGAACTGAAGAGGAAACCGACAAGGGA
Found at i:509424 original size:24 final size:24
Alignment explanation
Indices: 509368--509425 Score: 98
Period size: 24 Copynumber: 2.4 Consensus size: 24
509358 GAAACTGGCG
*
509368 AGGGAACCAATGAAGAAACCGACC
1 AGGGAACCGATGAAGAAACCGACC
*
509392 AGGGAACCGATGAAGAAATCGACC
1 AGGGAACCGATGAAGAAACCGACC
509416 AGGGAACCGA
1 AGGGAACCGA
509426 CGAGGAAGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.43, C:0.22, G:0.29, T:0.05
Consensus pattern (24 bp):
AGGGAACCGATGAAGAAACCGACC
Found at i:511928 original size:2 final size:2
Alignment explanation
Indices: 511870--511912 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
511860 CTTGCAGAAC
*
511870 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
511912 A
1 A
511913 CACACACATA
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:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:515857 original size:37 final size:37
Alignment explanation
Indices: 515816--515889 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
515806 ACATTGTTTA
515816 CAAACACTGTCTGAGACAGTGCCTTAATACCACAGCG
1 CAAACACTGTCTGAGACAGTGCCTTAATACCACAGCG
515853 CAAACACTGTCTGAGACAGTGCCTTAATACCACAGCG
1 CAAACACTGTCTGAGACAGTGCCTTAATACCACAGCG
515890 ATGAATCGAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.32, C:0.30, G:0.19, T:0.19
Consensus pattern (37 bp):
CAAACACTGTCTGAGACAGTGCCTTAATACCACAGCG
Found at i:518524 original size:2 final size:2
Alignment explanation
Indices: 518500--518555 Score: 87
Period size: 2 Copynumber: 28.0 Consensus size: 2
518490 CTCTATGTGG
*
518500 TA TA TG TA TA TCA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
518542 TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA
518556 GGATTATAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
1 1 0.02
2 47 0.94
3 2 0.04
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:520502 original size:20 final size:20
Alignment explanation
Indices: 520477--520527 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
520467 CAAAAAAATA
520477 GGTATCGATACC-ACCCTAT
1 GGTATCGATACCAACCCTAT
* *
520496 GGGTATCGAGACCAACCCTGT
1 -GGTATCGATACCAACCCTAT
*
520517 AGTATCGATAC
1 GGTATCGATAC
520528 TCTTTAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
20 20 0.77
21 6 0.23
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (20 bp):
GGTATCGATACCAACCCTAT
Found at i:523160 original size:59 final size:59
Alignment explanation
Indices: 523065--523185 Score: 215
Period size: 59 Copynumber: 2.1 Consensus size: 59
523055 AATAGATGGA
*
523065 TAAGTGTCCTATCGAACCCTCCTAGTCGTAAGGAAAAGGCAAACTCGATAATATGGCTC
1 TAAGTGTCCTATCGAACCCTCCTAGTCGTAAGGAAAAGGCAAACTCAATAATATGGCTC
* *
523124 TAAGTGTCCTATCGAACCCTCCTAGTCGTAATGAAAAGGTAAACTCAATAATATGGCTC
1 TAAGTGTCCTATCGAACCCTCCTAGTCGTAAGGAAAAGGCAAACTCAATAATATGGCTC
523183 TAA
1 TAA
523186 CCAAACCTCC
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (59 bp):
TAAGTGTCCTATCGAACCCTCCTAGTCGTAAGGAAAAGGCAAACTCAATAATATGGCTC
Found at i:523259 original size:10 final size:10
Alignment explanation
Indices: 523241--523272 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
523231 ATTAATCTCC
*
523241 CTTACAAGAA
1 CTTAAAAGAA
523251 CTTAAAAGAA
1 CTTAAAAGAA
523261 CTTAAAAGAA
1 CTTAAAAGAA
523271 CT
1 CT
523273 CCAGGAAAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.53, C:0.16, G:0.09, T:0.22
Consensus pattern (10 bp):
CTTAAAAGAA
Found at i:523478 original size:42 final size:47
Alignment explanation
Indices: 523417--523523 Score: 127
Period size: 50 Copynumber: 2.3 Consensus size: 47
523407 TCCTAAATAA
523417 CTAAT-AAATAATAAAAACT-AAAT-ATGTCTTAAC-T-C-TAATTC
1 CTAATAAAATAATAAAAACTAAAATAATGTCTTAACTTACTTAATTC
* *
523458 CTAATAAAATAATAATAACTAAAAATAATGTTTTAACTTAACCTTAATTC
1 CTAATAAAATAATAAAAACT-AAAATAATGTCTTAACTT-A-CTTAATTC
523508 CTAATAAAATAATAAA
1 CTAATAAAATAATAAA
523524 TATAATCCTA
Statistics
Matches: 54, Mismatches: 3, Indels: 9
0.82 0.05 0.14
Matches are distributed among these distances:
41 5 0.09
42 13 0.24
44 4 0.07
45 9 0.17
46 1 0.02
49 1 0.02
50 21 0.39
ACGTcount: A:0.52, C:0.12, G:0.02, T:0.34
Consensus pattern (47 bp):
CTAATAAAATAATAAAAACTAAAATAATGTCTTAACTTACTTAATTC
Found at i:527104 original size:17 final size:17
Alignment explanation
Indices: 527050--527093 Score: 88
Period size: 17 Copynumber: 2.6 Consensus size: 17
527040 TTTTAATTTT
527050 TTTTATTTTTTGGCTTC
1 TTTTATTTTTTGGCTTC
527067 TTTTATTTTTTGGCTTC
1 TTTTATTTTTTGGCTTC
527084 TTTTATTTTT
1 TTTTATTTTT
527094 CGGCCATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.07, C:0.09, G:0.09, T:0.75
Consensus pattern (17 bp):
TTTTATTTTTTGGCTTC
Found at i:531849 original size:18 final size:19
Alignment explanation
Indices: 531804--531853 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 19
531794 TTCTTATGGG
*
531804 GAGTATCGATACTCTACCCT
1 GAGTATCGATACTC-ACCAT
531824 -AGGTATCGATACTC-CCAT
1 GA-GTATCGATACTCACCAT
531842 GAGTATCGATAC
1 GAGTATCGATAC
531854 CAAAATGGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 13 0.48
19 2 0.07
20 12 0.44
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (19 bp):
GAGTATCGATACTCACCAT
Found at i:533046 original size:60 final size:60
Alignment explanation
Indices: 532936--533078 Score: 168
Period size: 60 Copynumber: 2.4 Consensus size: 60
532926 TAGTATATAT
* *
532936 ATAGTTTGGGATGAAATTGGAATGTTTAAAAAATTTAGGGACCAATTTAGAATGA-ATGTC
1 ATAGTTTGGGATGAAATTGAAATGTTTAAAAAATTTAGGGACCAATTTAGAATGATA-GAC
* * *
532996 ATAGTTTGGTGATGAAATTGAAATG-TTCAAAAGTTT-GAGGATTC-ATTTAGAATGATAGAC
1 ATAGTTTGG-GATGAAATTGAAATGTTTAAAAAATTTAG-GGA-CCAATTTAGAATGATAGAC
533056 ATAGTTTAGGGATGAAATTGAAA
1 ATAGTTT-GGGATGAAATTGAAA
533079 CATATAAAAG
Statistics
Matches: 73, Mismatches: 5, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
59 1 0.01
60 54 0.74
61 18 0.25
ACGTcount: A:0.38, C:0.04, G:0.24, T:0.34
Consensus pattern (60 bp):
ATAGTTTGGGATGAAATTGAAATGTTTAAAAAATTTAGGGACCAATTTAGAATGATAGAC
Found at i:533088 original size:60 final size:61
Alignment explanation
Indices: 532979--533111 Score: 159
Period size: 60 Copynumber: 2.2 Consensus size: 61
532969 TTTAGGGACC
* **
532979 AATTTAGAATGA-ATGTCATAGTTTGGTGATGAAATTGAAATGTTCAAAAG-TTTGAGGATT
1 AATTTAGAATGATATGACATAGTTTGGTGATGAAATTGAAACATTCAAAAGTTTTGA-GATT
*
533039 CATTTAGAATGATA-GACATAGTTTAGG-GATGAAATTGAAACATAT-AAAAGTTTTGAGATT
1 AATTTAGAATGATATGACATAGTTT-GGTGATGAAATTGAAACAT-TCAAAAGTTTTGAGATT
*
533099 AATTTAAAATGAT
1 AATTTAGAATGAT
533112 GGTAATACTT
Statistics
Matches: 63, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
60 54 0.86
61 9 0.14
ACGTcount: A:0.41, C:0.04, G:0.20, T:0.35
Consensus pattern (61 bp):
AATTTAGAATGATATGACATAGTTTGGTGATGAAATTGAAACATTCAAAAGTTTTGAGATT
Found at i:535247 original size:6 final size:6
Alignment explanation
Indices: 535236--535274 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
535226 TAATGGTAAA
535236 GAGATG GAGATG GAGATG GAGATG GAGATG GAGATG GAG
1 GAGATG GAGATG GAGATG GAGATG GAGATG GAGATG GAG
535275 CAGAGGCAGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.51, T:0.15
Consensus pattern (6 bp):
GAGATG
Found at i:538966 original size:6 final size:6
Alignment explanation
Indices: 538952--538985 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
538942 AATTCAAGAT
*
538952 TAAAAA TAAATA TAAATA TAAATA TAAATA TAAA
1 TAAATA TAAATA TAAATA TAAATA TAAATA TAAA
538986 GGTGAGATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (6 bp):
TAAATA
Found at i:546116 original size:20 final size:20
Alignment explanation
Indices: 546070--546167 Score: 115
Period size: 20 Copynumber: 4.8 Consensus size: 20
546060 CTTAGTTTCC
*
546070 AAAATCGTAACGTGAATAGT
1 AAAATCGCAACGTGAATAGT
546090 AAAAATCGCAACGTGAATAGT
1 -AAAATCGCAACGTGAATAGT
* *
546111 AAAATCACAACGTAAATAGT
1 AAAATCGCAACGTGAATAGT
* * *
546131 AAAATCGCAACGCGATTAAT
1 AAAATCGCAACGTGAATAGT
* *
546151 ACAATCGCAACGCGAAT
1 AAAATCGCAACGTGAAT
546168 TTAGAAAATC
Statistics
Matches: 67, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
20 48 0.72
21 19 0.28
ACGTcount: A:0.47, C:0.17, G:0.16, T:0.19
Consensus pattern (20 bp):
AAAATCGCAACGTGAATAGT
Found at i:546565 original size:21 final size:21
Alignment explanation
Indices: 546531--546583 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
546521 CATATAGATT
546531 CGTTGCGA-TTTTACTATTCA
1 CGTTGCGATTTTTACTATTCA
*
546551 TGTTGCGATTTTTACTATTCA
1 CGTTGCGATTTTTACTATTCA
546572 CGTTGCGATTTT
1 CGTTGCGATTTT
546584 GGAAACTGAG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 7 0.23
21 23 0.77
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.49
Consensus pattern (21 bp):
CGTTGCGATTTTTACTATTCA
Found at i:547626 original size:15 final size:17
Alignment explanation
Indices: 547606--547639 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
547596 TATTTTGTGT
547606 ATGATTTT-T-CATAAA
1 ATGATTTTCTACATAAA
547621 ATGATTTTCTACATAAA
1 ATGATTTTCTACATAAA
547638 AT
1 AT
547640 CTTGATGTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
16 1 0.06
17 8 0.47
ACGTcount: A:0.41, C:0.09, G:0.06, T:0.44
Consensus pattern (17 bp):
ATGATTTTCTACATAAA
Found at i:548654 original size:17 final size:16
Alignment explanation
Indices: 548632--548670 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
548622 AGAGTCAAAC
548632 CATTCAGAACCTTGAAT
1 CATTCAGAA-CTTGAAT
* *
548649 CATTCAGTATTTGAAT
1 CATTCAGAACTTGAAT
548665 CATTCA
1 CATTCA
548671 ACGATTAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 12 0.60
17 8 0.40
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.36
Consensus pattern (16 bp):
CATTCAGAACTTGAAT
Found at i:548935 original size:15 final size:15
Alignment explanation
Indices: 548915--548981 Score: 82
Period size: 15 Copynumber: 4.5 Consensus size: 15
548905 TTCCGGAAAA
*
548915 TGAATTACTATAATT
1 TGAATTACTGTAATT
*
548930 TGAATTACTGGAATT
1 TGAATTACTGTAATT
**
548945 TGAATTACT-TGAAAA
1 TGAATTACTGT-AATT
548960 TGAATTACTGTAATT
1 TGAATTACTGTAATT
548975 TGAATTA
1 TGAATTA
548982 TGGAAAATGA
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
15 42 0.98
16 1 0.02
ACGTcount: A:0.39, C:0.06, G:0.13, T:0.42
Consensus pattern (15 bp):
TGAATTACTGTAATT
Found at i:548949 original size:30 final size:30
Alignment explanation
Indices: 548930--548996 Score: 109
Period size: 30 Copynumber: 2.3 Consensus size: 30
548920 TACTATAATT
548930 TGAATTACTGGAATTTGAATTACTTGAAAA
1 TGAATTACTGGAATTTGAATTACTTGAAAA
* *
548960 TGAATTACTGTAATTTGAATTA-TGGAAAA
1 TGAATTACTGGAATTTGAATTACTTGAAAA
548989 TGAATTAC
1 TGAATTAC
548997 ATTTCTGAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
29 14 0.40
30 21 0.60
ACGTcount: A:0.40, C:0.06, G:0.16, T:0.37
Consensus pattern (30 bp):
TGAATTACTGGAATTTGAATTACTTGAAAA
Found at i:548974 original size:45 final size:44
Alignment explanation
Indices: 548910--548996 Score: 138
Period size: 45 Copynumber: 2.0 Consensus size: 44
548900 TGATTTTCCG
**
548910 GAAAATGAATTACTATAATTTGAATTACTGGAATTTGAATTACTT
1 GAAAATGAATTACTATAATTTGAATTA-TGGAAAATGAATTACTT
*
548955 GAAAATGAATTACTGTAATTTGAATTATGGAAAATGAATTAC
1 GAAAATGAATTACTATAATTTGAATTATGGAAAATGAATTAC
548997 ATTTCTGAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
44 13 0.33
45 26 0.67
ACGTcount: A:0.43, C:0.06, G:0.15, T:0.37
Consensus pattern (44 bp):
GAAAATGAATTACTATAATTTGAATTATGGAAAATGAATTACTT
Found at i:549027 original size:14 final size:14
Alignment explanation
Indices: 549003--549038 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
548993 TTACATTTCT
549003 GAAAATCGTTTTCCG
1 GAAAAT-GTTTTCCG
549018 GAAAATGTTTTCCG
1 GAAAATGTTTTCCG
*
549032 TAAAATG
1 GAAAATG
549039 AATTACATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 14 0.70
15 6 0.30
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.33
Consensus pattern (14 bp):
GAAAATGTTTTCCG
Found at i:549380 original size:23 final size:23
Alignment explanation
Indices: 549331--549393 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
549321 GTGTTATATT
* **
549331 ATATTTTAAAAATATTAATTAGT
1 ATATTTTAAATATATTAATTAAA
* *
549354 ATATTTTAAATATCTTTATTAAA
1 ATATTTTAAATATATTAATTAAA
549377 ATATTATTTAAATATAT
1 ATA-T-TTTAAATATAT
549394 AAATAATATT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
23 21 0.66
24 1 0.03
25 10 0.31
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (23 bp):
ATATTTTAAATATATTAATTAAA
Found at i:549451 original size:61 final size:63
Alignment explanation
Indices: 549368--549548 Score: 159
Period size: 61 Copynumber: 2.9 Consensus size: 63
549358 TTTAAATATC
* *
549368 TTTATTAAAATATTATTTAAATATATAAATAATATTATTCAT-TATTAATAT-ATATAAATT-TT
1 TTTATT-ATATATTATTAAAATATATAAATAATATTATTCATATATTAATATAATAT-AATTATT
* * *
549430 TTTATTATATATTATTAAAATA-A-AAAT-ATAATATATCTTATATTATTATAATATAATTGATT
1 TTTATTATATATTATTAAAATATATAAATAATATTAT-TCATATATTAATATAATATAATT-ATT
* *
549492 ATT-TTATATAATATTAAAA-ATATAATATAATATTATT-ATAAATATTAATA-AAT-TAAT
1 TTTATTATATATTATTAAAATATATAA-ATAATATTATTCAT--ATATTAATATAATATAAT
549549 AAATAATATT
Statistics
Matches: 98, Mismatches: 10, Indels: 22
0.75 0.08 0.17
Matches are distributed among these distances:
58 6 0.06
59 7 0.07
60 14 0.14
61 34 0.35
62 17 0.17
63 6 0.06
64 14 0.14
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (63 bp):
TTTATTATATATTATTAAAATATATAAATAATATTATTCATATATTAATATAATATAATTATT
Found at i:549507 original size:15 final size:16
Alignment explanation
Indices: 549469--549558 Score: 60
Period size: 17 Copynumber: 5.3 Consensus size: 16
549459 AATATATCTT
549469 ATATTATTATAATATA
1 ATATTATTATAATATA
*
549485 ATTGATTATT-TTATATA
1 A-T-ATTATTATAATATA
*
549502 ATATTAAAAATATAATATA
1 ATATT---ATTATAATATA
549521 ATATTATTATAAATATTA
1 ATATTATTAT-AATA-TA
*
549539 ATA-AATTAATAA-ATA
1 ATATTATT-ATAATATA
549554 ATATT
1 ATATT
549559 TTGACGAAAA
Statistics
Matches: 58, Mismatches: 6, Indels: 20
0.69 0.07 0.24
Matches are distributed among these distances:
15 8 0.14
16 7 0.12
17 17 0.29
18 15 0.26
19 11 0.19
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (16 bp):
ATATTATTATAATATA
Found at i:560312 original size:230 final size:230
Alignment explanation
Indices: 559909--560377 Score: 758
Period size: 230 Copynumber: 2.0 Consensus size: 230
559899 CATTGAAATT
* * *
559909 CAATGCCAAAGAAATTTGTCTGCCTGTAATTGAAGAAATATTAGAGAAGCTGAAGATAAAAGCTA
1 CAATGCCAAAGAAATTTGTCTGCATGTAATTCAAGAAATATCAGAGAAGCTGAAGATAAAAGCTA
* * * *
559974 AAACTTTATTAAAGTTTTTTCAATATTGGAACTGAAAGCAATGGAATTTATTGAAACACCGTGAT
66 AAACTTTATTAAAGTTTCTTCAAGATTGGAACAGAAAGCAATGAAATTTATTGAAACACCGTGAT
* * * *
560039 CTCTACAAAGTAAATCAAACAAAAACCCACTAATCATGTTTTGTTCACTGAGATAATCAGAAGGG
131 CTCTACAAAGTAAATCAAACAAAAACCCACTAATCATGTTTTGTTCACTGAGATAATAAAAAAGC
* *
560104 AATAGAAATGAAAACAACGAATACCCTTTTTCTCA
196 AATACAAATGAAAACAAAGAATACCCTTTTTCTCA
* * * *
560139 CAATGCCAATGAAATTTGTTTGCATGTAATTCAAGAAATATCAGAGAAGTTGAAGATAAAAGCTG
1 CAATGCCAAAGAAATTTGTCTGCATGTAATTCAAGAAATATCAGAGAAGCTGAAGATAAAAGCTA
*
560204 AAACTTTATTAAAGTTTCTTCAAGATTGGAACAGAAAGCAATGAAATTTATTGATACACCGTGAT
66 AAACTTTATTAAAGTTTCTTCAAGATTGGAACAGAAAGCAATGAAATTTATTGAAACACCGTGAT
* *
560269 CTCTACGAAGTAAATCAAACAAAAACCCAGTAATCATGTTTTGTTCACTGAGATAATAAAAAAGC
131 CTCTACAAAGTAAATCAAACAAAAACCCACTAATCATGTTTTGTTCACTGAGATAATAAAAAAGC
560334 AATACAAATGAAAACAAAGAATACCCTTTTTCTCA
196 AATACAAATGAAAACAAAGAATACCCTTTTTCTCA
560369 CAATGCCAA
1 CAATGCCAA
560378 GACTTCAACT
Statistics
Matches: 219, Mismatches: 20, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
230 219 1.00
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (230 bp):
CAATGCCAAAGAAATTTGTCTGCATGTAATTCAAGAAATATCAGAGAAGCTGAAGATAAAAGCTA
AAACTTTATTAAAGTTTCTTCAAGATTGGAACAGAAAGCAATGAAATTTATTGAAACACCGTGAT
CTCTACAAAGTAAATCAAACAAAAACCCACTAATCATGTTTTGTTCACTGAGATAATAAAAAAGC
AATACAAATGAAAACAAAGAATACCCTTTTTCTCA
Found at i:561873 original size:20 final size:21
Alignment explanation
Indices: 561848--561889 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
561838 CCAACTTACA
561848 ATGCATTATG-AACCATTATT
1 ATGCATTATGCAACCATTATT
*
561868 ATGCATTATGCAACTATTATT
1 ATGCATTATGCAACCATTATT
561889 A
1 A
561890 GTTGCATGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (21 bp):
ATGCATTATGCAACCATTATT
Found at i:582380 original size:30 final size:30
Alignment explanation
Indices: 582339--582398 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
582329 CATCGAAGAC
*
582339 TAGACTGGTAACATTACTTTTTATCAAGTT
1 TAGACTAGTAACATTACTTTTTATCAAGTT
582369 TAGACTAGTAACATTACTTTTTATCAAGTT
1 TAGACTAGTAACATTACTTTTTATCAAGTT
582399 AATGATGAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.32, C:0.13, G:0.12, T:0.43
Consensus pattern (30 bp):
TAGACTAGTAACATTACTTTTTATCAAGTT
Found at i:592294 original size:21 final size:21
Alignment explanation
Indices: 592268--592308 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
592258 CCATAAACAG
*
592268 TGCTACATTGCATCGATGCAT
1 TGCTACAGTGCATCGATGCAT
592289 TGCTACAGTGCATCGATGCA
1 TGCTACAGTGCATCGATGCA
592309 CTAAAAATTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.29
Consensus pattern (21 bp):
TGCTACAGTGCATCGATGCAT
Found at i:593144 original size:32 final size:31
Alignment explanation
Indices: 593041--593149 Score: 91
Period size: 31 Copynumber: 3.5 Consensus size: 31
593031 TATAGGTCCC
* *
593041 GTAGAACCTAGG-AAAATTGTCCATATGTTCCT
1 GTAGAACATAGGTAATA-TGTCCATATGTT-CT
* *
593073 -TAGAACATAGGT-ATACTGTCCATATGTCCC
1 GTAGAACATAGGTAATA-TGTCCATATGTTCT
* *
593103 G-AAAGACATAGGTAATTATGTCAATATGTTCT
1 GTAGA-ACATAGGTAA-TATGTCCATATGTTCT
593135 GTAGAACATAGGTAA
1 GTAGAACATAGGTAA
593150 ACCCTCGACT
Statistics
Matches: 61, Mismatches: 10, Indels: 12
0.73 0.12 0.14
Matches are distributed among these distances:
30 3 0.05
31 31 0.51
32 23 0.38
33 4 0.07
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (31 bp):
GTAGAACATAGGTAATATGTCCATATGTTCT
Found at i:597004 original size:22 final size:22
Alignment explanation
Indices: 596976--597018 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
596966 AAAATATGGT
*
596976 ATGAACAATACCGTGAACAGTA
1 ATGAACAATACCATGAACAGTA
*
596998 ATGAACAATATCATGAACAGT
1 ATGAACAATACCATGAACAGT
597019 GCTACAGTGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.47, C:0.16, G:0.16, T:0.21
Consensus pattern (22 bp):
ATGAACAATACCATGAACAGTA
Found at i:597819 original size:31 final size:31
Alignment explanation
Indices: 597766--597892 Score: 121
Period size: 31 Copynumber: 4.1 Consensus size: 31
597756 GAACCTCGGC
* * * *
597766 AACTGTCTATAGGTCCCATAGAACCTAGGTA
1 AACTGTCCATATGTCCCGTAGAACATAGGTA
* *
597797 AACTGTCCATATGTTCCTTAGAACATAGGTA
1 AACTGTCCATATGTCCCGTAGAACATAGGTA
* * * *
597828 TACTATCCATATATCCCGAAG-ACATAGGTA
1 AACTGTCCATATGTCCCGTAGAACATAGGTA
* * *
597858 ATTCTGCCCATATGTTCCGTAGAACATAGGTA
1 A-ACTGTCCATATGTCCCGTAGAACATAGGTA
597890 AAC
1 AAC
597893 CCTCGACTCT
Statistics
Matches: 75, Mismatches: 19, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
30 9 0.12
31 56 0.75
32 10 0.13
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (31 bp):
AACTGTCCATATGTCCCGTAGAACATAGGTA
Found at i:599089 original size:12 final size:12
Alignment explanation
Indices: 599072--599096 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
599062 TGATGACAAG
599072 TCAAATTTAACT
1 TCAAATTTAACT
599084 TCAAATTTAACT
1 TCAAATTTAACT
599096 T
1 T
599097 ATCAACTCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.16, G:0.00, T:0.44
Consensus pattern (12 bp):
TCAAATTTAACT
Found at i:619973 original size:20 final size:22
Alignment explanation
Indices: 619935--619975 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
619925 ACAAATGAGA
619935 ATGTTGTGGCAATATGAAATGG
1 ATGTTGTGGCAATATGAAATGG
619957 ATGTTGTGG-AA-ATGAAATG
1 ATGTTGTGGCAATATGAAATG
619976 ATGGTAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.42
21 2 0.11
22 9 0.47
ACGTcount: A:0.34, C:0.02, G:0.32, T:0.32
Consensus pattern (22 bp):
ATGTTGTGGCAATATGAAATGG
Found at i:625022 original size:5 final size:5
Alignment explanation
Indices: 625012--625051 Score: 71
Period size: 5 Copynumber: 8.0 Consensus size: 5
625002 CTATTAAAAC
*
625012 GATTT GATTT GATTT GATTT AATTT GATTT GATTT GATTT
1 GATTT GATTT GATTT GATTT GATTT GATTT GATTT GATTT
625052 TTAAATTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.23, C:0.00, G:0.17, T:0.60
Consensus pattern (5 bp):
GATTT
Found at i:629088 original size:54 final size:54
Alignment explanation
Indices: 629025--629287 Score: 373
Period size: 54 Copynumber: 4.9 Consensus size: 54
629015 TATGCAAAGT
* * *
629025 ACAGAATTCATCATATATTGATGAATAATCGTTTCGGCACTATGTGTGCAATTC
1 ACAGAATTCATCATATGTTGATGAATAACCGTTTCGGCACTACGTGTGCAATTC
* * * * *
629079 ACAGAATTCATCATATGTTTATGAATAACCATTTTGACACTACGTGTGTAATTC
1 ACAGAATTCATCATATGTTGATGAATAACCGTTTCGGCACTACGTGTGCAATTC
*
629133 ACGGAATTCATCATATGTTGATGAATAACCGTTTCGGCACTACGTGTGCAATTC
1 ACAGAATTCATCATATGTTGATGAATAACCGTTTCGGCACTACGTGTGCAATTC
* *
629187 ACGGAATTCATCATATGTTGATGAATAACCGTTTCGGCACTATGTGTGCAATTC
1 ACAGAATTCATCATATGTTGATGAATAACCGTTTCGGCACTACGTGTGCAATTC
* * * * * *
629241 ACAGAATTTATAATATGTTTATGAATGACCGTATGGGCACTACGTGT
1 ACAGAATTCATCATATGTTGATGAATAACCGTTTCGGCACTACGTGT
629288 ACATCGCAAT
Statistics
Matches: 186, Mismatches: 23, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 186 1.00
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.34
Consensus pattern (54 bp):
ACAGAATTCATCATATGTTGATGAATAACCGTTTCGGCACTACGTGTGCAATTC
Found at i:631229 original size:2 final size:2
Alignment explanation
Indices: 631222--631264 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
631212 TGTCAAAAAG
631222 AT AT AT 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 AT AT AT
631264 A
1 A
631265 GCTTTTATGG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:633484 original size:20 final size:20
Alignment explanation
Indices: 633458--633510 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
633448 CGATTCAAGT
633458 GGTATCGATACCAAGAGG-G
1 GGTATCGATACCAAGAGGAG
* * *
633477 GAGTATCGATACTATGAGGAT
1 G-GTATCGATACCAAGAGGAG
633498 GGTATCGATACCA
1 GGTATCGATACCA
633511 TTGTTAACAG
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
19 1 0.04
20 26 0.93
21 1 0.04
ACGTcount: A:0.32, C:0.15, G:0.30, T:0.23
Consensus pattern (20 bp):
GGTATCGATACCAAGAGGAG
Found at i:634009 original size:54 final size:54
Alignment explanation
Indices: 633943--634203 Score: 398
Period size: 54 Copynumber: 4.8 Consensus size: 54
633933 TTACTAAATA
* *
633943 GGCACTAAGTGTGCAAAGT-ACGGAATTCATCATATGTTGATGAATAACCGTTTC
1 GGCACTATGTGTGC-AATTCACGGAATTCATCATATGTTGATGAATAACCGTTTC
*
633997 GGCACTATGTGTGTAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTC
1 GGCACTATGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTC
* * *
634051 GACACTATGTGTGCAATTCACTGAATTCATCATGTGTTGATGAATAACCGTTTC
1 GGCACTATGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTC
**
634105 GGCACTATGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAAATGTTTC
1 GGCACTATGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTC
* * * *
634159 AGCACTATGTGTGCAATTCACGAAATTCATAATATGTTTATGAAT
1 GGCACTATGTGTGCAATTCACGGAATTCATCATATGTTGATGAAT
634204 GATTATATGG
Statistics
Matches: 190, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
53 3 0.02
54 187 0.98
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (54 bp):
GGCACTATGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTC
Found at i:634059 original size:27 final size:27
Alignment explanation
Indices: 633975--634060 Score: 72
Period size: 27 Copynumber: 3.2 Consensus size: 27
633965 GAATTCATCA
*
633975 TATGTTGATGAATAACCGTTTCGGCAC
1 TATGTTGATGAATAACCGTTTCGACAC
* * *
634002 TATG-TG-TGTAATTCACGGAATTC-ATCA-
1 TATGTTGATG-AA-TAACCG-TTTCGA-CAC
634029 TATGTTGATGAATAACCGTTTCGACAC
1 TATGTTGATGAATAACCGTTTCGACAC
634056 TATGT
1 TATGT
634061 GTGCAATTCA
Statistics
Matches: 44, Mismatches: 7, Indels: 16
0.66 0.10 0.24
Matches are distributed among these distances:
25 2 0.05
26 9 0.20
27 22 0.50
28 9 0.20
29 2 0.05
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (27 bp):
TATGTTGATGAATAACCGTTTCGACAC
Found at i:640896 original size:2 final size:2
Alignment explanation
Indices: 640889--640918 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
640879 GAATTTATTA
640889 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
640919 CAATTATATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:650632 original size:4 final size:4
Alignment explanation
Indices: 650625--650656 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
650615 TATATGAATG
650625 AATA AATA AATA AATA AATA AATA AATA AATA
1 AATA AATA AATA AATA AATA AATA AATA AATA
650657 CATAGTTGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
AATA
Found at i:652536 original size:19 final size:18
Alignment explanation
Indices: 652501--652536 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
652491 GTATCAAATT
652501 TAAAATTTTAATAAATAA
1 TAAAATTTTAATAAATAA
*
652519 TAAAATTTGTAATTAATA
1 TAAAATTT-TAATAAATA
652537 TTTTTTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.42
Consensus pattern (18 bp):
TAAAATTTTAATAAATAA
Found at i:655624 original size:3 final size:3
Alignment explanation
Indices: 655600--655650 Score: 66
Period size: 3 Copynumber: 16.7 Consensus size: 3
655590 CTACAAAAGC
* * *
655600 AAT ATT AAT ATT AAT AAAT AAT AAT AAT AAT GAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
655646 AAT AA
1 AAT AA
655651 CGGGATGAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
3 38 0.93
4 3 0.07
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:656189 original size:109 final size:111
Alignment explanation
Indices: 655851--656348 Score: 646
Period size: 111 Copynumber: 4.5 Consensus size: 111
655841 TTCAGGGTAG
* * * * * * **
655851 ATTGAATCAGGGTAGACTTGTTCCATTATCACTTATGAAATATCAAATCTTGAAAGAGATTTGAT
1 ATTGAATCAAGGTAGACTTGTTCCACTGTCACTCAGGGAATATCAAATCTTGAAAGAGA-GGGAT
* * * *
655916 CTGTTCCACTTCTTCTGAGGGAATATATCAGATCTAGGAAAGTTGATCC
65 CTGTTCCACTTCCTCTAAGGG-A-ATATCAGATCTGGGAAAGTTGATTC
* *
655965 ATTGAATCAGGGTAGACTTGTTCCACTGTCGCTCAGGGAATATCAAATCTTGAAAGAGAGGGATC
1 ATTGAATCAAGGTAGACTTGTTCCACTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGATC
* * *
656030 TGTTCCGCTTCCTCTGAA-GGAATATCATATCTGGGAAAGTTGATTT
66 TGTTCCACTTCCTCT-AAGGGAATATCAGATCTGGGAAAGTTGATTC
* * * *
656076 ATTGAATCAAGGTAGACTTGTTCCGCTGTCATTCAGGGAATATCAAATCTTG-AA-ATAGGGATA
1 ATTGAATCAAGGTAGACTTGTTCCACTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGATC
656139 TGTTCCACTTCCTCTAAGGGAATATCAGATCTGGGAAAGTTGATTC
66 TGTTCCACTTCCTCTAAGGGAATATCAGATCTGGGAAAGTTGATTC
* * *
656185 ATTGAATCAAGGTAGACTTGTTCCGCTGTCACTCAAGGAATACCAAATCTTGAAAGAGAGGGATC
1 ATTGAATCAAGGTAGACTTGTTCCACTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGATC
656250 TGTTCCACTTCCTCTAAGGGAATATCAGATCTGGGAAAGTTGATTC
66 TGTTCCACTTCCTCTAAGGGAATATCAGATCTGGGAAAGTTGATTC
* * * *
656296 ATTGAATCAAAGCATACTTGTTCCACT-T-ACTCTGAATGGAATATCAAATCTTG
1 ATTGAATCAAGGTAGACTTGTTCCACTGTCACTC---AGGGAATATCAAATCTTG
656349 GAGAAATTGA
Statistics
Matches: 342, Mismatches: 35, Indels: 16
0.87 0.09 0.04
Matches are distributed among these distances:
108 2 0.01
109 100 0.29
110 5 0.01
111 145 0.42
112 17 0.05
113 19 0.06
114 54 0.16
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (111 bp):
ATTGAATCAAGGTAGACTTGTTCCACTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGATC
TGTTCCACTTCCTCTAAGGGAATATCAGATCTGGGAAAGTTGATTC
Found at i:656238 original size:220 final size:223
Alignment explanation
Indices: 655851--656322 Score: 657
Period size: 220 Copynumber: 2.1 Consensus size: 223
655841 TTCAGGGTAG
* * * *
655851 ATTGAATCAGGGTAGACTTGTTCCATTATCACTTATGAAATATCAAATCTTGAAAGAGATTTGAT
1 ATTGAATCAAGGTAGACTTGTTCCACTATCACTTAGGAAATATCAAATCTTGAAAGAG--TGGAT
* * * *
655916 CTGTTCCACTTCTTCTGAGGGAATATATCAGATCTAGGAAAGTTGATCCATTGAATCAGGGTAGA
64 ATGTTCCACTTCCTCTAAGGGAATATATCAGATCTAGGAAAGTTGATCCATTGAATCAAGGTAGA
* * * *
655981 CTTGTTCCACTGTCGCTCAGGGAATATCAAATCTTGAAAGAGAGGGATCTGTTCCGCTTCCTCTG
129 CTTGTTCCACTGTCACTCAAGGAATACCAAATCTTGAAAGAGAGGGATCTGTTCCACTTCCTCT-
* *
656046 AA-GGAATATCATATCTGGGAAAGTTGATTT
193 AAGGGAATATCAGATCTGGGAAAGTTGATTC
* * * *
656076 ATTGAATCAAGGTAGACTTGTTCCGCTGTCA-TTCAGGGAATATCAAATCTTGAAATAG-GGATA
1 ATTGAATCAAGGTAGACTTGTTCCACTATCACTT-AGGAAATATCAAATCTTGAAAGAGTGGATA
* *
656139 TGTTCCACTTCCTCTAAGGG-A-ATATCAGATCTGGGAAAGTTGATTCATTGAATCAAGGTAGAC
65 TGTTCCACTTCCTCTAAGGGAATATATCAGATCTAGGAAAGTTGATCCATTGAATCAAGGTAGAC
*
656202 TTGTTCCGCTGTCACTCAAGGAATACCAAATCTTGAAAGAGAGGGATCTGTTCCACTTCCTCTAA
130 TTGTTCCACTGTCACTCAAGGAATACCAAATCTTGAAAGAGAGGGATCTGTTCCACTTCCTCTAA
656267 GGGAATATCAGATCTGGGAAAGTTGATTC
195 GGGAATATCAGATCTGGGAAAGTTGATTC
* * *
656296 ATTGAATCAAAGCATACTTGTTCCACT
1 ATTGAATCAAGGTAGACTTGTTCCACT
656323 TACTCTGAAT
Statistics
Matches: 220, Mismatches: 25, Indels: 9
0.87 0.10 0.04
Matches are distributed among these distances:
219 2 0.01
220 146 0.66
221 1 0.00
222 21 0.10
224 2 0.01
225 48 0.22
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.31
Consensus pattern (223 bp):
ATTGAATCAAGGTAGACTTGTTCCACTATCACTTAGGAAATATCAAATCTTGAAAGAGTGGATAT
GTTCCACTTCCTCTAAGGGAATATATCAGATCTAGGAAAGTTGATCCATTGAATCAAGGTAGACT
TGTTCCACTGTCACTCAAGGAATACCAAATCTTGAAAGAGAGGGATCTGTTCCACTTCCTCTAAG
GGAATATCAGATCTGGGAAAGTTGATTC
Found at i:656365 original size:66 final size:66
Alignment explanation
Indices: 656250--656962 Score: 1295
Period size: 66 Copynumber: 10.8 Consensus size: 66
656240 GAGAGGGATC
* * * * * *
656250 TGTTCCACTTCCTCT-AAGGGAATATCAGATCTGGGA-AAGTTGATTCATTGAATCAAAGCATAC
1 TGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAGAC
656313 T
66 T
* *
656314 TGTTCCACTTACTCTGAATGGAATATCAAATCTTGGAGAAATTGATCCATTGAATCGAAGCAGAC
1 TGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAGAC
656379 T
66 T
* *
656380 TGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTTGGTCCATTGAATCAAAGCAGAC
1 TGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAGAC
656445 T
66 T
*
656446 TGTTCCACTTACTCTGAAGGGAATATCAAATCTTAGAGAAGTTGATCCATTGAATCGAAGCAGAC
1 TGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAGAC
656511 T
66 T
656512 TGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAGAC
1 TGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAGAC
656577 T
66 T
656578 TGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAGAC
1 TGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAGAC
656643 T
66 T
* *
656644 TGTTCTACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAATCAGAC
1 TGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAGAC
656709 T
66 T
656710 TGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAGAC
1 TGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAGAC
656775 T
66 T
656776 TGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAGAC
1 TGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAGAC
656841 T
66 T
656842 TGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAGAC
1 TGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAGAC
656907 T
66 T
656908 TGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAAT
1 TGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAAT
656963 TGGGATTGAA
Statistics
Matches: 627, Mismatches: 20, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
64 14 0.02
65 18 0.03
66 595 0.95
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (66 bp):
TGTTCCACTTACTCTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAGAC
T
Found at i:658171 original size:28 final size:28
Alignment explanation
Indices: 658122--658183 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
658112 TGAACCCTTC
*
658122 TTTTATTTTTCTTTTCCTTTTTCC-TCA
1 TTTTTTTTTTCTTTTCCTTTTTCCATCA
* *
658149 TTTTTTTTTTTTTTTCATTTTTTCCATTCA
1 TTTTTTTTTTCTTTTC-CTTTTTCCA-TCA
658179 TTTTT
1 TTTTT
658184 CCATTCATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
27 14 0.48
28 7 0.24
30 8 0.28
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (28 bp):
TTTTTTTTTTCTTTTCCTTTTTCCATCA
Found at i:658178 original size:13 final size:13
Alignment explanation
Indices: 658162--658197 Score: 65
Period size: 12 Copynumber: 2.8 Consensus size: 13
658152 TTTTTTTTTT
658162 TTCATTTTTTCCA
1 TTCATTTTTTCCA
658175 TTCA-TTTTTCCA
1 TTCATTTTTTCCA
658187 TTCATTTTTTC
1 TTCATTTTTTC
658198 AGGCGAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 12 0.55
13 10 0.45
ACGTcount: A:0.14, C:0.22, G:0.00, T:0.64
Consensus pattern (13 bp):
TTCATTTTTTCCA
Found at i:661751 original size:25 final size:25
Alignment explanation
Indices: 661713--661783 Score: 67
Period size: 25 Copynumber: 2.8 Consensus size: 25
661703 AATCTATCCC
*
661713 ATATCAAAATAGAATGAAAT-AATAA
1 ATAT-AAAAAAGAATGAAATAAATAA
661738 TATATAAAAAAGAAAT-AAATAAATAA
1 -ATATAAAAAAG-AATGAAATAAATAA
661764 ATA-AATAAAAGAATGGAAAT
1 ATATAA-AAAAGAAT-GAAAT
661784 GATGATATTT
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
24 5 0.13
25 18 0.46
26 16 0.41
ACGTcount: A:0.68, C:0.01, G:0.08, T:0.23
Consensus pattern (25 bp):
ATATAAAAAAGAATGAAATAAATAA
Found at i:661759 original size:4 final size:4
Alignment explanation
Indices: 661719--661772 Score: 51
Period size: 4 Copynumber: 13.8 Consensus size: 4
661709 TCCCATATCA
* *
661719 AAAT AGAAT GAAAT -AAT -AAT ATAT AAA- AAAG AAAT AAAT AAAT AAAT
1 AAAT A-AAT -AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
661766 AAAT AAA
1 AAAT AAA
661773 AGAATGGAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
3 9 0.21
4 27 0.63
5 6 0.14
6 1 0.02
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:671514 original size:3 final size:3
Alignment explanation
Indices: 671490--671540 Score: 66
Period size: 3 Copynumber: 16.7 Consensus size: 3
671480 CTACAAAAGC
* * *
671490 AAT ATT AAT ATT AAT AAAT AAT AAT AAT AAT GAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
671536 AAT AA
1 AAT AA
671541 CGGGATGAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
3 38 0.93
4 3 0.07
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:672045 original size:31 final size:30
Alignment explanation
Indices: 671988--672046 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
671978 TTCGACCCAA
* *
671988 AAATCAACCGACCTAATTTGATCCGACCCG
1 AAATCAACCGACCCAATTTGACCCGACCCG
*
672018 AAATCAACCGACCCCATATTGACCCGACC
1 AAATCAACCGACCCAAT-TTGACCCGACC
672047 TGATACCCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 15 0.60
31 10 0.40
ACGTcount: A:0.34, C:0.37, G:0.12, T:0.17
Consensus pattern (30 bp):
AAATCAACCGACCCAATTTGACCCGACCCG
Found at i:675328 original size:3 final size:3
Alignment explanation
Indices: 675320--675422 Score: 134
Period size: 3 Copynumber: 33.7 Consensus size: 3
675310 TTATTTATTA
* *
675320 AAT AAT AAT AAT ATAT AAT ATT AAT ATT AAT AAT AAAT AAT AAT AAT
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT
* * **
675367 AAT AAT AAT TAT AAT AAT AAT AAT ACT AAT AAT AAT AAT TTT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
675415 AAT AAT AA
1 AAT AAT AA
675423 ATTTAAATGA
Statistics
Matches: 86, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
3 80 0.93
4 6 0.07
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (3 bp):
AAT
Found at i:676175 original size:227 final size:228
Alignment explanation
Indices: 675553--676716 Score: 2009
Period size: 227 Copynumber: 5.1 Consensus size: 228
675543 GAAATGTTGA
* * *
675553 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTTGAAAACATCAAAAAGCTCCCG
1 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGG-TTTTGAAAACATCAAAAAACTCCCG
* *
675618 AAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCGAAGG-TTTGAAAACATCA
65 AAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCA
*
675682 AAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTT
130 AAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTT
675747 TGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGG
195 TGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGG
* * * *
675781 AAACATCATGCACTGTAGGACTTACAGATGACCCGAAGGTTTTTGAAAACATCAAAAAGCTCCCA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGG-TTTTGAAAACATCAAAAAACTCCCG
*
675846 AAGGCTTTTTGGAAACATCATGCACT-ACAGGACTTATAGATGACCCTAAGGCTTTG-AAACATC
65 AAGGCTTTTTGGAAACATCATGCACTGA-AGGACTTACAGATGACCCTAAGGCTTTGAAAACATC
675909 AAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCT
129 AAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCT
675974 TTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGG
194 TTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGG
* * **
676009 AAATATCATGCACTGAAAGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAACTCCTAA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAACTCCCGA
*
676074 AGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTG-AAACATCAA
66 AGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAA
* * *
676138 AAATCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATAACCGTAAGGCTTT
131 AAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTT
*
676203 AAAAACATCAAAAAGCTCCCGAAGGCTTTTTGG
196 GAAAACATCAAAAAGCTCCCGAAGGCTTTTTGG
* *
676236 AAACATCACGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATC-AAAAACATCCCG
1 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAAC-TCCCG
*
676300 AAGGCTTTTTGGAAACATCATGCACTAAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCA
65 AAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCA
676365 AAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTT
130 AAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTT
676430 TGAAAACATC-AAAAGCTCCCGAAGGCTTTTTGG
195 TGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGG
*
676463 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGA-TCCCG
1 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAA-ACTCCCG
676527 AAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCA
65 AAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCA
676592 AAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTT
130 AAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTT
*
676657 TGAAAACATCAAAAAGATCCCGAAGGCTTTTTGG
195 TGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGG
676691 AAACATCATGCACTGAAGGACTTACA
1 AAACATCATGCACTGAAGGACTTACA
676717 AATGTGGGAA
Statistics
Matches: 894, Mismatches: 34, Indels: 16
0.95 0.04 0.02
Matches are distributed among these distances:
226 6 0.01
227 502 0.56
228 381 0.43
229 5 0.01
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.23
Consensus pattern (228 bp):
AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAACTCCCGA
AGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAA
AAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTT
GAAAACATCAAAAAGCTCCCGAAGGCTTTTTGG
Found at i:676231 original size:303 final size:304
Alignment explanation
Indices: 675553--676716 Score: 1966
Period size: 303 Copynumber: 3.8 Consensus size: 304
675543 GAAATGTTGA
* * * *
675553 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTTGAAAACATCAAAAAGCTCCCG
1 AAACATCATGCACTGAAGGACTTACAGATAACCCTAAGG-CTTTGAAAACATCAAAAAGCTCCCG
* *
675618 AAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCGAAGG-TTTGAAAACATCA
65 AAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCA
* *
675682 AAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTT
130 AAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAAGACTTACAGATGACCCTAAGGCTT
* *
675747 TGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGA
195 TGAAAACATCAAAAAACTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGA
* * *
675812 CCCGAAGGTTTTTGAAAACATCAAAAAGCTCCCAAAGGCTTTTTGG
260 CCCTAAGG-CTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGG
* *
675858 AAACATCATGCACT-ACAGGACTTATAGATGACCCTAAGGCTTTG-AAACATCAAAAAGCTCCCG
1 AAACATCATGCACTGA-AGGACTTACAGATAACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCG
675921 AAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCA
65 AAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCA
* *
675986 AAAAGCTCCCGAAGGCTTTTTGGAAATATCATGCACTGAAAGACTTACAGATGACCCTAAGGTTT
130 AAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAAGACTTACAGATGACCCTAAGGCTT
** *
676051 TGAAAACATCAAAAAACTCCTAAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGA
195 TGAAAACATCAAAAAACTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGA
*
676116 CCCTAAGGCTTTG-AAACATCAAAAATCTCCCGAAGGCTTTTTGG
260 CCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGG
* *
676160 AAACATCATGCACTGAAGGACTTACAGATAACCGTAAGGCTTTAAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATAACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
*
676225 AGGCTTTTTGGAAACATCACGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAA
66 AGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAA
676290 AAA-CATCCCGAAGGCTTTTTGGAAACATCATGCACT-AAAGGACTTACAGATGACCCTAAGGCT
131 AAAGC-TCCCGAAGGCTTTTTGGAAACATCATGCACTGAAA-GACTTACAGATGACCCTAAGGCT
*
676353 TTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATG
194 TTGAAAACATCAAAAAACTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATG
676418 ACCCTAAGGCTTTGAAAACATC-AAAAGCTCCCGAAGGCTTTTTGG
259 ACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGG
* *
676463 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGATCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATAACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
676528 AGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAA
66 AGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAA
*
676593 AAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTT
131 AAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAAGACTTACAGATGACCCTAAGGCTTT
676658 GAAAACATCAAAAAGA-TCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACA
196 GAAAACATCAAAAA-ACTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACA
676717 AATGTGGGAA
Statistics
Matches: 812, Mismatches: 37, Indels: 22
0.93 0.04 0.03
Matches are distributed among these distances:
302 71 0.09
303 550 0.68
304 157 0.19
305 34 0.04
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.23
Consensus pattern (304 bp):
AAACATCATGCACTGAAGGACTTACAGATAACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
AGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAA
AAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAAGACTTACAGATGACCCTAAGGCTTT
GAAAACATCAAAAAACTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGAC
CCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGG
Found at i:676747 original size:76 final size:76
Alignment explanation
Indices: 675553--676716 Score: 2016
Period size: 76 Copynumber: 15.3 Consensus size: 76
675543 GAAATGTTGA
* * *
675553 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTTGAAAACATCAAAAAGCTCCCG
1 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGG-CTTTGAAAACATCAAAAAGCTCCCG
675618 AAGGCTTTTTGG
65 AAGGCTTTTTGG
* *
675630 AAACATCATGCACTGTAGGACTTACAGATGACCCGAAGG-TTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
675694 AGGCTTTTTGG
66 AGGCTTTTTGG
*
675705 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
675770 AGGCTTTTTGG
66 AGGCTTTTTGG
* * * *
675781 AAACATCATGCACTGTAGGACTTACAGATGACCCGAAGGTTTTTGAAAACATCAAAAAGCTCCCA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGG-CTTTGAAAACATCAAAAAGCTCCCG
675846 AAGGCTTTTTGG
65 AAGGCTTTTTGG
*
675858 AAACATCATGCACT-ACAGGACTTATAGATGACCCTAAGGCTTTG-AAACATCAAAAAGCTCCCG
1 AAACATCATGCACTGA-AGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCG
675921 AAGGCTTTTTGG
65 AAGGCTTTTTGG
675933 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
675998 AGGCTTTTTGG
66 AGGCTTTTTGG
* * * * **
676009 AAATATCATGCACTGAAAGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAACTCCTAA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
676074 AGGCTTTTTGG
66 AGGCTTTTTGG
* *
676085 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTG-AAACATCAAAAATCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
676149 AGGCTTTTTGG
66 AGGCTTTTTGG
* * *
676160 AAACATCATGCACTGAAGGACTTACAGATAACCGTAAGGCTTTAAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
676225 AGGCTTTTTGG
66 AGGCTTTTTGG
*
676236 AAACATCACGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAA-CATCCCG
1 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGC-TCCCG
676300 AAGGCTTTTTGG
65 AAGGCTTTTTGG
*
676312 AAACATCATGCACTAAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
676377 AGGCTTTTTGG
66 AGGCTTTTTGG
676388 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATC-AAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
676452 AGGCTTTTTGG
66 AGGCTTTTTGG
*
676463 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGATCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
676528 AGGCTTTTTGG
66 AGGCTTTTTGG
676539 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
676604 AGGCTTTTTGG
66 AGGCTTTTTGG
*
676615 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGATCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
676680 AGGCTTTTTGG
66 AGGCTTTTTGG
676691 AAACATCATGCACTGAAGGACTTACA
1 AAACATCATGCACTGAAGGACTTACA
676717 AATGTGGGAA
Statistics
Matches: 1036, Mismatches: 42, Indels: 19
0.94 0.04 0.02
Matches are distributed among these distances:
75 288 0.28
76 640 0.62
77 108 0.10
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.23
Consensus pattern (76 bp):
AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
AGGCTTTTTGG
Found at i:677594 original size:22 final size:22
Alignment explanation
Indices: 677569--677623 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
677559 CATAAAGCTT
677569 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
677591 TCATCTTTAAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
677613 TCATCTTTGAA
1 TCATCTTTGAA
677624 GAGTGTAGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:678056 original size:54 final size:54
Alignment explanation
Indices: 677974--678313 Score: 500
Period size: 54 Copynumber: 6.1 Consensus size: 54
677964 AGAATAGCAG
* *** **
677974 GTTCGTAAAACATTTGATAGTGCATTCATCCTTTCCTGTGGCTTCTGCTCAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTTTTGTGGCTTCTGCTCAGAT
678028 GTTCGTAAAACATTTGACAACACATTCATCCTTTTTTGTGGCTTCTGCTCAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTTTTGTGGCTTCTGCTCAGAT
678082 GTTCGTAAAACATTTGACAACACATTCATCCTTTTTTGTGGCTTCTGCTCAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTTTTGTGGCTTCTGCTCAGAT
*
678136 GTTCGTAAAACATTTGACAACATATTCATCCTTTTTTGTGGCTTCTGCTCAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTTTTGTGGCTTCTGCTCAGAT
*
678190 GTTCGTAAAACATTTGACAACACATTCATCTTTTTTTGTGGCTTCTGCTCAGATGTT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTTTTGTGGCTTCTGCTCAGA---T
678247 CGTAAAACATTTCGTAAAACATTTGACAACACATTCATCCTTTTTTGTGGCTTCTGCTCAGAT
1 -G--------TTCGTAAAACATTTGACAACACATTCATCCTTTTTTGTGGCTTCTGCTCAGAT
678310 GTTC
1 GTTC
678314 TCAATCATTG
Statistics
Matches: 264, Mismatches: 10, Indels: 24
0.89 0.03 0.08
Matches are distributed among these distances:
54 209 0.79
57 1 0.00
58 1 0.00
62 1 0.00
63 1 0.00
66 51 0.19
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.39
Consensus pattern (54 bp):
GTTCGTAAAACATTTGACAACACATTCATCCTTTTTTGTGGCTTCTGCTCAGAT
Found at i:678262 original size:12 final size:12
Alignment explanation
Indices: 678245--678270 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
678235 TGCTCAGATG
678245 TTCGTAAAACAT
1 TTCGTAAAACAT
678257 TTCGTAAAACAT
1 TTCGTAAAACAT
678269 TT
1 TT
678271 GACAACACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (12 bp):
TTCGTAAAACAT
Found at i:679428 original size:35 final size:34
Alignment explanation
Indices: 679389--679461 Score: 101
Period size: 35 Copynumber: 2.1 Consensus size: 34
679379 CATTACTTCT
679389 TATTGAGATGAACCTTCAAAATGCCCAAATATTCA
1 TATTGAGATGAACCTTCAAAATGCCCAAATATT-A
** * *
679424 TATTGTTATGAGCCTTCAAAATGCCCCAATATTA
1 TATTGAGATGAACCTTCAAAATGCCCAAATATTA
679458 TATT
1 TATT
679462 TCTGGTTGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
34 5 0.15
35 29 0.85
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.34
Consensus pattern (34 bp):
TATTGAGATGAACCTTCAAAATGCCCAAATATTA
Found at i:680516 original size:114 final size:114
Alignment explanation
Indices: 680316--680537 Score: 381
Period size: 114 Copynumber: 1.9 Consensus size: 114
680306 ACGATCATGC
* * * *
680316 AATTCATCTTTTAATTCCAATGATTGGTTTTAGGGTTCATACTAAATCAGATCAGATAACTCAAA
1 AATTCATCTTTCAAATCCAATGATTGGTTTTAGGGTTCATACCAAACCAGATCAGATAACTCAAA
*
680381 GAACACTTCCAGAAGATGCTATTGGATCTCCTTATTTCTACTATGAGCA
66 GAACACTTCCAGAAGATGCTATTGGATCTCCTTATTCCTACTATGAGCA
* *
680430 AATTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTTATACCAAACCAGATCAGATAACTCAAA
1 AATTCATCTTTCAAATCCAATGATTGGTTTTAGGGTTCATACCAAACCAGATCAGATAACTCAAA
680495 GAACACTTCCAGAAGATGCTATTGGATCTCCTTATTCCTACTA
66 GAACACTTCCAGAAGATGCTATTGGATCTCCTTATTCCTACTA
680538 CAAGAACGTG
Statistics
Matches: 101, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
114 101 1.00
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.34
Consensus pattern (114 bp):
AATTCATCTTTCAAATCCAATGATTGGTTTTAGGGTTCATACCAAACCAGATCAGATAACTCAAA
GAACACTTCCAGAAGATGCTATTGGATCTCCTTATTCCTACTATGAGCA
Found at i:682881 original size:21 final size:21
Alignment explanation
Indices: 682832--682895 Score: 92
Period size: 21 Copynumber: 3.0 Consensus size: 21
682822 CATATGAAAT
* *
682832 TTGTCCCGAATGACCTGTGAA
1 TTGTCCCGAAGGACCTATGAA
*
682853 TATGTCCCGAAGGACCTATGAG
1 T-TGTCCCGAAGGACCTATGAA
682875 TTGTCCCGAAGGACCTATGAA
1 TTGTCCCGAAGGACCTATGAA
682896 ACCCTCGACT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
21 20 0.53
22 18 0.47
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (21 bp):
TTGTCCCGAAGGACCTATGAA
Found at i:684115 original size:22 final size:21
Alignment explanation
Indices: 684084--684129 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
684074 ATTCTGTCGT
* *
684084 TTGAAGGGGTATCGGTTTCCCC
1 TTGAAGGGGTA-CCGATTCCCC
*
684106 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
684127 TTG
1 TTG
684130 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.15, C:0.24, G:0.28, T:0.33
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:691937 original size:3 final size:3
Alignment explanation
Indices: 691929--692022 Score: 116
Period size: 3 Copynumber: 30.7 Consensus size: 3
691919 TTATTTATTA
* *
691929 AAT AAT AAT AAT ATAT AAT ATT AAT ATT AAT AAT AAAT AAT AAT AAT
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT
* * **
691976 AAT AAT TAT AAT AAT ACT AAT AAT AAT AAT TTT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
692023 ATTTAAATGA
Statistics
Matches: 77, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
3 71 0.92
4 6 0.08
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (3 bp):
AAT
Found at i:694365 original size:3 final size:3
Alignment explanation
Indices: 694359--694426 Score: 55
Period size: 3 Copynumber: 21.7 Consensus size: 3
694349 TTTATTTTCT
** ** *
694359 TTA TTA TTA TTA TTA TTA AAA TTA TTA AAA TTA TTA ATA TTA TATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
*
694405 TACA TATA TTA TTA TTA TTA TT
1 T-TA T-TA TTA TTA TTA TTA TT
694427 TAATAAATAT
Statistics
Matches: 52, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
3 43 0.83
4 9 0.17
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (3 bp):
TTA
Found at i:695766 original size:22 final size:22
Alignment explanation
Indices: 695741--695789 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 22
695731 ATTATTTATT
*
695741 TATTATTTTGTTATTACTTTT-A
1 TATTATTTTATTATTA-TTTTCA
695763 TATTATTTTATTATTATTTTCA
1 TATTATTTTATTATTATTTTCA
695785 TATTA
1 TATTA
695790 GTCACATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 4 0.16
22 21 0.84
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (22 bp):
TATTATTTTATTATTATTTTCA
Found at i:695788 original size:11 final size:10
Alignment explanation
Indices: 695720--695789 Score: 59
Period size: 11 Copynumber: 6.3 Consensus size: 10
695710 GCTTTTTAAT
695720 TTATTTTAATCA
1 TTATTTT-AT-A
*
695732 TTATTTATTTA
1 TTATTT-TATA
*
695743 TTATTTTGTTA
1 TTATTTT-ATA
695754 TTACTTTTATA
1 TTA-TTTTATA
695765 TTATTTTATTA
1 TTATTTTA-TA
695776 TTATTTTCATA
1 TTATTTT-ATA
695787 TTA
1 TTA
695790 GTCACATAAA
Statistics
Matches: 51, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
10 6 0.12
11 32 0.63
12 12 0.24
13 1 0.02
ACGTcount: A:0.27, C:0.04, G:0.01, T:0.67
Consensus pattern (10 bp):
TTATTTTATA
Found at i:696123 original size:116 final size:115
Alignment explanation
Indices: 695970--696181 Score: 307
Period size: 116 Copynumber: 1.8 Consensus size: 115
695960 CATATTTTAA
** * *
695970 TATTTATTTATTTATCAATATTGAAGGAAAGAGTTGTCTTAAAGCAACTAGAAACCCTTTTCTAA
1 TATTTATTTATTTATCAATATCAAAAGAAAGAGTTGTCTTAAAGCAACTAGAAACCATTTTCTAA
*
696035 TATTTTTAAATAAATAAATATCTTACTATATTAAAATAATTTTTTATTAT
66 TATTTCTAAATAAATAAATATCTTACTATATTAAAATAATTTTTTATTAT
* * * * *
696085 TATTTATTTATTTTTTTAATATCAAAAGAAAGAGTTGTCTTAAAGCACCTAGAAGCCATTTTCTG
1 TATTTATTTA-TTTATCAATATCAAAAGAAAGAGTTGTCTTAAAGCAACTAGAAACCATTTTCTA
* *
696150 ATATTTCTAAATAAATAAATATGTTATTATAT
65 ATATTTCTAAATAAATAAATATCTTACTATAT
696182 ATATGTAGAC
Statistics
Matches: 84, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
115 10 0.12
116 74 0.88
ACGTcount: A:0.39, C:0.09, G:0.08, T:0.44
Consensus pattern (115 bp):
TATTTATTTATTTATCAATATCAAAAGAAAGAGTTGTCTTAAAGCAACTAGAAACCATTTTCTAA
TATTTCTAAATAAATAAATATCTTACTATATTAAAATAATTTTTTATTAT
Found at i:696218 original size:3 final size:3
Alignment explanation
Indices: 696212--696329 Score: 173
Period size: 3 Copynumber: 38.7 Consensus size: 3
696202 TCATTTATAT
** *
696212 TTA TTA TTA TTA TTA TTA AAA TTA TTA TTA TTA TTA TTA GTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
696260 TTA TTA TTA TTA TTA TTA TTA TTA TTA TCA TTA TTTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA
*
696306 TTA TTA ATA TTA TATA TTA TTA TT
1 TTA TTA TTA TTA T-TA TTA TTA TT
696330 TAATAAATAA
Statistics
Matches: 103, Mismatches: 10, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
3 97 0.94
4 6 0.06
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:696515 original size:30 final size:27
Alignment explanation
Indices: 696447--696510 Score: 119
Period size: 27 Copynumber: 2.4 Consensus size: 27
696437 CCTAGCCACC
*
696447 CCCAGCCGCCTCTGATGCTTCCAGAAT
1 CCCAGCCGCCTCTGATGCTTCAAGAAT
696474 CCCAGCCGCCTCTGATGCTTCAAGAAT
1 CCCAGCCGCCTCTGATGCTTCAAGAAT
696501 CCCAGCCGCC
1 CCCAGCCGCC
696511 GCCTCACTGC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.19, C:0.44, G:0.19, T:0.19
Consensus pattern (27 bp):
CCCAGCCGCCTCTGATGCTTCAAGAAT
Found at i:697861 original size:19 final size:19
Alignment explanation
Indices: 697837--697873 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
697827 GAAATGTTTA
*
697837 ATTTATATTTTAGATATTT
1 ATTTATATTTTAAATATTT
*
697856 ATTTATTTTTTAAATATT
1 ATTTATATTTTAAATATT
697874 GAAGGAAAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (19 bp):
ATTTATATTTTAAATATTT
Found at i:700631 original size:21 final size:21
Alignment explanation
Indices: 700607--700646 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
700597 CTTTTCATAC
700607 ATGCATTTACATTTTGTATCT
1 ATGCATTTACATTTTGTATCT
*
700628 ATGCATTTTCATTTTGTAT
1 ATGCATTTACATTTTGTAT
700647 TTTTACTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.12, G:0.10, T:0.55
Consensus pattern (21 bp):
ATGCATTTACATTTTGTATCT
Found at i:705517 original size:83 final size:82
Alignment explanation
Indices: 705343--705539 Score: 340
Period size: 83 Copynumber: 2.4 Consensus size: 82
705333 ATGAATGCCT
*
705343 TTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACCATCATTGAATTTGGAAGATG
1 TTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACCATCATTGAATTTAGAAGATG
705408 AATGTGCTCATAGCATC
66 AATGTGCTCATAGCATC
*
705425 TTCTAGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACCAATCATTGAATTTAGAAGAT
1 TTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACC-ATCATTGAATTTAGAAGAT
* *
705490 GAATTTGTTCATAGCATC
65 GAATGTGCTCATAGCATC
*
705508 TTCTGGAAGTGTTCTTTGAGTTATTTGATCTG
1 TTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
705540 AAGAAGTGTA
Statistics
Matches: 108, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
82 44 0.41
83 64 0.59
ACGTcount: A:0.25, C:0.13, G:0.22, T:0.40
Consensus pattern (82 bp):
TTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACCATCATTGAATTTAGAAGATG
AATGTGCTCATAGCATC
Found at i:707912 original size:22 final size:22
Alignment explanation
Indices: 707886--707940 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
707876 ATCTACACTC
*
707886 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGACAGATTCTCTT
707908 TTCAAAGATGACAGATTCTCTT
1 TTCAAAGATGACAGATTCTCTT
707930 TTCAAAGATGA
1 TTCAAAGATGA
707941 AAACTTTATG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.36
Consensus pattern (22 bp):
TTCAAAGATGACAGATTCTCTT
Found at i:708528 original size:112 final size:111
Alignment explanation
Indices: 708377--709356 Score: 1305
Period size: 112 Copynumber: 8.8 Consensus size: 111
708367 TTCCAGGTCG
* *
708377 AGTTTATAATGAGAAGAAC-CATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
** * * *
708441 AACCTTTTAATTGAA-TCTATTATTTGATGGATCATCATTTCCAGAGA
65 AACCTTTTGCTTGAATTC-ATCACTTGATGGATTATCATTTCCAGAGA
* *
708488 AGGTTCATAATGATAAGAACTCATCTGAAGAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
1 A-GTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* * * **
708553 AACCTTTTCCCTGAATTCATCACTTGATGAATTATTTTTTCCAGAGAA
65 AACCTTTTGCTTGAATTCATCACTTGATGGATTATCATTTCCAGAG-A
* *
708601 AGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCA
** * *
708666 ACCTTTTGCTCAAATCCATCA-TTCGATGGATTGA-CATTTCCATAGA
66 ACCTTTTGCTTGAATTCATCACTT-GATGGATT-ATCATTTCCAGAGA
*
708712 AGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCA
* * * **
708777 ACCTTTTCCCTGAATTCATCACTTGATGAATTATTTTTTCCAGAGAA
66 ACCTTTTGCTTGAATTCATCACTTGATGGATTATCATTTCCAGAG-A
* *
708824 AGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCA
** * *
708889 ACCTTTTGCTCAAATCCATCA-TTCGATGGATTGA-CATTTCCATAGA
66 ACCTTTTGCTTGAATTCATCACTT-GATGGATT-ATCATTTCCAGAGA
*
708935 AGTTCATAATGAGAAGAACTCATATGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* * *
709000 AACCTTTTACTTGAATTCATCACTTGATAGATTATCATTGCCAGAGAA
65 AACCTTTTGCTTGAATTCATCACTTGATGGATTATCATTTCCAGAG-A
* *
709048 AGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCA
** * * * *
709113 ACCTTTTGCTCAAATCCATTATTTGATGGATCATCATTTCCAGAGA
66 ACCTTTTGCTTGAATTCATCACTTGATGGATTATCATTTCCAGAGA
709159 AGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
1 A-GTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
**
709224 CAACCTTTTG-TCTGAATTCATCACTTGATGGATTATTTTTTCCAGAGA
64 CAACCTTTTGCT-TGAATTCATCACTTGATGGATTATCATTTCCAGAGA
* *
709272 AGTTCATAATGAGAAGAACTCATCTGAAGA--AGGAAGAAGTTCATAATAAGAAGAATTTGTTCA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCA
* *
709335 ACTTTTTGCAT-AATTCTATCAC
66 ACCTTTTGCTTGAATTC-ATCAC
709357 AGAAGGAGAT
Statistics
Matches: 765, Mismatches: 84, Indels: 42
0.86 0.09 0.05
Matches are distributed among these distances:
108 5 0.01
109 44 0.06
110 1 0.00
111 131 0.17
112 467 0.61
113 117 0.15
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (111 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCA
ACCTTTTGCTTGAATTCATCACTTGATGGATTATCATTTCCAGAGA
Found at i:708664 original size:20 final size:20
Alignment explanation
Indices: 708602--708665 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
708592 TCCAGAGAAA
708602 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAACTT
* ***
708622 -ATC-TGAA-GAGGAAGAAGAA
1 GTTCAT-AATGA-GAAGAACTT
708641 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAACTT
708661 GTTCA
1 GTTCA
708666 ACCTTTTGCT
Statistics
Matches: 31, Mismatches: 8, Indels: 10
0.63 0.16 0.20
Matches are distributed among these distances:
18 3 0.10
19 10 0.32
20 15 0.48
21 3 0.10
ACGTcount: A:0.42, C:0.09, G:0.23, T:0.25
Consensus pattern (20 bp):
GTTCATAATGAGAAGAACTT
Found at i:708887 original size:20 final size:20
Alignment explanation
Indices: 708825--708888 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
708815 TCCAGAGAAA
708825 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAACTT
* ***
708845 -ATC-TGAA-GAGGAAGAAGAA
1 GTTCAT-AATGA-GAAGAACTT
708864 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAACTT
708884 GTTCA
1 GTTCA
708889 ACCTTTTGCT
Statistics
Matches: 31, Mismatches: 8, Indels: 10
0.63 0.16 0.20
Matches are distributed among these distances:
18 3 0.10
19 10 0.32
20 15 0.48
21 3 0.10
ACGTcount: A:0.42, C:0.09, G:0.23, T:0.25
Consensus pattern (20 bp):
GTTCATAATGAGAAGAACTT
Found at i:709111 original size:20 final size:20
Alignment explanation
Indices: 709049--709112 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
709039 GCCAGAGAAA
709049 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAACTT
* ***
709069 -ATC-TGAA-GAGGAAGAAGAA
1 GTTCAT-AATGA-GAAGAACTT
709088 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAACTT
709108 GTTCA
1 GTTCA
709113 ACCTTTTGCT
Statistics
Matches: 31, Mismatches: 8, Indels: 10
0.63 0.16 0.20
Matches are distributed among these distances:
18 3 0.10
19 10 0.32
20 15 0.48
21 3 0.10
ACGTcount: A:0.42, C:0.09, G:0.23, T:0.25
Consensus pattern (20 bp):
GTTCATAATGAGAAGAACTT
Found at i:709131 original size:224 final size:224
Alignment explanation
Indices: 708377--709343 Score: 1511
Period size: 224 Copynumber: 4.3 Consensus size: 224
708367 TTCCAGGTCG
* * * *
708377 AGTTTATAATGAGAAGAAC-CATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTTATCTGAAG-AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
** ** * * * *
708441 AACCTTTTAATTGAATCTATTATTTGATGGATCATCATTTCCAGAGAAGGTTCATAATGATAAGA
65 AACCTTTTGCTCAAATCCATCATTCGATGGATCATCATTTCCAGAGAAGGTTCATAATGAGAAGA
708506 ACTCATCTGAAGAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTCCCTGAATTC
130 ACTCATCTGAAGAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTCCCTGAATTC
708571 ATCACTTGATGAATTATTTTTTCCAGAGAA
195 ATCACTTGATGAATTATTTTTTCCAGAGAA
708601 AGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
1 AGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
* *
708666 ACCTTTTGCTCAAATCCATCATTCGATGGATTGA-CATTTCCATAGAA-GTTCATAATGAGAAGA
66 ACCTTTTGCTCAAATCCATCATTCGATGGA-TCATCATTTCCAGAGAAGGTTCATAATGAGAAGA
708729 ACTCATCTGAAGAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTCCCTGAATTC
130 ACTCATCTGAAGAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTCCCTGAATTC
708794 ATCACTTGATGAATTATTTTTTCCAGAGAA
195 ATCACTTGATGAATTATTTTTTCCAGAGAA
708824 AGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
1 AGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
* *
708889 ACCTTTTGCTCAAATCCATCATTCGATGGATTGA-CATTTCCATAGAA-GTTCATAATGAGAAGA
66 ACCTTTTGCTCAAATCCATCATTCGATGGA-TCATCATTTCCAGAGAAGGTTCATAATGAGAAGA
* * * *
708952 ACTCATATGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTGAATT
130 ACTCATCTGAAG-AGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTCCCTGAATT
** *
709017 CATCACTTGAT-AGATTATCATTGCCAGAGAA
194 CATCACTTGATGA-ATTATTTTTTCCAGAGAA
709048 AGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
1 AGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
* *
709113 ACCTTTTGCTCAAATCCATTATTTGATGGATCATCATTTCCAGAGAAGGTTCATAATGAGAAGAA
66 ACCTTTTGCTCAAATCCATCATTCGATGGATCATCATTTCCAGAGAAGGTTCATAATGAGAAGAA
* **
709178 CTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTC
131 CTCATCTGAAG-AGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTCCCTGAATTC
*
709243 ATCACTTGATGGATTATTTTTTCCAGAG-A
195 ATCACTTGATGAATTATTTTTTCCAGAGAA
* * * *
709272 AGTTCATAATGAGAAGAACTCATCTGAAGA--AGGAAGAAGTTCATAATAAGAAGAATTTGTTCA
1 AGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
*
709335 ACTTTTTGC
66 ACCTTTTGC
709344 ATAATTCTAT
Statistics
Matches: 698, Mismatches: 38, Indels: 16
0.93 0.05 0.02
Matches are distributed among these distances:
222 38 0.05
223 252 0.36
224 297 0.43
225 111 0.16
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (224 bp):
AGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
ACCTTTTGCTCAAATCCATCATTCGATGGATCATCATTTCCAGAGAAGGTTCATAATGAGAAGAA
CTCATCTGAAGAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTCCCTGAATTCA
TCACTTGATGAATTATTTTTTCCAGAGAA
Found at i:709895 original size:76 final size:76
Alignment explanation
Indices: 709747--710770 Score: 1863
Period size: 76 Copynumber: 13.5 Consensus size: 76
709737 CTATTTCTCA
*
709747 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAAAAGCCTTCGGGAGCTTTTTGATGTTTT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCC---AAAAAGCCTTCAGGAGCTTTTTGATGTTTT
709812 CAAAGCCTTCGGGT
63 CAAAGCCTTCGGGT
709826 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
709891 AGCCTTCGGGT
66 AGCCTTCGGGT
*
709902 CATCTGTAAGTCCTCCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
709967 AGCCTTCGGGT
66 AGCCTTCGGGT
*
709978 CATCTGTAAGTCCTCCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
710043 AGCCTTCGGGT
66 AGCCTTCGGGT
710054 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
710119 AGCCTTCGGGT
66 AGCCTTCGGGT
*
710130 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
710195 AGCCTTCGGGT
66 AGCCTTCGGGT
*
710206 CATCTGTAAGTCCTCCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
710271 AGCCTTCGGGT
66 AGCCTTCGGGT
*
710282 CATCTGTAAGTCCTCCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGC-TTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
710346 AGCCTTCGGGT
66 AGCCTTCGGGT
*
710357 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC-TTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
*
710421 AGCCTTCCGGT
66 AGCCTTCGGGT
*
710432 CATCTGTAAGTCCTCCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
710497 AGCCTTCGGGT
66 AGCCTTCGGGT
*
710508 CATCTGTAAGTCCTCCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
710573 AGCCTTCGGGT
66 AGCCTTCGGGT
*
710584 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
710649 AGCCTTCGGGT
66 AGCCTTCGGGT
* *
710660 CATCTATAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
710725 AGCCTTCGGGT
66 AGCCTTCGGGT
* * *
710736 CATCTATAAATCCTTCAGTGCATGATGTTTTCAAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAA
710771 CATTTCCATC
Statistics
Matches: 927, Mismatches: 17, Indels: 5
0.98 0.02 0.01
Matches are distributed among these distances:
75 145 0.16
76 750 0.81
79 32 0.03
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.35
Consensus pattern (76 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
AGCCTTCGGGT
Found at i:710903 original size:3 final size:3
Alignment explanation
Indices: 710897--711001 Score: 147
Period size: 3 Copynumber: 34.7 Consensus size: 3
710887 TCATTTATAT
** *
710897 TTA TTA TTA TTA TTA TTA AAA TTA TTA TTA TTA TTA TTA GTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
710945 TTA TTA TTA TTA TCA TTA TTA TCA TTA TTA TTA TTA TTA ATA TTA TATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
710994 TTA TTA TT
1 TTA TTA TT
711002 TAATAAATAA
Statistics
Matches: 89, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
3 86 0.97
4 3 0.03
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:711187 original size:30 final size:27
Alignment explanation
Indices: 711119--711182 Score: 119
Period size: 27 Copynumber: 2.4 Consensus size: 27
711109 CCTAGCCACC
*
711119 CCCAGCCGCCTCTGATGCTTCCAGAAT
1 CCCAGCCGCCTCTGATGCTTCAAGAAT
711146 CCCAGCCGCCTCTGATGCTTCAAGAAT
1 CCCAGCCGCCTCTGATGCTTCAAGAAT
711173 CCCAGCCGCC
1 CCCAGCCGCC
711183 GCCTCACTGC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.19, C:0.44, G:0.19, T:0.19
Consensus pattern (27 bp):
CCCAGCCGCCTCTGATGCTTCAAGAAT
Found at i:712534 original size:19 final size:19
Alignment explanation
Indices: 712510--712546 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
712500 GAAATGTTTA
*
712510 ATTTATATTTTAGATATTT
1 ATTTATATTTTAAATATTT
*
712529 ATTTATTTTTTAAATATT
1 ATTTATATTTTAAATATT
712547 GAAGGAAAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (19 bp):
ATTTATATTTTAAATATTT
Found at i:713113 original size:2 final size:2
Alignment explanation
Indices: 713106--713133 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
713096 GGTTACGACA
713106 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
713134 TCTTTCAATT
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
Done.