Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 143 of 255
Found at i:46332142 original size:10 final size:10
Alignment explanation
Indices: 46332127--46332158 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
46332117 TAAATACATT
46332127 TAATTAAAGA
1 TAATTAAAGA
46332137 TAATTAAAGA
1 TAATTAAAGA
46332147 TAATTAAA-A
1 TAATTAAAGA
46332156 TAA
1 TAA
46332159 AATCCTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (10 bp):
TAATTAAAGA
Found at i:46332184 original size:27 final size:26
Alignment explanation
Indices: 46332154--46332216 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
46332144 AGATAATTAA
46332154 AATAAAATCCTAAAATTAAATAATCCT
1 AATAAAATCCTAAAATT-AATAATCCT
* * * *
46332181 AATAATTATCTTAATATTAATTATCCT
1 AATAA-AATCCTAAAATTAATAATCCT
46332208 AATATAAAT
1 AATA-AAAT
46332217 AAAATGGAGT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
27 19 0.66
28 10 0.34
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (26 bp):
AATAAAATCCTAAAATTAATAATCCT
Found at i:46332203 original size:15 final size:15
Alignment explanation
Indices: 46332183--46332212 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
46332173 ATAATCCTAA
*
46332183 TAATTATCTTAATAT
1 TAATTATCCTAATAT
46332198 TAATTATCCTAATAT
1 TAATTATCCTAATAT
46332213 AAATAAAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:46333775 original size:15 final size:15
Alignment explanation
Indices: 46333755--46333806 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 15
46333745 TTAATATCTG
46333755 AAAATAATAAATAAT
1 AAAATAATAAATAAT
46333770 AAAATAATAAGATAAAAT
1 AAAATAATAA-AT--AAT
*
46333788 AAATAAAATAAA-AAT
1 AAA-ATAATAAATAAT
46333803 AAAA
1 AAAA
46333807 ATTGGGTTGC
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
14 1 0.03
15 16 0.50
16 2 0.06
18 7 0.22
19 6 0.19
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (15 bp):
AAAATAATAAATAAT
Found at i:46333795 original size:22 final size:19
Alignment explanation
Indices: 46333763--46333806 Score: 61
Period size: 22 Copynumber: 2.2 Consensus size: 19
46333753 TGAAAATAAT
46333763 AAATAATAAAATAATAAGATA
1 AAATAATAAAATAA-AA-ATA
46333784 AAATAAATAAAATAAAAATA
1 AAAT-AATAAAATAAAAATA
46333804 AAA
1 AAA
46333807 ATTGGGTTGC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 6 0.27
21 6 0.27
22 10 0.45
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.20
Consensus pattern (19 bp):
AAATAATAAAATAAAAATA
Found at i:46333798 original size:14 final size:14
Alignment explanation
Indices: 46333767--46333805 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
46333757 AATAATAAAT
46333767 AATAAAAT-AATAA
1 AATAAAATAAATAA
*
46333780 GATAAAATAAATAA
1 AATAAAATAAATAA
46333794 AATAAAAATAAA
1 AAT-AAAATAAA
46333806 AATTGGGTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 7 0.32
14 7 0.32
15 8 0.36
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.21
Consensus pattern (14 bp):
AATAAAATAAATAA
Found at i:46337527 original size:20 final size:20
Alignment explanation
Indices: 46337489--46337531 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
46337479 TAAATTCTGA
* **
46337489 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAGATAATT
46337509 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
46337529 AAA
1 AAA
46337532 AAAATCCTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.63, C:0.02, G:0.07, T:0.28
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:46337547 original size:17 final size:18
Alignment explanation
Indices: 46337523--46337563 Score: 59
Period size: 16 Copynumber: 2.4 Consensus size: 18
46337513 ATAAATAAAG
46337523 ATAATTAAAAAAATCCTA
1 ATAATTAAAAAAATCCTA
*
46337541 A-AATT-AAATAATCCTA
1 ATAATTAAAAAAATCCTA
46337557 ATAATTA
1 ATAATTA
46337564 TCTTAATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
16 11 0.55
17 8 0.40
18 1 0.05
ACGTcount: A:0.59, C:0.10, G:0.00, T:0.32
Consensus pattern (18 bp):
ATAATTAAAAAAATCCTA
Found at i:46350214 original size:20 final size:20
Alignment explanation
Indices: 46350189--46350229 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
46350179 TCAATCTCGT
*
46350189 TATTGCTGTTACATTTCTGC
1 TATTGCCGTTACATTTCTGC
46350209 TATTGCCGTTACATTTCTGC
1 TATTGCCGTTACATTTCTGC
46350229 T
1 T
46350230 TTTACTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.15, C:0.22, G:0.15, T:0.49
Consensus pattern (20 bp):
TATTGCCGTTACATTTCTGC
Found at i:46354821 original size:42 final size:42
Alignment explanation
Indices: 46354762--46354845 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
46354752 ACCCAATAGG
46354762 CCCTTTCTGAGTTGAAATCGAGTTAACTTAGAGAGATGATTA
1 CCCTTTCTGAGTTGAAATCGAGTTAACTTAGAGAGATGATTA
46354804 CCCTTTCTGAGTTGAAATCGAGTTAACTTAGAGAGATGATTA
1 CCCTTTCTGAGTTGAAATCGAGTTAACTTAGAGAGATGATTA
46354846 TACCTGTCCC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.33
Consensus pattern (42 bp):
CCCTTTCTGAGTTGAAATCGAGTTAACTTAGAGAGATGATTA
Found at i:46355157 original size:25 final size:25
Alignment explanation
Indices: 46355123--46355174 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
46355113 CGTAAATTCT
**
46355123 AAAATAAATTCTCAATGGTCCTCTC
1 AAAATAAATTCTCAACCGTCCTCTC
46355148 AAAATAAATTCTCAACCGTCCTCTC
1 AAAATAAATTCTCAACCGTCCTCTC
46355173 AA
1 AA
46355175 TGCCCGATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.38, C:0.27, G:0.06, T:0.29
Consensus pattern (25 bp):
AAAATAAATTCTCAACCGTCCTCTC
Found at i:46362949 original size:17 final size:16
Alignment explanation
Indices: 46362927--46362963 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
46362917 ATAATTTTGC
46362927 AGTTTAAAGTCCAAAA
1 AGTTTAAAGTCCAAAA
*
46362943 TAGTTTACAGTCCAAAA
1 -AGTTTAAAGTCCAAAA
46362960 AGTT
1 AGTT
46362964 CGAAAAAGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.30
Consensus pattern (16 bp):
AGTTTAAAGTCCAAAA
Found at i:46363222 original size:6 final size:6
Alignment explanation
Indices: 46363213--46363350 Score: 251
Period size: 6 Copynumber: 23.2 Consensus size: 6
46363203 ATAAAAATAT
*
46363213 AGATTC AGATAC AGATAC AGATAC AGATAC AGATAC AGATAC AGATAC
1 AGATAC AGATAC AGATAC AGATAC AGATAC AGATAC AGATAC AGATAC
46363261 AGATAC AGATAC AGATAC AGATAC AGATAC AGATAC AGATAC AGATAC
1 AGATAC AGATAC AGATAC AGATAC AGATAC AGATAC AGATAC AGATAC
*
46363309 AGATAC ATATAC AGATAC AGATAC -GATAC AGATAC AGATAC A
1 AGATAC AGATAC AGATAC AGATAC AGATAC AGATAC AGATAC A
46363351 AATTCAGATC
Statistics
Matches: 128, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
5 5 0.04
6 123 0.96
ACGTcount: A:0.49, C:0.17, G:0.16, T:0.18
Consensus pattern (6 bp):
AGATAC
Found at i:46368413 original size:27 final size:26
Alignment explanation
Indices: 46368396--46368465 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 26
46368386 ATATTAAGTC
46368396 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATAT-ATCAACT
*
46368423 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATAT-ATC-AACT
*
46368451 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
46368466 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (26 bp):
CGCACACTCAGTGCTATATATCAACT
Found at i:46368459 original size:28 final size:28
Alignment explanation
Indices: 46368396--46368493 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
46368386 ATATTAAGTC
*
46368396 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
46368423 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
46368451 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
46368480 CGCACACTTAGTGC
1 CGCACACTTAGTGC
46368494 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:46370282 original size:4 final size:4
Alignment explanation
Indices: 46370273--46370307 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
46370263 GCTATAAATA
46370273 TATG TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TAT
46370308 TAATATTATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:46379055 original size:21 final size:21
Alignment explanation
Indices: 46379016--46379055 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
46379006 TGGCTAAATA
* * *
46379016 ATGCAAGGGAGATGGATGGCT
1 ATGCAAGGGAAAAGAATGGCT
46379037 ATGCAAGGGAAAAGAATGG
1 ATGCAAGGGAAAAGAATGG
46379056 AGAAATGAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.07, G:0.40, T:0.15
Consensus pattern (21 bp):
ATGCAAGGGAAAAGAATGGCT
Found at i:46379084 original size:15 final size:15
Alignment explanation
Indices: 46379060--46379090 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
46379050 GAATGGAGAA
46379060 ATGAAAGAGAGAATG
1 ATGAAAGAGAGAATG
*
46379075 ATGAATGAGAGAATG
1 ATGAAAGAGAGAATG
46379090 A
1 A
46379091 ATGAGAGATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.32, T:0.16
Consensus pattern (15 bp):
ATGAAAGAGAGAATG
Found at i:46383283 original size:38 final size:38
Alignment explanation
Indices: 46383233--46383309 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
46383223 TTTTGGATGT
*
46383233 ATGTTAAATGACCGATAAGTTTACCTTTCCGTTATTCG
1 ATGTTAAATGACCGATAAGTTTACCTTTCCATTATTCG
*
46383271 ATGTTAAATGACCGGTAAGTTTACCTTTCCATTATTCG
1 ATGTTAAATGACCGATAAGTTTACCTTTCCATTATTCG
46383309 A
1 A
46383310 ACTTACTAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.39
Consensus pattern (38 bp):
ATGTTAAATGACCGATAAGTTTACCTTTCCATTATTCG
Found at i:46394843 original size:85 final size:85
Alignment explanation
Indices: 46394695--46395100 Score: 587
Period size: 85 Copynumber: 4.8 Consensus size: 85
46394685 CAATACTGAC
* * ** * * *
46394695 GTCCCAGACATGGTCTTACATGTAATTCAAAATCGATGCCTCTGTCCCAGACAGGGTCTTACACG
1 GTCCCAGACATGGTCTTATATGTAAATCTCAATCGAGGCCTGTGTCCCAGACACGGTCTTACACG
* *
46394760 AAATCAAATACGATGCTGAT
66 AAATCAGATACGATGCCGAT
* * * * *
46394780 GTCCAAGACATGGTCTTATATGTAAACCTCAATCGAGGCCTGTGTACCAAACACGATCTTACACG
1 GTCCCAGACATGGTCTTATATGTAAATCTCAATCGAGGCCTGTGTCCCAGACACGGTCTTACACG
46394845 AAATCAGATACGATGCCGAT
66 AAATCAGATACGATGCCGAT
*
46394865 GTCCCAGACATGGTCTTATATGTAAATCTCAATTGAGGCCTGTGTCCCAGACACGGTCTTACACG
1 GTCCCAGACATGGTCTTATATGTAAATCTCAATCGAGGCCTGTGTCCCAGACACGGTCTTACACG
46394930 AAATCAGATACGATGCCGAT
66 AAATCAGATACGATGCCGAT
* * * * **
46394950 GTCCCAGACATAGTCTTATACGTAAATCTCAATCGAGGTCTGTGTCCCAGACACGATCTTACAAA
1 GTCCCAGACATGGTCTTATATGTAAATCTCAATCGAGGCCTGTGTCCCAGACACGGTCTTACACG
* *
46395015 AAATTAGATACGATGCCAAT
66 AAATCAGATACGATGCCGAT
* *
46395035 GTCCCAGACACGGTCTTATACGTAAATCTCAATCGAGGCCTGTGTCCCAGACACGGTCTTACACG
1 GTCCCAGACATGGTCTTATATGTAAATCTCAATCGAGGCCTGTGTCCCAGACACGGTCTTACACG
46395100 A
66 A
46395101 TGTCTCAGAC
Statistics
Matches: 286, Mismatches: 35, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
85 286 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (85 bp):
GTCCCAGACATGGTCTTATATGTAAATCTCAATCGAGGCCTGTGTCCCAGACACGGTCTTACACG
AAATCAGATACGATGCCGAT
Found at i:46402376 original size:43 final size:43
Alignment explanation
Indices: 46402287--46402548 Score: 189
Period size: 43 Copynumber: 6.2 Consensus size: 43
46402277 TCTCAGACAG
* * * * * *
46402287 GGTCTTACACG-AAATC-AAATACGATGCCTATGTCCCAGACAT
1 GGTCTTATACGTAAATCTCAAT-CGAGGCCTGTGTCCCAAACAC
* *
46402329 GGTCTTATATGTAAGTCTCAATCGAGGCCTGTGTCCCAAACAC
1 GGTCTTATACGTAAATCTCAATCGAGGCCTGTGTCCCAAACAC
* ** * * * *
46402372 GGTCTTACACG-AAATCAGAAACGATGTC-GATGTCCCAAACAT
1 GGTCTTATACGTAAATCTCAATCGAGGCCTG-TGTCCCAAACAC
* *
46402414 GGTCTTATACGTAAATCTCAATCGAGGCCCGTGTCCCAGACAC
1 GGTCTTATACGTAAATCTCAATCGAGGCCTGTGTCCCAAACAC
* * * * * *
46402457 GGTCTTACACG-AAA--TCAGATACGATG-TTGATGTCCTAGACAT
1 GGTCTTATACGTAAATCTCA-AT-CGAGGCCTG-TGTCCCAAACAC
* * *
46402499 GGTCTTATACGTAAATCTCAATCGAGGCCTGTGTCCTAGACAA
1 GGTCTTATACGTAAATCTCAATCGAGGCCTGTGTCCCAAACAC
46402542 GGTCTTA
1 GGTCTTA
46402549 CACGATGTCT
Statistics
Matches: 173, Mismatches: 35, Indels: 23
0.75 0.15 0.10
Matches are distributed among these distances:
40 3 0.02
41 4 0.02
42 68 0.39
43 87 0.50
44 8 0.05
45 3 0.02
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.26
Consensus pattern (43 bp):
GGTCTTATACGTAAATCTCAATCGAGGCCTGTGTCCCAAACAC
Found at i:46402376 original size:85 final size:84
Alignment explanation
Indices: 46402280--46402553 Score: 397
Period size: 85 Copynumber: 3.2 Consensus size: 84
46402270 GCCTCTATCT
* * *
46402280 CAGACAGGGTCTTACACGAAATCAAATACGATGCCTATGTCCCAGACATGGTCTTATATGTAAGT
1 CAGACACGGTCTTACACGAAATCAAATACGATG-CTATGTCCCAGACATGGTCTTATACGTAAAT
46402345 CTCAATCGAGGCCTGTGTCC
65 CTCAATCGAGGCCTGTGTCC
* * *
46402365 CAAACACGGTCTTACACGAAATCAGAA-ACGATGTCGATGTCCCAAACATGGTCTTATACGTAAA
1 CAGACACGGTCTTACACGAAATCA-AATACGATG-CTATGTCCCAGACATGGTCTTATACGTAAA
*
46402429 TCTCAATCGAGGCCCGTGTCC
64 TCTCAATCGAGGCCTGTGTCC
* * *
46402450 CAGACACGGTCTTACACGAAATCAGATACGATGTTGATGTCCTAGACATGGTCTTATACGTAAAT
1 CAGACACGGTCTTACACGAAATCAAATACGATGCT-ATGTCCCAGACATGGTCTTATACGTAAAT
46402515 CTCAATCGAGGCCTGTGTCC
65 CTCAATCGAGGCCTGTGTCC
* *
46402535 TAGACAAGGTCTTACACGA
1 CAGACACGGTCTTACACGA
46402554 TGTCTGAGAT
Statistics
Matches: 169, Mismatches: 17, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
84 1 0.01
85 166 0.98
86 2 0.01
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (84 bp):
CAGACACGGTCTTACACGAAATCAAATACGATGCTATGTCCCAGACATGGTCTTATACGTAAATC
TCAATCGAGGCCTGTGTCC
Found at i:46412251 original size:39 final size:39
Alignment explanation
Indices: 46412225--46412343 Score: 193
Period size: 39 Copynumber: 3.1 Consensus size: 39
46412215 GTCCAGCACG
*
46412225 TAGCCTGCGGACCTAAAGTCCGGATATAATTCTCGCATA
1 TAGCCTGCGGACCTGAAGTCCGGATATAATTCTCGCATA
* *
46412264 TAGCCTGCGGACATGAAGTCCGGATATAATTCTCGCTTA
1 TAGCCTGCGGACCTGAAGTCCGGATATAATTCTCGCATA
* *
46412303 TAGCCTACGGACCTGAAGTCCGGATATAATTCTCACATA
1 TAGCCTGCGGACCTGAAGTCCGGATATAATTCTCGCATA
46412342 TA
1 TA
46412344 TATATTCACA
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 73 1.00
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (39 bp):
TAGCCTGCGGACCTGAAGTCCGGATATAATTCTCGCATA
Found at i:46414775 original size:27 final size:27
Alignment explanation
Indices: 46414707--46414806 Score: 94
Period size: 27 Copynumber: 3.6 Consensus size: 27
46414697 ATACAGAAAA
* *
46414707 TGTGACAGAGTCACCAGATACAGATATTT
1 TGTGGCAGAGCCACCAGA-ACAGATA-TT
* * *
46414736 TGTGGTAGTGCCACCAGAACAGATATA
1 TGTGGCAGAGCCACCAGAACAGATATT
* *
46414763 TGTGGCAGGGCCACCA-AATAGATAATT
1 TGTGGCAGAGCCACCAGAACAGAT-ATT
*
46414790 TGTGGCATAGCCACCAG
1 TGTGGCAGAGCCACCAG
46414807 GACGCTTCCT
Statistics
Matches: 58, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
26 6 0.10
27 31 0.53
28 7 0.12
29 14 0.24
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (27 bp):
TGTGGCAGAGCCACCAGAACAGATATT
Found at i:46414968 original size:28 final size:28
Alignment explanation
Indices: 46414912--46414976 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
46414902 AAATTAACCC
*
46414912 TAGGGGTATAAAGGTCATTCGGCACACA
1 TAGGGGTATAAAGGTAATTCGGCACACA
* ** *
46414940 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTCGGCACACA
46414968 TAGGGGTAT
1 TAGGGGTAT
46414977 TCTAGTAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.31, C:0.11, G:0.29, T:0.29
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTCGGCACACA
Found at i:46422616 original size:55 final size:56
Alignment explanation
Indices: 46422551--46422665 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
46422541 AGCATGGATG
* * *
46422551 CCAGATACAGA-AAATGTGATAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
46422607 CCAGA-ACAGATATATGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
46422662 CCAG
1 CCAG
46422666 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.57
56 21 0.41
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:46422628 original size:27 final size:27
Alignment explanation
Indices: 46422576--46422665 Score: 119
Period size: 27 Copynumber: 3.2 Consensus size: 27
46422566 GTGATAGAGT
46422576 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
* *
46422605 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
46422632 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
46422660 CACCAG
1 CACCAG
46422666 GACGCTTCCT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 24 0.44
28 24 0.44
29 7 0.13
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:46422816 original size:28 final size:28
Alignment explanation
Indices: 46422769--46422833 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
46422759 AAATTAACCC
*
46422769 TAGGGGTATAAAGGTCATTTTGCACACA
1 TAGGGGTATAAAGGTAATTTTGCACACA
* *
46422797 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCACACA
46422825 TAGGGGTAT
1 TAGGGGTAT
46422834 TCTAGTAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.31, C:0.09, G:0.28, T:0.32
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCACACA
Found at i:46423913 original size:12 final size:13
Alignment explanation
Indices: 46423894--46423926 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
46423884 GGGTTCGGCT
46423894 ATGGAGAAGGAAG
1 ATGGAGAAGGAAG
*
46423907 A-GGAGAAGGTAG
1 ATGGAGAAGGAAG
46423919 ATGGAGAA
1 ATGGAGAA
46423927 AAAGAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.45, C:0.00, G:0.45, T:0.09
Consensus pattern (13 bp):
ATGGAGAAGGAAG
Found at i:46427120 original size:57 final size:58
Alignment explanation
Indices: 46426997--46427139 Score: 157
Period size: 57 Copynumber: 2.5 Consensus size: 58
46426987 CTCATTACAG
* * * * * **
46426997 AAAGGATTTAGCCTGGATGGCTAATCCTAATATAAGTCCTCTCGAGCATATGTTATGG
1 AAAGGATTTAGCCTGGACGGGTAATCCTAATACAAGTCCTCTAGAGCATATGTCATAA
* *
46427055 AATGGATTTAGCCCGGACGGGTAATCC-AGAT-CAAGCTCCT-TAGAGCATATGTCATAA
1 AAAGGATTTAGCCTGGACGGGTAATCCTA-ATACAAG-TCCTCTAGAGCATATGTCATAA
*
46427112 AAAGGATTTAGCCTGGACTGGTAATCCT
1 AAAGGATTTAGCCTGGACGGGTAATCCT
46427140 GTTGTATACA
Statistics
Matches: 70, Mismatches: 12, Indels: 6
0.80 0.14 0.07
Matches are distributed among these distances:
57 41 0.59
58 29 0.41
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (58 bp):
AAAGGATTTAGCCTGGACGGGTAATCCTAATACAAGTCCTCTAGAGCATATGTCATAA
Found at i:46429455 original size:49 final size:49
Alignment explanation
Indices: 46429397--46429531 Score: 164
Period size: 51 Copynumber: 2.7 Consensus size: 49
46429387 ATCTGATACT
*
46429397 CATAGTAGCCTGCACTTAGTACTACACATGCGACCAA-TTATTTGGTACA
1 CATAGTAGCCTG-ACTTAGTACTACACATGCGACCAAGTTATTGGGTACA
* * * * *
46429446 CGTAGTAGCCTGGACTTAGTACTACACACGTGATCGAAGTTATTGGGTACG
1 CATAGTAGCCT-GACTTAGTACTACACATGCGA-CCAAGTTATTGGGTACA
*
46429497 CATAGTAGCCTGATCTTAGTACTACATATGCGACC
1 CATAGTAGCCTGA-CTTAGTACTACACATGCGACC
46429532 TCATAATAGA
Statistics
Matches: 71, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
49 28 0.39
50 7 0.10
51 36 0.51
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (49 bp):
CATAGTAGCCTGACTTAGTACTACACATGCGACCAAGTTATTGGGTACA
Found at i:46436831 original size:19 final size:19
Alignment explanation
Indices: 46436803--46436856 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
46436793 CCCCTTATTA
*
46436803 AACATAAAAAAATAAAATT
1 AACATTAAAAAATAAAATT
46436822 AACATTAAAAACAT-AAATT
1 AACATTAAAAA-ATAAAATT
* *
46436841 AA-AGTGAAAAATAAAA
1 AACATTAAAAAATAAAA
46436857 AAATTTAGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
17 2 0.07
18 9 0.30
19 17 0.57
20 2 0.07
ACGTcount: A:0.70, C:0.06, G:0.04, T:0.20
Consensus pattern (19 bp):
AACATTAAAAAATAAAATT
Found at i:46440659 original size:39 final size:39
Alignment explanation
Indices: 46440605--46440684 Score: 142
Period size: 39 Copynumber: 2.1 Consensus size: 39
46440595 ACTCAAGCGA
*
46440605 CAAATGACATGCCTTTCCAAAAACTGGTCGATAAGGAGT
1 CAAATGACAAGCCTTTCCAAAAACTGGTCGATAAGGAGT
*
46440644 CAAATGACAAGCCTTTCCAAAAACTGGTCGATAGGGAGT
1 CAAATGACAAGCCTTTCCAAAAACTGGTCGATAAGGAGT
46440683 CA
1 CA
46440685 TTCCTAACAG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.21
Consensus pattern (39 bp):
CAAATGACAAGCCTTTCCAAAAACTGGTCGATAAGGAGT
Found at i:46441415 original size:34 final size:35
Alignment explanation
Indices: 46441376--46441472 Score: 105
Period size: 34 Copynumber: 2.9 Consensus size: 35
46441366 TCAAGCCCAT
*
46441376 TGGGCCTAAGCCCTATTCAGATAATAGTATGT-AC
1 TGGGCCTAAGCCCTTTTCAGATAATAGTATGTAAC
* *
46441410 TGGGCCGAAGCACTTTTCA-A-AATA-TA-GTAAC
1 TGGGCCTAAGCCCTTTTCAGATAATAGTATGTAAC
* *
46441441 TGGGCCTTAGCCCCTTTTCAGATAACAGTATG
1 TGGGCCTAAG-CCCTTTTCAGATAATAGTATG
46441473 GCCCATAGGC
Statistics
Matches: 50, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
30 2 0.04
31 12 0.24
32 12 0.24
33 2 0.04
34 19 0.38
35 2 0.04
36 1 0.02
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.29
Consensus pattern (35 bp):
TGGGCCTAAGCCCTTTTCAGATAATAGTATGTAAC
Found at i:46445898 original size:33 final size:33
Alignment explanation
Indices: 46445853--46445948 Score: 110
Period size: 33 Copynumber: 2.9 Consensus size: 33
46445843 TCCAGCCCAT
*
46445853 TGGGCCTAAGCCCTATTCAGATAACAGTATGTAC
1 TGGGCCTAAGCCCTTTTCAGATAACAGTATG-AC
46445887 TGGGCC-AAGCCCTTTTCAGA-ATACAGTA--AC
1 TGGGCCTAAGCCCTTTTCAGATA-ACAGTATGAC
* *
46445917 TGGGCCTTAGCCCCTTTTCAGATAATAGTATG
1 TGGGCCTAAG-CCCTTTTCAGATAACAGTATG
46445949 GCCTATAGGC
Statistics
Matches: 53, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
30 8 0.15
31 2 0.04
32 17 0.32
33 20 0.38
34 6 0.11
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (33 bp):
TGGGCCTAAGCCCTTTTCAGATAACAGTATGAC
Found at i:46446063 original size:38 final size:38
Alignment explanation
Indices: 46446020--46446105 Score: 154
Period size: 38 Copynumber: 2.3 Consensus size: 38
46446010 TAACCAACCG
46446020 CTACACTCCATGTGAAGAATAGCTAAACCCACCCAGCC
1 CTACACTCCATGTGAAGAATAGCTAAACCCACCCAGCC
* *
46446058 CTACACTCCATGTGGAGAATAGCTCAACCCACCCAGCC
1 CTACACTCCATGTGAAGAATAGCTAAACCCACCCAGCC
46446096 CTACACTCCA
1 CTACACTCCA
46446106 CAGTTGCAGC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
38 46 1.00
ACGTcount: A:0.31, C:0.40, G:0.13, T:0.16
Consensus pattern (38 bp):
CTACACTCCATGTGAAGAATAGCTAAACCCACCCAGCC
Found at i:46447099 original size:39 final size:39
Alignment explanation
Indices: 46447045--46447122 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
46447035 CCTTCAGCTA
46447045 ACAGTTCCACTTTAGTTCTTATTCGATTCTGATGTATAT
1 ACAGTTCCACTTTAGTTCTTATTCGATTCTGATGTATAT
46447084 ACAGTTCCACTTTAGTTCTTATTCGATTCTGATGTATAT
1 ACAGTTCCACTTTAGTTCTTATTCGATTCTGATGTATAT
46447123 CTAACCTTCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.23, C:0.18, G:0.13, T:0.46
Consensus pattern (39 bp):
ACAGTTCCACTTTAGTTCTTATTCGATTCTGATGTATAT
Found at i:46447497 original size:12 final size:12
Alignment explanation
Indices: 46447444--46447505 Score: 52
Period size: 15 Copynumber: 4.7 Consensus size: 12
46447434 TCAGCTATGG
46447444 AGGAAAAGAAGA
1 AGGAAAAGAAGA
*
46447456 AGAGAAAGTAGATGA
1 AG-GAAA--AGAAGA
46447471 AGAGAAAAGAAAAGA
1 AG-GAAAAG--AAGA
46447486 AGGAAAAGAAGA
1 AGGAAAAGAAGA
*
46447498 AGAAAAAG
1 AGGAAAAG
46447506 CTGAATCCTA
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
12 13 0.31
13 6 0.14
14 6 0.14
15 17 0.40
ACGTcount: A:0.66, C:0.00, G:0.31, T:0.03
Consensus pattern (12 bp):
AGGAAAAGAAGA
Found at i:46453237 original size:40 final size:40
Alignment explanation
Indices: 46453207--46453416 Score: 305
Period size: 40 Copynumber: 5.3 Consensus size: 40
46453197 GGACTAAGAT
* * * **
46453207 CCGAAGGCCTTTGTGCGAGATACGAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
46453247 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
46453287 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* *
46453327 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* * * * *
46453367 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
46453406 CCGAAGGCATT
1 CCGAAGGCATT
46453417 TGAACGAGGA
Statistics
Matches: 158, Mismatches: 12, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 34 0.22
40 124 0.78
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
Found at i:46453291 original size:80 final size:80
Alignment explanation
Indices: 46453154--46453416 Score: 307
Period size: 80 Copynumber: 3.3 Consensus size: 80
46453144 TTGAATGCTG
* * * * * **
46453154 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCCT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCCT
* *
46453217 TTGTGCGAGATACGAAA
64 TTGTGCGAGTTACTAAA
* * *
46453234 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTT
*
46453299 GTGCGAGTTATTAAA
66 GTGCGAGTTACTAAA
* * * *
46453314 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGG-CATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTT
*
46453378 GTGTGAGTTACTAAA
66 GTGCGAGTTACTAAA
* *
46453393 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
46453417 TGAACGAGGA
Statistics
Matches: 158, Mismatches: 23, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
79 36 0.23
80 116 0.73
81 6 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTT
GTGCGAGTTACTAAA
Found at i:46453436 original size:79 final size:80
Alignment explanation
Indices: 46453207--46453451 Score: 244
Period size: 80 Copynumber: 3.1 Consensus size: 80
46453197 GGACTAAGAT
* * * * * * ** * *
46453207 CCGAAGGCCTTTGTGCGAGATACGAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTA-TT
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAG-GAGCT
46453271 AAATCCGGGTTAAGTC
65 AAATCCGGGTTAAGTC
* * * ** ** *
46453287 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
46453352 AATCCGGGTTATGTC
66 AATCCGGGTTAAGTC
* * *
46453367 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
* *
46453431 TATCC-GGTTAAATC
66 AATCCGGGTTAAGTC
46453445 CCGAAGG
1 CCGAAGG
46453452 TACGTGATTT
Statistics
Matches: 143, Mismatches: 21, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
78 14 0.10
79 47 0.33
80 82 0.57
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTAAGTC
Found at i:46457127 original size:28 final size:28
Alignment explanation
Indices: 46457086--46457139 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
46457076 ATGCAGTTGA
* *
46457086 ATACTCAATGTCTCGCAGACTAAGTGCC
1 ATACTCAATATCTCGCACACTAAGTGCC
* *
46457114 ATACTCGATATCTCGTACACTAAGTG
1 ATACTCAATATCTCGCACACTAAGTG
46457140 TCGTACATAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.28
Consensus pattern (28 bp):
ATACTCAATATCTCGCACACTAAGTGCC
Found at i:46457226 original size:43 final size:42
Alignment explanation
Indices: 46457152--46457270 Score: 163
Period size: 43 Copynumber: 2.9 Consensus size: 42
46457142 GTACATAGAT
46457152 GAAGCTATCTC-AA-ATCGCACACTAAGTGCCATATATAGCC
1 GAAGCTATCTCGAATATCGCACACTAAGTGCCATATATAGCC
* * *
46457192 GAAGCTATGTCGAATATCGCACACCAAAGTGCCATATATAGTC
1 GAAGCTATCTCGAATATCGCACA-CTAAGTGCCATATATAGCC
* *
46457235 GAAGCTATCTCG-ATCTCGCACGCTAAGTGCCATATA
1 GAAGCTATCTCGAATATCGCACACTAAGTGCCATATA
46457271 AAGATGATTC
Statistics
Matches: 69, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
40 10 0.14
41 15 0.22
42 16 0.23
43 28 0.41
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.24
Consensus pattern (42 bp):
GAAGCTATCTCGAATATCGCACACTAAGTGCCATATATAGCC
Found at i:46464421 original size:28 final size:28
Alignment explanation
Indices: 46464380--46464439 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
46464370 ATGTCGTTGA
*
46464380 ATACTCAATGTCTTGCACACTAAGTGCC
1 ATACTCAATATCTTGCACACTAAGTGCC
* * *
46464408 ATACTCGATATCTTGCACACTGAGTGTC
1 ATACTCAATATCTTGCACACTAAGTGCC
46464436 ATAC
1 ATAC
46464440 ATAGCCGAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (28 bp):
ATACTCAATATCTTGCACACTAAGTGCC
Found at i:46464515 original size:42 final size:41
Alignment explanation
Indices: 46464417--46464559 Score: 153
Period size: 42 Copynumber: 3.5 Consensus size: 41
46464407 CATACTCGAT
* * * * *
46464417 ATCTTGCACACTGAGTGTCATACATAGCCGAAGCTATCTC-
1 ATCTCGCACACTAAGTGCCATATACAGCCGAAGCTATCTCG
** * * * *
46464457 AAATCACACATTAAGTGCCATATACAGCCGAAGCTATGTTG
1 ATCTCGCACACTAAGTGCCATATACAGCCGAAGCTATCTCG
* *
46464498 AATCTCGCACGCTAAGTGCCATATATAGCCGAAGCTATCTCG
1 -ATCTCGCACACTAAGTGCCATATACAGCCGAAGCTATCTCG
46464540 ATCTCGCACACTAAGTGCCA
1 ATCTCGCACACTAAGTGCCA
46464560 CATATAGCTG
Statistics
Matches: 81, Mismatches: 20, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
40 29 0.36
41 19 0.23
42 33 0.41
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.24
Consensus pattern (41 bp):
ATCTCGCACACTAAGTGCCATATACAGCCGAAGCTATCTCG
Found at i:46483146 original size:54 final size:55
Alignment explanation
Indices: 46483076--46483208 Score: 198
Period size: 54 Copynumber: 2.5 Consensus size: 55
46483066 TTCGTTATAA
*
46483076 GGGATCTAGCCTGGACTGGCAATCCCGACATCACCTTATGAGTTCATGATATG-G
1 GGGATTTAGCCTGGACTGGCAATCCCGACATCACCTTATGAGTTCATGATATGAG
* * *
46483130 GGGATTTAGCTTGGACTGACAATCTCGACATCACCTTATGAGTTCATGATATGAG
1 GGGATTTAGCCTGGACTGGCAATCCCGACATCACCTTATGAGTTCATGATATGAG
* *
46483185 GGG-TTTTGCCTGGACTGGTAATCC
1 GGGATTTAGCCTGGACTGGCAATCC
46483209 TACCATGAGA
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
54 65 0.94
55 4 0.06
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.29
Consensus pattern (55 bp):
GGGATTTAGCCTGGACTGGCAATCCCGACATCACCTTATGAGTTCATGATATGAG
Found at i:46486552 original size:51 final size:51
Alignment explanation
Indices: 46486463--46486562 Score: 123
Period size: 51 Copynumber: 2.0 Consensus size: 51
46486453 TGGATGCAAG
* * * *
46486463 CATCCGAGCTCGTTGAGAGGTCTAAGTTCATGGTGGATGTGATT-CATGTAA
1 CATCCGAACTCATTGAGAGGTCCAAGTTCATAGTGGATGTG-TTACATGTAA
*
46486514 CATCCGAACTCATTGAGAGGTCCGAGTTCATTAG-GGATGTGTTACATGT
1 CATCCGAACTCATTGAGAGGTCCAAGTTCA-TAGTGGATGTGTTACATGT
46486563 TATGTGGTAG
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
50 2 0.05
51 38 0.90
52 2 0.05
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (51 bp):
CATCCGAACTCATTGAGAGGTCCAAGTTCATAGTGGATGTGTTACATGTAA
Found at i:46490460 original size:10 final size:10
Alignment explanation
Indices: 46490445--46490513 Score: 52
Period size: 10 Copynumber: 6.9 Consensus size: 10
46490435 GATAACATTG
46490445 TAAATTTTAA
1 TAAATTTTAA
46490455 TAAATTTTAA
1 TAAATTTTAA
46490465 T--ATGTTTAA
1 TAAAT-TTTAA
* *
46490474 TAATTTTTTA
1 TAAATTTTAA
**
46490484 TAGTTTTTAAA
1 TAAATTTT-AA
*
46490495 TAAATTTTTA
1 TAAATTTTAA
*
46490505 TAATTTTTA
1 TAAATTTTA
46490514 CAATTTGTTA
Statistics
Matches: 46, Mismatches: 9, Indels: 8
0.73 0.14 0.13
Matches are distributed among these distances:
8 2 0.04
9 6 0.13
10 30 0.65
11 8 0.17
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (10 bp):
TAAATTTTAA
Found at i:46490502 original size:21 final size:19
Alignment explanation
Indices: 46490449--46490530 Score: 78
Period size: 19 Copynumber: 4.2 Consensus size: 19
46490439 ACATTGTAAA
*
46490449 TTTTAATAAATTTTAATAT
1 TTTTAATAAATTTTTATAT
* *
46490468 GTTTAATAATTTTTTATAGT
1 TTTTAATAAATTTTTATA-T
46490488 TTTTAAATAAATTTTTATAAT
1 TTTT-AATAAATTTTTAT-AT
*
46490509 TTTT-A-CAATTTGTTATAT
1 TTTTAATAAATTT-TTATAT
46490527 TTTT
1 TTTT
46490531 TGTAATTTAT
Statistics
Matches: 53, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
18 11 0.21
19 20 0.38
20 4 0.08
21 17 0.32
22 1 0.02
ACGTcount: A:0.34, C:0.01, G:0.04, T:0.61
Consensus pattern (19 bp):
TTTTAATAAATTTTTATAT
Found at i:46490509 original size:9 final size:9
Alignment explanation
Indices: 46490473--46490679 Score: 53
Period size: 9 Copynumber: 21.4 Consensus size: 9
46490463 AATATGTTTA
46490473 ATAATTTTTT
1 ATAA-TTTTT
*
46490483 ATAGTTTTT
1 ATAATTTTT
46490492 AAATAAATTTTT
1 --AT-AATTTTT
46490504 ATAATTTTT
1 ATAATTTTT
*
46490513 ACAATTTGTT
1 ATAATTT-TT
*
46490523 ATATTTTTT
1 ATAATTTTT
*
46490532 GTAATTTATAT
1 ATAATTT-T-T
* * *
46490543 GTTATTTTA
1 ATAATTTTT
*
46490552 ATATTTTTT
1 ATAATTTTT
* *
46490561 CTTA-TTTT
1 ATAATTTTT
*
46490569 ATACTATTTT
1 ATAAT-TTTT
*
46490579 AGATATTTTT
1 ATA-ATTTTT
*
46490589 AAATATTTTCTCT
1 --ATAATTT-T-T
*
46490602 ACAATTCTCTAT
1 ATAATT-T-T-T
46490614 ATAATTTTT
1 ATAATTTTT
*
46490623 ACAATTATTT
1 ATAATT-TTT
* *
46490633 TTCATTTATT
1 ATAATTT-TT
46490643 ATAATTTTT
1 ATAATTTTT
*
46490652 ATAA--TTA
1 ATAATTTTT
46490659 AT-ATTTTT
1 ATAATTTTT
*
46490667 ATAGTTTTT
1 ATAATTTTT
46490676 ATAA
1 ATAA
46490680 AAAAATTTAC
Statistics
Matches: 141, Mismatches: 37, Indels: 39
0.65 0.17 0.18
Matches are distributed among these distances:
6 1 0.01
7 4 0.03
8 9 0.06
9 52 0.37
10 38 0.27
11 18 0.13
12 18 0.13
13 1 0.01
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.61
Consensus pattern (9 bp):
ATAATTTTT
Found at i:46490519 original size:40 final size:39
Alignment explanation
Indices: 46490449--46490531 Score: 96
Period size: 40 Copynumber: 2.1 Consensus size: 39
46490439 ACATTGTAAA
* *
46490449 TTTTAATAAATTTTAATATGTTTAATAATTTTTTATAGT
1 TTTTAATAAATTTTAATATGTTTAACAATTTGTTATAGT
* * *
46490488 TTTTAAATAAATTTTTATAAT-TTTTACAATTTGTTATATT
1 TTTT-AATAAATTTTAAT-ATGTTTAACAATTTGTTATAGT
46490528 TTTT
1 TTTT
46490532 GTAATTTATA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
39 4 0.11
40 31 0.84
41 2 0.05
ACGTcount: A:0.34, C:0.01, G:0.04, T:0.61
Consensus pattern (39 bp):
TTTTAATAAATTTTAATATGTTTAACAATTTGTTATAGT
Found at i:46490556 original size:29 final size:29
Alignment explanation
Indices: 46490523--46490588 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
46490513 ACAATTTGTT
* **
46490523 ATATTTTTTGTAATTTATATGTTATTTTA-
1 ATATTTTTTCTAATTT-TATACTATTTTAG
*
46490552 ATATTTTTTCTTATTTTATACTATTTTAG
1 ATATTTTTTCTAATTTTATACTATTTTAG
46490581 ATATTTTT
1 ATATTTTT
46490589 AAATATTTTC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 10 0.31
29 22 0.69
ACGTcount: A:0.26, C:0.03, G:0.05, T:0.67
Consensus pattern (29 bp):
ATATTTTTTCTAATTTTATACTATTTTAG
Found at i:46492206 original size:19 final size:19
Alignment explanation
Indices: 46492182--46492218 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
46492172 CTAAGACGCT
*
46492182 CTTCATGCGCCAGGATGCA
1 CTTCATGCGCCAAGATGCA
*
46492201 CTTCATGTGCCAAGATGC
1 CTTCATGCGCCAAGATGC
46492219 GCCTTGTGTG
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:0.22, C:0.30, G:0.24, T:0.24
Consensus pattern (19 bp):
CTTCATGCGCCAAGATGCA
Found at i:46495289 original size:43 final size:43
Alignment explanation
Indices: 46495241--46495398 Score: 176
Period size: 43 Copynumber: 3.7 Consensus size: 43
46495231 GTTACCGAGA
*
46495241 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
*
46495284 TGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGT-T
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* * * * * * *
46495326 ATATGATTTCGTGTAAGACCCTGTCTAGCACAGTGGCATCGATAT
1 -TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCG-TAT
* * *
46495371 AG-GATGACATGTAAGACCATATCTGGGA
1 TGTGATTACATGTAAGACCATGTCTGGGA
46495399 TAGGGCATTG
Statistics
Matches: 95, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
42 1 0.01
43 92 0.97
44 1 0.01
45 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
Found at i:46500679 original size:47 final size:47
Alignment explanation
Indices: 46500625--46500818 Score: 289
Period size: 47 Copynumber: 4.1 Consensus size: 47
46500615 TTAGGATTTT
** * *
46500625 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
46500672 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
46500719 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
46500766 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
46500813 ATGTGA
1 ATGTGA
46500819 AATATGTATG
Statistics
Matches: 133, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 133 1.00
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:46500725 original size:22 final size:22
Alignment explanation
Indices: 46500654--46500725 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
46500644 GTATATATGA
46500654 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
46500676 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
46500701 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
46500723 GAT
1 GAT
46500726 GAATGTGAGC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 11 0.30
23 9 0.24
24 9 0.24
25 8 0.22
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:46500774 original size:25 final size:25
Alignment explanation
Indices: 46500699--46500774 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
46500689 ATGCATATAT
46500699 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
46500724 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
46500746 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
46500771 GTGA
1 GTGA
46500775 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:46500851 original size:48 final size:48
Alignment explanation
Indices: 46500788--46501081 Score: 401
Period size: 48 Copynumber: 5.8 Consensus size: 48
46500778 TGAACATGCA
46500788 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
*
46500836 TATATGTGGTAAAGCCGAATGGCTAACGTGAAATATGTATGAGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTG-AA-A--TAT--G---TA----TGAGATATG
46500897 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
46500945 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* *
46500993 CATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATG
*
46501043 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
46501082 GGCGATGTGC
Statistics
Matches: 222, Mismatches: 7, Indels: 34
0.84 0.03 0.13
Matches are distributed among these distances:
47 1 0.00
48 119 0.54
49 6 0.03
50 42 0.19
51 1 0.00
52 5 0.02
54 1 0.00
55 1 0.00
57 5 0.02
59 1 0.00
60 2 0.01
61 38 0.17
ACGTcount: A:0.36, C:0.07, G:0.27, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:46500883 original size:13 final size:13
Alignment explanation
Indices: 46500865--46500892 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
46500855 TGGCTAACGT
46500865 GAAATATGTATGA
1 GAAATATGTATGA
46500878 GAAATATGTATGA
1 GAAATATGTATGA
46500891 GA
1 GA
46500893 TATGTATATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.25, T:0.29
Consensus pattern (13 bp):
GAAATATGTATGA
Found at i:46500892 original size:61 final size:61
Alignment explanation
Indices: 46500817--46500947 Score: 239
Period size: 61 Copynumber: 2.2 Consensus size: 61
46500807 TGGCTAATGT
46500817 GAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAACGTGAAATATGTATGA
1 GAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAACGTGAAATATGTATGA
*
46500878 GAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGA
1 GAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAACGTGAAATATGTATGA
46500939 G--ATATGTAT
1 GAAATATGTAT
46500948 ATGTGGTAAA
Statistics
Matches: 69, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
59 8 0.12
61 61 0.88
ACGTcount: A:0.37, C:0.05, G:0.26, T:0.31
Consensus pattern (61 bp):
GAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAACGTGAAATATGTATGA
Found at i:46500897 original size:11 final size:12
Alignment explanation
Indices: 46500867--46500899 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
46500857 GCTAACGTGA
46500867 AATATGTATGAG
1 AATATGTATGAG
46500879 AAATATGTATGAG
1 -AATATGTATGAG
46500892 -ATATGTAT
1 AATATGTAT
46500900 ATGTGGTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 8 0.40
13 12 0.60
ACGTcount: A:0.42, C:0.00, G:0.21, T:0.36
Consensus pattern (12 bp):
AATATGTATGAG
Found at i:46500979 original size:109 final size:105
Alignment explanation
Indices: 46500788--46501081 Score: 419
Period size: 109 Copynumber: 2.8 Consensus size: 105
46500778 TGAACATGCA
46500788 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
46500853 AATGGCTAACGTGAAATATGTATGAGAAATATGTATGAGATATG
66 AATGGCT-A-GTGAAATATGTAT--GAAATATGTATGAGATATG
46500897 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
46500962 AATGGC---T---A-ATG--TGAAATATGTATGAGATATG
66 AATGGCTAGTGAAATATGTATGAAATATGTATGAGATATG
* *
46500993 CATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATGTATATGTGGTAAAG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATGTATATGTGGTAAAG
46501057 CCGAATGGCTAGTGTGAAATATGTA
63 CCGAATGGCTA--GTGAAATATGTA
46501082 GGCGATGTGC
Statistics
Matches: 169, Mismatches: 2, Indels: 28
0.85 0.01 0.14
Matches are distributed among these distances:
95 1 0.01
96 46 0.27
97 2 0.01
98 39 0.23
100 3 0.02
101 1 0.01
103 1 0.01
104 1 0.01
106 1 0.01
107 3 0.02
109 71 0.42
ACGTcount: A:0.36, C:0.07, G:0.27, T:0.31
Consensus pattern (105 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
AATGGCTAGTGAAATATGTATGAAATATGTATGAGATATG
Found at i:46500990 original size:96 final size:98
Alignment explanation
Indices: 46500878--46501081 Score: 351
Period size: 98 Copynumber: 2.1 Consensus size: 98
46500868 ATATGTATGA
* *
46500878 GAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGG-CTAATGTG-AA-ATATGTATGAG
1 GAAATATGTATGAGATATGCATATGTGGTAAAGCCGAATGGTC-AATGTGAAATATATATATGAG
46500940 ATATGTATATGTGGTAAAGCCGAATGGCTAATGT
65 ATATGTATATGTGGTAAAGCCGAATGGCTAATGT
46500974 GAAATATGTATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATATATATGAGA
1 GAAATATGTATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATATATATGAGA
*
46501039 TATGTATATGTGGTAAAGCCGAATGGCTAGTGT
66 TATGTATATGTGGTAAAGCCGAATGGCTAATGT
46501072 GAAATATGTA
1 GAAATATGTA
46501082 GGCGATGTGC
Statistics
Matches: 102, Mismatches: 3, Indels: 4
0.94 0.03 0.04
Matches are distributed among these distances:
96 46 0.45
97 3 0.03
98 53 0.52
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.31
Consensus pattern (98 bp):
GAAATATGTATGAGATATGCATATGTGGTAAAGCCGAATGGTCAATGTGAAATATATATATGAGA
TATGTATATGTGGTAAAGCCGAATGGCTAATGT
Found at i:46504452 original size:35 final size:36
Alignment explanation
Indices: 46504403--46504471 Score: 97
Period size: 35 Copynumber: 1.9 Consensus size: 36
46504393 TGAAACTCGA
* *
46504403 AAAAAAATTTTTGAAATCC-GAGAGAT-TTTGAAAAC
1 AAAAAAATTCTTGAAAACCTGAGA-ATCTTTGAAAAC
46504438 AAAAAAATTCTTGAAAACCTGAGAATCTTTGAAA
1 AAAAAAATTCTTGAAAACCTGAGAATCTTTGAAA
46504472 CCCGAGAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
35 19 0.63
36 11 0.37
ACGTcount: A:0.49, C:0.10, G:0.13, T:0.28
Consensus pattern (36 bp):
AAAAAAATTCTTGAAAACCTGAGAATCTTTGAAAAC
Found at i:46506100 original size:30 final size:30
Alignment explanation
Indices: 46506001--46506106 Score: 115
Period size: 30 Copynumber: 3.5 Consensus size: 30
46505991 GAAAATTTAA
*
46506001 GGTCAAAATGCAATTTAAGG-AAAGTTTAGG
1 GGTCAAAATGAAATTT-AGGAAAAGTTTAGG
* * * ** *
46506031 GGTCGAAGTAAAATTTAAAAAAAGTTTGGG
1 GGTCAAAATGAAATTTAGGAAAAGTTTAGG
*
46506061 GGTTAAAATGAAATTTAGGAAAAGTTTAGG
1 GGTCAAAATGAAATTTAGGAAAAGTTTAGG
*
46506091 GGTCAAAATGGAATTT
1 GGTCAAAATGAAATTT
46506107 TTTATTGTTT
Statistics
Matches: 59, Mismatches: 16, Indels: 2
0.77 0.21 0.03
Matches are distributed among these distances:
29 1 0.02
30 58 0.98
ACGTcount: A:0.42, C:0.04, G:0.26, T:0.28
Consensus pattern (30 bp):
GGTCAAAATGAAATTTAGGAAAAGTTTAGG
Found at i:46506573 original size:78 final size:77
Alignment explanation
Indices: 46506308--46506855 Score: 541
Period size: 77 Copynumber: 6.9 Consensus size: 77
46506298 GAAAAACAAA
* * * * * * *
46506308 AAATTGAAAATAGCTCAAG-ATGTGACCCGAAGTTCAACTCACCTTTCGGATTATGAGTTGA--T
1 AAATTGAAAATACCTC-AGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
* * *
46506370 CTTTGAAAAAGAAAA
65 TTTTG-AAAA-ATAG
* *
46506385 AAATTGAAAATACCTCAGCGTGTGACCTGAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTT
1 AAATTGAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA----
*
46506450 TTTTTTTGAAAAATGG
62 TTTTTTTGAAAAATAG
* * * *
46506466 AAATTGAAAATACCTCAGCGTGTGACCCGAGCCTCAACTCAGCTCTCGCAAAATGAGTTCATTTT
1 AAATTGAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
*
46506531 TTTGAAAGATAG
66 TTTGAAAAATAG
* *
46506543 AAATTGAAAAATACCTCGGCGTGTGACCCGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTT
1 AAATTG-AAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
46506608 TTTTGAAAAATAG
65 TTTTGAAAAATAG
* * * * * *
46506621 AAATTGAAAATACCTCACCATGTGACTCAAGGCTCAACTCACCTCTCACAATATGAG-TAATCTT
1 AAATTGAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT-TT
*
46506685 TTTTGAAACAT--
65 TTTTGAAAAATAG
* * *
46506696 AAACTGAAAATACCTCAGCATGTGACCCGAGGCTCAGCTCACCTCTCGCAATATGAGTTGATCTT
1 AAATTGAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT-TT
*
46506761 TTTTCACATAAATTGAAAACAG
65 TTTTGA-A-AAA-T------AG
* * * * ** *
46506783 AAAATGAAAATATCTCAGCATATGACTTGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTT
1 AAATTGAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
46506848 TTTGAAAA
66 TTTGAAAA
46506856 GCAGAAACTA
Statistics
Matches: 397, Mismatches: 53, Indels: 35
0.82 0.11 0.07
Matches are distributed among these distances:
75 51 0.13
76 16 0.04
77 126 0.32
78 73 0.18
79 1 0.00
81 56 0.14
82 4 0.01
83 5 0.01
84 2 0.01
85 1 0.00
86 7 0.02
87 55 0.14
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.30
Consensus pattern (77 bp):
AAATTGAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
TTTGAAAAATAG
Found at i:46506678 original size:155 final size:154
Alignment explanation
Indices: 46506308--46506952 Score: 564
Period size: 155 Copynumber: 4.0 Consensus size: 154
46506298 GAAAAACAAA
* * * * * * * * *
46506308 AAATTGAAAATAGCTCAAG-ATGTGACCCGAAGTTCAACTCACCTTTCGGATTATGAGTTGATCT
1 AAATTGAAAATACCTC-AGCATGTGACTCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTT
*** * * * * *
46506372 TTGAAAAAGAAAAAAATTGAAAATACCTCAGCGTGTGACCTGAGGCTTAACTCACCTCTCGCAAT
65 TTTTGAAAGATAGAAATTGAAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAAT
*
46506437 ATGAGTTGATTTTTTTTTTTGAAAAATGG
130 ATGAGTTGA----TTTTTTTGAAAAATAG
* * * * * *
46506466 AAATTGAAAATACCTCAGCGTGTGACCCGAGCCTCAACTCAGCTCTCGCAAAATGAGTTCATTTT
1 AAATTGAAAATACCTCAGCATGTGACTCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTT
* * *
46506531 TTTGAAAGATAGAAATTGAAAAATACCTCGGCGTGTGACCCGAGGCTCAACTCATCTCTCGCAAT
66 TTTGAAAGATAGAAATTG-AAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAAT
46506596 ATGAGTTGATTTTTTTGAAAAATAG
130 ATGAGTTGATTTTTTTGAAAAATAG
* * *
46506621 AAATTGAAAATACCTCACCATGTGACTCAAGGCTCAACTCACCTCTCACAATATGAG-TAATCTT
1 AAATTGAAAATACCTCAGCATGTGACTCGAGGCTCAACTCACCTCTCGCAATATGAGTTAAT-TT
* * *
46506685 TTTTGAAACAT--AAACTGAAAATACCTCAGCATGTGACCCGAGGCTCAGCTCACCTCTCGCAAT
65 TTTTGAAAGATAGAAATTGAAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAAT
*
46506748 ATGAGTTGATCTTTTTTCACATAAATTGAAAACAG
130 ATGAGTTGAT-TTTTTTGA-A-AAA-T------AG
* * * * * *
46506783 AAAATGAAAATATCTCAGCATATGACTTGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTT
1 AAATTGAAAATACCTCAGCATGTGACTCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTT
* * *
46506848 TTTGAAAAGCAGAAACTAAAAACCAGAAATTGAAAATACCTCGGCATGTGGCCCAAGGCTCAACT
66 TTTG--AA--AG--A-T-------AGAAATTGAAAATACCTCAGCATGTGACCCGAGGCTCAACT
* *
46506913 CATCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAG
117 CACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAG
46506949 AAAT
1 AAAT
46506953 AAAAATATCA
Statistics
Matches: 400, Mismatches: 57, Indels: 52
0.79 0.11 0.10
Matches are distributed among these distances:
152 52 0.13
153 12 0.03
154 4 0.01
155 79 0.20
156 1 0.00
157 2 0.00
158 63 0.16
159 51 0.13
162 58 0.14
163 3 0.01
164 2 0.00
166 6 0.01
168 1 0.00
169 1 0.00
173 3 0.01
174 1 0.00
175 6 0.01
178 55 0.14
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.29
Consensus pattern (154 bp):
AAATTGAAAATACCTCAGCATGTGACTCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTT
TTTGAAAGATAGAAATTGAAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATA
TGAGTTGATTTTTTTGAAAAATAG
Found at i:46506920 original size:91 final size:88
Alignment explanation
Indices: 46506690--46506957 Score: 303
Period size: 87 Copynumber: 3.0 Consensus size: 88
46506680 ATCTTTTTTG
* * *
46506690 AAACATAAACTGAAAATACCTCAGCATGTGACCCGAGGCTCAGCTCACCTCTCGCAATATGAGTT
1 AAACAGAAAATGAAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
* * *
46506755 GATCTTTTTT---CACATAAATTGA
66 GAT-TTTTTTGAAAACAGAAA-TAA
* * ** *
46506777 AAACAGAAAATGAAAATATCTCAGCATATGACTTGAGGCTCAACTCACCTCTCGTAATATGAGTT
1 AAACAGAAAATGAAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
46506842 GATTTTTTTGAAAAGCAGAAACTAA
66 GATTTTTTTGAAAA-CAGAAA-TAA
* * * * *
46506867 AAACCAGAAATTGAAAATACCTCGGCATGTGGCCCAAGGCTCAACTCATCTCTCGCAATATGAGT
1 AAA-CAGAAAATGAAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGT
46506932 TGA--TTTTTGAAAAACAGAAATAA
65 TGATTTTTTTG-AAAACAGAAATAA
46506955 AAA
1 AAA
46506958 TATCAGGATA
Statistics
Matches: 153, Mismatches: 22, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
86 6 0.04
87 60 0.39
88 6 0.04
89 13 0.08
90 14 0.09
91 54 0.35
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.26
Consensus pattern (88 bp):
AAACAGAAAATGAAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTTTGAAAACAGAAATAA
Found at i:46520337 original size:29 final size:29
Alignment explanation
Indices: 46520305--46520413 Score: 121
Period size: 30 Copynumber: 3.7 Consensus size: 29
46520295 GTAATTCTTA
* *
46520305 GAAAATTTAGGGTTAAAATGTAATTTAAG
1 GAAAATTTAGGGTCAAAATGAAATTTAAG
* *
46520334 GAAAGTTTAGGGGTCAAAATGAAATTTAAA
1 GAAAATTTA-GGGTCAAAATGAAATTTAAG
* * *
46520364 GAAAGTTTAGGGTCAAATTAAAATTT-AG
1 GAAAATTTAGGGTCAAAATGAAATTTAAG
46520392 GAAAAGTTTAGGAGTCAAAATG
1 GAAAA-TTTAGG-GTCAAAATG
46520414 TTATTTTTTA
Statistics
Matches: 67, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
28 5 0.07
29 29 0.43
30 33 0.49
ACGTcount: A:0.45, C:0.03, G:0.23, T:0.29
Consensus pattern (29 bp):
GAAAATTTAGGGTCAAAATGAAATTTAAG
Found at i:46520360 original size:30 final size:29
Alignment explanation
Indices: 46520305--46520413 Score: 130
Period size: 29 Copynumber: 3.7 Consensus size: 29
46520295 GTAATTCTTA
* * *
46520305 GAAAATTTAGGGTTAAAATGTAATTTAAG
1 GAAAGTTTAGGGTCAAAATGAAATTTAAG
*
46520334 GAAAGTTTAGGGGTCAAAATGAAATTTAAA
1 GAAAGTTTA-GGGTCAAAATGAAATTTAAG
* *
46520364 GAAAGTTTAGGGTCAAATTAAAATTT-AG
1 GAAAGTTTAGGGTCAAAATGAAATTTAAG
46520392 GAAAAGTTTAGGAGTCAAAATG
1 G-AAAGTTTAGG-GTCAAAATG
46520414 TTATTTTTTA
Statistics
Matches: 68, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
28 2 0.03
29 33 0.49
30 33 0.49
ACGTcount: A:0.45, C:0.03, G:0.23, T:0.29
Consensus pattern (29 bp):
GAAAGTTTAGGGTCAAAATGAAATTTAAG
Found at i:46520435 original size:14 final size:14
Alignment explanation
Indices: 46520416--46520448 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
46520406 TCAAAATGTT
46520416 ATTTTTTATTTTT-A
1 ATTTTTT-TTTTTAA
46520430 ATTTTTTTTTTTAA
1 ATTTTTTTTTTTAA
46520444 ATTTT
1 ATTTT
46520449 GAAAATTGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (14 bp):
ATTTTTTTTTTTAA
Found at i:46522755 original size:10 final size:11
Alignment explanation
Indices: 46522731--46522757 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
46522721 TGTCGTCAAG
46522731 AAAACTAAATA
1 AAAACTAAATA
46522742 AAAACTAAATA
1 AAAACTAAATA
46522753 AAAAC
1 AAAAC
46522758 CAAAAACAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.74, C:0.11, G:0.00, T:0.15
Consensus pattern (11 bp):
AAAACTAAATA
Found at i:46529623 original size:48 final size:48
Alignment explanation
Indices: 46529552--46529985 Score: 769
Period size: 48 Copynumber: 9.0 Consensus size: 48
46529542 CAAGATAAAT
* * *
46529552 ATATATATGTGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
46529600 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* *
46529648 ATATGTATATGTGGTAAAGCCGAATGACTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
46529696 ATATGTATATGTGGTAAAGCCGAATGGCTACTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
46529744 TTATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
46529792 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* *
46529840 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
46529888 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
46529936 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
46529984 AT
1 AT
46529986 GTGTGTATAT
Statistics
Matches: 371, Mismatches: 15, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 371 1.00
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
Found at i:46530176 original size:37 final size:37
Alignment explanation
Indices: 46530126--46530228 Score: 179
Period size: 37 Copynumber: 2.8 Consensus size: 37
46530116 GGAAATATAT
*
46530126 TCCGGGTAAGACCCGGTGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
46530163 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
46530200 TCCGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
46530229 GGACTATTCG
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 63 1.00
ACGTcount: A:0.22, C:0.20, G:0.33, T:0.24
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:46532028 original size:27 final size:27
Alignment explanation
Indices: 46531898--46532029 Score: 174
Period size: 27 Copynumber: 4.9 Consensus size: 27
46531888 AAACATACAT
* * * * *
46531898 CACATAGGGGCAAAACAGTCATCTGAG
1 CACATAAGGGCAAAATAGTCATTTTAC
* *
46531925 CATATAAGGGCAATATAGTCATTTTAC
1 CACATAAGGGCAAAATAGTCATTTTAC
* *
46531952 CACATAAGGGCAAAATAGCCATTCTAC
1 CACATAAGGGCAAAATAGTCATTTTAC
*
46531979 CACATAAGGGCAAAACAGTCATTTTAC
1 CACATAAGGGCAAAATAGTCATTTTAC
46532006 CACATAAGGGCAAAATAGTCATTT
1 CACATAAGGGCAAAATAGTCATTT
46532030 CATCAAATTA
Statistics
Matches: 90, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 90 1.00
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.23
Consensus pattern (27 bp):
CACATAAGGGCAAAATAGTCATTTTAC
Found at i:46533464 original size:24 final size:24
Alignment explanation
Indices: 46533437--46533488 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
46533427 CCCACTTTTT
*
46533437 CCTCCCCTAATCTCTCCTAAAATC
1 CCTCCCCAAATCTCTCCTAAAATC
** * *
46533461 CCTCTTCAAATCTCTCTTCAAATC
1 CCTCCCCAAATCTCTCCTAAAATC
46533485 CCTC
1 CCTC
46533489 AACTGATCAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.23, C:0.44, G:0.00, T:0.33
Consensus pattern (24 bp):
CCTCCCCAAATCTCTCCTAAAATC
Found at i:46533477 original size:12 final size:12
Alignment explanation
Indices: 46533445--46533484 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
46533435 TTCCTCCCCT
* *
46533445 AATCTCTCCTAA
1 AATCTCTCTTCA
*
46533457 AATCCCTCTTCA
1 AATCTCTCTTCA
46533469 AATCTCTCTTCA
1 AATCTCTCTTCA
46533481 AATC
1 AATC
46533485 CCTCAACTGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.30, C:0.35, G:0.00, T:0.35
Consensus pattern (12 bp):
AATCTCTCTTCA
Found at i:46534698 original size:22 final size:22
Alignment explanation
Indices: 46534650--46534691 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
46534640 TTACTGTTTC
*
46534650 ACACTTCAGTGCTTACTATTCT
1 ACACTTCAGTGCCTACTATTCT
46534672 ACACTTCAGTGCCTACTATT
1 ACACTTCAGTGCCTACTATT
46534692 TAGCACTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.24, C:0.29, G:0.10, T:0.38
Consensus pattern (22 bp):
ACACTTCAGTGCCTACTATTCT
Found at i:46540143 original size:27 final size:27
Alignment explanation
Indices: 46540111--46540201 Score: 137
Period size: 27 Copynumber: 3.4 Consensus size: 27
46540101 TTATTTACTT
* * **
46540111 GTAAAATGATCGAAATACCCCCATAGG
1 GTAAAATGACCAAAATACCCCTGTAGG
46540138 GTAAAATGACCAAAATACCCCTGTAGG
1 GTAAAATGACCAAAATACCCCTGTAGG
*
46540165 GTAAAATGACCAAAATACCCCTGTAAG
1 GTAAAATGACCAAAATACCCCTGTAGG
46540192 GTAAAATGAC
1 GTAAAATGAC
46540202 TATTTTGCCC
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 59 1.00
ACGTcount: A:0.43, C:0.21, G:0.18, T:0.19
Consensus pattern (27 bp):
GTAAAATGACCAAAATACCCCTGTAGG
Found at i:46540223 original size:27 final size:27
Alignment explanation
Indices: 46540191--46540434 Score: 246
Period size: 27 Copynumber: 9.0 Consensus size: 27
46540181 ACCCCTGTAA
*
46540191 GGTAAAATGACTATTTTGCCCTTTTGT
1 GGTAAAATGACTATTTTGCCCTTATGT
*
46540218 GTTAAAATGACTATTTTGCCCTTATGT
1 GGTAAAATGACTATTTTGCCCTTATGT
*
46540245 GAG-AAAATGAC-AGTTTTGCCCTTATAT
1 G-GTAAAATGACTA-TTTTGCCCTTATGT
* * *
46540272 GGAAAAATAAC-AGTTTTTCCCTTATGT
1 GGTAAAATGACTA-TTTTGCCCTTATGT
* *
46540299 GTTAACATGAC-AGTTTTGCCCTTATGT
1 GGTAAAATGACTA-TTTTGCCCTTATGT
* * **
46540326 GGTGAAATGA-TGATTTTTCCCTTATAA
1 GGTAAAATGACT-ATTTTGCCCTTATGT
46540353 GGTAAAATGACTATTTTGCCCTTATGT
1 GGTAAAATGACTATTTTGCCCTTATGT
** *
46540380 GGTAGGATGACTATTTTGCCCTTATAT
1 GGTAAAATGACTATTTTGCCCTTATGT
** *
46540407 GGTAGGATGACTATTTTCCCCTTATGT
1 GGTAAAATGACTATTTTGCCCTTATGT
46540434 G
1 G
46540435 ATGTATGTTT
Statistics
Matches: 184, Mismatches: 27, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
26 2 0.01
27 180 0.98
28 2 0.01
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.40
Consensus pattern (27 bp):
GGTAAAATGACTATTTTGCCCTTATGT
Found at i:46540774 original size:18 final size:18
Alignment explanation
Indices: 46540748--46540784 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
46540738 GGATTTGCAT
*
46540748 ACTGCTTACTGTTACTGC
1 ACTGCTTACTATTACTGC
*
46540766 ACTGTTTACTATTACTGC
1 ACTGCTTACTATTACTGC
46540784 A
1 A
46540785 ATGGGCCAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.41
Consensus pattern (18 bp):
ACTGCTTACTATTACTGC
Found at i:46543450 original size:28 final size:28
Alignment explanation
Indices: 46543387--46543568 Score: 294
Period size: 28 Copynumber: 6.5 Consensus size: 28
46543377 ATATTAAGTC
*
46543387 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
46543414 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
46543442 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
46543470 TGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
46543498 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * *
46543526 CGCACACTTAGTGCTATACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
46543555 CGCACACTTAGTGC
1 CGCACACTTAGTGC
46543569 CAATCTCATG
Statistics
Matches: 145, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
27 22 0.15
28 104 0.72
29 19 0.13
ACGTcount: A:0.34, C:0.27, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:46551479 original size:28 final size:28
Alignment explanation
Indices: 46551412--46551520 Score: 159
Period size: 28 Copynumber: 3.9 Consensus size: 28
46551402 AATGACATAT
46551412 TATAATCAAACT-GCACACTTAGTGCTA
1 TATAATCAAACTCGCACACTTAGTGCTA
46551439 -ATAATCAAACTCGCACACTTAGTGCTA
1 TATAATCAAACTCGCACACTTAGTGCTA
*
46551466 TATAATCAAACTCGCACACTTAGTGCTG
1 TATAATCAAACTCGCACACTTAGTGCTA
* * *
46551494 TACAATTTAAACCCGCACACTTAGTGC
1 TATAA-TCAAACTCGCACACTTAGTGC
46551521 CAATCTCATG
Statistics
Matches: 75, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
26 11 0.15
27 15 0.20
28 30 0.40
29 19 0.25
ACGTcount: A:0.35, C:0.26, G:0.12, T:0.28
Consensus pattern (28 bp):
TATAATCAAACTCGCACACTTAGTGCTA
Found at i:46551520 original size:57 final size:54
Alignment explanation
Indices: 46551412--46551520 Score: 155
Period size: 57 Copynumber: 2.0 Consensus size: 54
46551402 AATGACATAT
* *
46551412 TATAATCAAACTGCACACTTAGTGCTAATAATCAAACTCGCACACTTAGTGCTA
1 TATAATCAAACTGCACACTTAGTGCTAACAATCAAACCCGCACACTTAGTGCTA
* *
46551466 TATAATCAAACTCGCACACTTAGTGCTGTACAATTTAAACCCGCACACTTAGTGC
1 TATAATCAAACT-GCACACTTAGTGCT-AACAA-TCAAACCCGCACACTTAGTGC
46551521 CAATCTCATG
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
54 12 0.25
55 14 0.29
56 3 0.06
57 19 0.40
ACGTcount: A:0.35, C:0.26, G:0.12, T:0.28
Consensus pattern (54 bp):
TATAATCAAACTGCACACTTAGTGCTAACAATCAAACCCGCACACTTAGTGCTA
Found at i:46563716 original size:28 final size:28
Alignment explanation
Indices: 46563653--46563833 Score: 319
Period size: 28 Copynumber: 6.5 Consensus size: 28
46563643 ATATTAAGTC
* *
46563653 CGCACACTCAGTGTTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
46563680 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
46563708 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
46563736 TGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
46563764 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
46563792 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
46563820 CGCACACTTAGTGC
1 CGCACACTTAGTGC
46563834 CAATCTCATG
Statistics
Matches: 147, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
27 21 0.14
28 126 0.86
ACGTcount: A:0.34, C:0.26, G:0.12, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:46571700 original size:28 final size:28
Alignment explanation
Indices: 46571637--46571818 Score: 285
Period size: 28 Copynumber: 6.5 Consensus size: 28
46571627 ATATTAAGTC
*
46571637 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
46571664 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
46571692 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
46571720 TGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
46571748 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
46571776 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
46571805 CGCACACTTAGTGC
1 CGCACACTTAGTGC
46571819 CAATCTCATG
Statistics
Matches: 144, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
27 22 0.15
28 103 0.72
29 19 0.13
ACGTcount: A:0.34, C:0.27, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:46574488 original size:25 final size:25
Alignment explanation
Indices: 46574468--46574551 Score: 87
Period size: 25 Copynumber: 3.4 Consensus size: 25
46574458 ACAGCTCGTG
*
46574468 TGAGCATACCAATTTATAGCTCGAA
1 TGAGCATACCGATTTATAGCTCGAA
* * ** *
46574493 AGAGCATACCGATCTGCAGCTCGAG
1 TGAGCATACCGATTTATAGCTCGAA
* * *
46574518 TGAACATACCGATTCATAGCTCGTA
1 TGAGCATACCGATTTATAGCTCGAA
46574543 TGAGCATAC
1 TGAGCATAC
46574552 ATGCACATGA
Statistics
Matches: 44, Mismatches: 15, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (25 bp):
TGAGCATACCGATTTATAGCTCGAA
Found at i:46580557 original size:96 final size:96
Alignment explanation
Indices: 46580444--46580636 Score: 271
Period size: 96 Copynumber: 2.0 Consensus size: 96
46580434 CTTACTTTCT
* * * *
46580444 TCTCTAGTTGGATATTTAATTGGACATTGGAAGCCCTTATGATCTTTTGAGCTACACCAATAACA
1 TCTCTAGTTGGATATTTAATTAGACATTGGAAACCCTTATAATCTTTTGAACTACACCAATAACA
* * *
46580509 TTGCACAAAAGGTGATATCTC-AATTGTATTC
66 TTACACAAAAGGAGATAGCTCAAATT-TATTC
* * *
46580540 TCTCTATTTGGATATTTAATTAGACATTGGAAACCCTTATAATCTTTTGAACTAGACTAATAACA
1 TCTCTAGTTGGATATTTAATTAGACATTGGAAACCCTTATAATCTTTTGAACTACACCAATAACA
*
46580605 TTACACAAAATGAGATAGCTCAAATTTATTC
66 TTACACAAAAGGAGATAGCTCAAATTTATTC
46580636 T
1 T
46580637 TCCTTTCGTT
Statistics
Matches: 85, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
96 81 0.95
97 4 0.05
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.36
Consensus pattern (96 bp):
TCTCTAGTTGGATATTTAATTAGACATTGGAAACCCTTATAATCTTTTGAACTACACCAATAACA
TTACACAAAAGGAGATAGCTCAAATTTATTC
Found at i:46591657 original size:42 final size:42
Alignment explanation
Indices: 46591611--46591723 Score: 158
Period size: 41 Copynumber: 2.7 Consensus size: 42
46591601 AAAAAAGAAG
* *
46591611 TGAAATTAATAAGTTTTTATTTTAAATTTTATAA-GAAACAAA
1 TGAAATTAATAAGTTTTTAATTTAAATTTTAGAAGGAAA-AAA
46591653 TGAAATTAATAAGTTTTTAATTTAAA-TTTAGAAGGAAAAAA
1 TGAAATTAATAAGTTTTTAATTTAAATTTTAGAAGGAAAAAA
* **
46591694 TGAAATTAATTAGTTTGAAATTTAAATTTT
1 TGAAATTAATAAGTTTTTAATTTAAATTTT
46591724 GAACAGAAAA
Statistics
Matches: 64, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
41 32 0.50
42 32 0.50
ACGTcount: A:0.47, C:0.01, G:0.10, T:0.42
Consensus pattern (42 bp):
TGAAATTAATAAGTTTTTAATTTAAATTTTAGAAGGAAAAAA
Found at i:46591734 original size:41 final size:41
Alignment explanation
Indices: 46591611--46591735 Score: 162
Period size: 42 Copynumber: 3.0 Consensus size: 41
46591601 AAAAAAGAAG
*
46591611 TGAAATTAATAAGTTTTTATTTTAAATTTT-ATAAGAAACAAA
1 TGAAATTAATAAGTTTTTAATTTAAATTTTGA-AAGAAA-AAA
* *
46591653 TGAAATTAATAAGTTTTTAATTTAAATTTAGAAGGAAAAAA
1 TGAAATTAATAAGTTTTTAATTTAAATTTTGAAAGAAAAAA
* **
46591694 TGAAATTAATTAGTTTGAAATTTAAATTTTGAACAGAAAAAA
1 TGAAATTAATAAGTTTTTAATTTAAATTTTGAA-AGAAAAAA
46591736 AAAGATTTTT
Statistics
Matches: 73, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
41 32 0.44
42 40 0.55
43 1 0.01
ACGTcount: A:0.50, C:0.02, G:0.10, T:0.38
Consensus pattern (41 bp):
TGAAATTAATAAGTTTTTAATTTAAATTTTGAAAGAAAAAA
Found at i:46594895 original size:28 final size:28
Alignment explanation
Indices: 46594851--46594944 Score: 145
Period size: 28 Copynumber: 3.4 Consensus size: 28
46594841 GAGATTGGCG
* *
46594851 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAATTTGATTATATAGCA
46594879 CTAAGTGTGCGAATTTGATTATATAGCA
1 CTAAGTGTGCGAATTTGATTATATAGCA
*
46594907 CTAAGTGTGCG-AGTTGATTATATAGCA
1 CTAAGTGTGCGAATTTGATTATATAGCA
*
46594934 CTGAGTGTGCG
1 CTAAGTGTGCG
46594945 GACTTAATAT
Statistics
Matches: 62, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
27 25 0.40
28 37 0.60
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.34
Consensus pattern (28 bp):
CTAAGTGTGCGAATTTGATTATATAGCA
Found at i:46594955 original size:27 final size:28
Alignment explanation
Indices: 46594851--46594957 Score: 121
Period size: 28 Copynumber: 3.9 Consensus size: 28
46594841 GAGATTGGCG
* *
46594851 CTAAGTGTGC-GAGTTTGATTATGTAGCA
1 CTAAGTGTGCGGA-CTTGATTATATAGCA
* *
46594879 CTAAGTGTGCGAATTTGATTATATAGCA
1 CTAAGTGTGCGGACTTGATTATATAGCA
*
46594907 CTAAGTGTGC-GAGTTGATTATATAGCA
1 CTAAGTGTGCGGACTTGATTATATAGCA
* *
46594934 CTGAGTGTGCGGACTT-AATATATA
1 CTAAGTGTGCGGACTTGATTATATA
46594958 CTTTTGAATC
Statistics
Matches: 70, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
27 31 0.44
28 38 0.54
29 1 0.01
ACGTcount: A:0.29, C:0.11, G:0.25, T:0.35
Consensus pattern (28 bp):
CTAAGTGTGCGGACTTGATTATATAGCA
Found at i:46602993 original size:28 final size:28
Alignment explanation
Indices: 46602950--46603102 Score: 245
Period size: 28 Copynumber: 5.5 Consensus size: 28
46602940 TAAATTGTAC
46602950 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
* *
46602978 AGCGCTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
46603006 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
46603034 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
* *
46603062 AGCACTAAGTGTGCAAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
46603089 AGCACTGAGTGTGC
1 AGCACTAAGTGTGC
46603103 AGACTTAATA
Statistics
Matches: 118, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
27 23 0.19
28 95 0.81
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:46608015 original size:24 final size:24
Alignment explanation
Indices: 46607892--46608003 Score: 161
Period size: 24 Copynumber: 4.7 Consensus size: 24
46607882 GATTCAACTC
* * *
46607892 CGCACACATAGTGCCAAATAATTA
1 CGCACACATAGTGCCATACAAATA
* *
46607916 CGCACACGTAGTGCCATACATATA
1 CGCACACATAGTGCCATACAAATA
*
46607940 CTCACACATAGTGCCATACAAATA
1 CGCACACATAGTGCCATACAAATA
*
46607964 CGCACACATAGTGCCATACCAATA
1 CGCACACATAGTGCCATACAAATA
46607988 CGCACACATAGTGCCA
1 CGCACACATAGTGCCA
46608004 CTCAAATCCG
Statistics
Matches: 78, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 78 1.00
ACGTcount: A:0.38, C:0.30, G:0.13, T:0.19
Consensus pattern (24 bp):
CGCACACATAGTGCCATACAAATA
Found at i:46611112 original size:56 final size:58
Alignment explanation
Indices: 46610989--46611129 Score: 171
Period size: 56 Copynumber: 2.5 Consensus size: 58
46610979 TTGTTATAGG
* * *
46610989 AAGGATTTAGCCCGGA-TGGGTAATCCTAATATAATACCTCTTGAGTATACGTTATGTT
1 AAGGATTTAGCCTGGACT-GGTAATCCTAATATAATACCTCTTGAGCATACGTTATATT
* * * * * *
46611047 TAGGGTTTAGCCTGGACTGGTAATCCTAAT-TGA-GCTTTTTGAGCATACGTTATATT
1 AAGGATTTAGCCTGGACTGGTAATCCTAATATAATACCTCTTGAGCATACGTTATATT
46611103 AAGGATTTAGCCTGGACTGGTAATCCT
1 AAGGATTTAGCCTGGACTGGTAATCCT
46611130 GTTATATGAT
Statistics
Matches: 71, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
56 43 0.61
57 2 0.03
58 25 0.35
59 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (58 bp):
AAGGATTTAGCCTGGACTGGTAATCCTAATATAATACCTCTTGAGCATACGTTATATT
Found at i:46620259 original size:43 final size:43
Alignment explanation
Indices: 46620177--46620262 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 43
46620167 ATCACATTTA
* **
46620177 TCGCATCCATTATGAACTCGCACCACTCAATTAGATCGGATGC
1 TCGCATCCATAATGAACTCGCACCACTCAACAAGATCGGATGC
* *
46620220 TCGCATCCATAATGAACTCGGACCACTCAACAAGCTCGGATGC
1 TCGCATCCATAATGAACTCGCACCACTCAACAAGATCGGATGC
46620263 CACATATATC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.22
Consensus pattern (43 bp):
TCGCATCCATAATGAACTCGCACCACTCAACAAGATCGGATGC
Found at i:46624086 original size:40 final size:40
Alignment explanation
Indices: 46624038--46624264 Score: 409
Period size: 40 Copynumber: 5.7 Consensus size: 40
46624028 GCAAACACAT
* *
46624038 TTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
46624078 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
46624118 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
46624158 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
46624198 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
46624238 TTGCCTTCGGGTCTTAGCCCGGATATA
1 TTGCCTTCGGGTCTTAGCCCGGATATA
46624265 ATCCAATGCT
Statistics
Matches: 180, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 180 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:46632765 original size:40 final size:40
Alignment explanation
Indices: 46632717--46632945 Score: 413
Period size: 40 Copynumber: 5.7 Consensus size: 40
46632707 GCAAACACAT
* *
46632717 TTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
46632757 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
46632797 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
46632837 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
46632877 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
46632917 TTGCCTTCGGGTCTTAGCCCGGATATATC
1 TTGCCTTCGGGTCTTAGCCCGGATATATC
46632946 CAATGCTCAT
Statistics
Matches: 182, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 182 1.00
ACGTcount: A:0.21, C:0.28, G:0.20, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:46635653 original size:21 final size:21
Alignment explanation
Indices: 46635624--46635663 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
46635614 TTGATTTGGC
*
46635624 CACACGGGCGTGTGCCCCTTT
1 CACACGGGCATGTGCCCCTTT
*
46635645 CACATGGGCATGTGCCCCT
1 CACACGGGCATGTGCCCCT
46635664 ATGTCAAGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.12, C:0.38, G:0.28, T:0.23
Consensus pattern (21 bp):
CACACGGGCATGTGCCCCTTT
Found at i:46652748 original size:41 final size:40
Alignment explanation
Indices: 46652515--46652748 Score: 303
Period size: 41 Copynumber: 5.8 Consensus size: 40
46652505 GGATATAGCT
* * *
46652515 ACTCGCTC-AATGCCTTCGGGACATAGCCCGGATA-TAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGA-AGTAATA
* *
46652554 ACTCACACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAGTAATA
*
46652594 ACTCGCACAAATGCCTTCGGGACTTAGCCCAGAATGTAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAA-GTAATA
*
46652635 ACTCACACAAATGCCTTCGGGACTTAGCCCGGAATGTAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAA-GTAATA
* * * *
46652676 ACTCGCACAAAGGCCTTCGGGACTTAGCCCGGAACTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAGTAATA
46652716 ACTAGCGCA-AAATGCCTTCGGGACTTAGCCCGG
1 ACT--CGCACAAATGCCTTCGGGACTTAGCCCGG
46652749 TTATCACCCA
Statistics
Matches: 174, Mismatches: 16, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
39 6 0.03
40 64 0.37
41 100 0.57
42 4 0.02
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAGTAATA
Found at i:46661213 original size:21 final size:21
Alignment explanation
Indices: 46661189--46661237 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
46661179 ACTAAATCAC
46661189 ACTTTTATGACAAATTTTATA
1 ACTTTTATGACAAATTTTATA
46661210 ACTTTTATGACAAATTTTATA
1 ACTTTTATGACAAATTTTATA
46661231 ACTTTTA
1 ACTTTTA
46661238 AGCAATTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.37, C:0.10, G:0.04, T:0.49
Consensus pattern (21 bp):
ACTTTTATGACAAATTTTATA
Found at i:46677379 original size:22 final size:22
Alignment explanation
Indices: 46677348--46677409 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 22
46677338 AATACGTTTT
*
46677348 GCACATAGCCATAATCAGGTTG
1 GCACAAAGCCATAATCAGGTTG
* *
46677370 GCACAGAGCCATATAT-AGTTTG
1 GCACAAAGCCATA-ATCAGGTTG
*
46677392 GCGCAAAGCCATAATCAG
1 GCACAAAGCCATAATCAG
46677410 AATAATTGGA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
21 2 0.06
22 30 0.88
23 2 0.06
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.21
Consensus pattern (22 bp):
GCACAAAGCCATAATCAGGTTG
Found at i:46677609 original size:41 final size:41
Alignment explanation
Indices: 46677552--46677673 Score: 190
Period size: 41 Copynumber: 3.0 Consensus size: 41
46677542 AAAAGCCAGT
* * *
46677552 GGTGGATCCACGGTCGTCAAACAACCATGCGATCCTTAATC
1 GGTGGATCCACGGTCGTCAAGCAACCATACGATCCTCAATC
46677593 GGTGGATCCACGGTCGTCAAGCAACCATACGATCCTCAATC
1 GGTGGATCCACGGTCGTCAAGCAACCATACGATCCTCAATC
** *
46677634 GGTGGATCCGTGGTCGTCAAGCAACCATTCGATCCTCAAT
1 GGTGGATCCACGGTCGTCAAGCAACCATACGATCCTCAAT
46677674 TTCTTCCTCC
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 75 1.00
ACGTcount: A:0.25, C:0.30, G:0.23, T:0.22
Consensus pattern (41 bp):
GGTGGATCCACGGTCGTCAAGCAACCATACGATCCTCAATC
Found at i:46677963 original size:27 final size:27
Alignment explanation
Indices: 46677933--46678209 Score: 109
Period size: 27 Copynumber: 10.2 Consensus size: 27
46677923 GGTAAATCTA
46677933 CAAACTAAGGGTATTTCGATAATTTTG
1 CAAACTAAGGGTATTTCGATAATTTTG
* * *
46677960 CAAACCAATGGTATTTCTATAATTTTTG
1 CAAACTAAGGGTATTTCGATAA-TTTTG
** *
46677988 -ATAGTTAAGGGTGTATTTCTG-TAATTTTC
1 CA-AACTAA-GG-GTATTTC-GATAATTTTG
*
46678017 CAAA-TCAAGGGTATTTCGATAATTTTC
1 CAAACT-AAGGGTATTTCGATAATTTTG
* * * *
46678044 CAAATTAGGGGTATTT-TAGTAATTTTA
1 CAAACTAAGGGTATTTCGA-TAATTTTG
* * * * **
46678071 CAAATTGAGGGTATTTAGGTAATTTCA
1 CAAACTAAGGGTATTTCGATAATTTTG
* * * *
46678098 CAAA-TCAGGGGTATTTAGGTAATTTTA
1 CAAACT-AAGGGTATTTCGATAATTTTG
* * * * *
46678125 CAAACCAGGGGTATTTTGGTAATTTTT
1 CAAACTAAGGGTATTTCGATAATTTTG
* ** * * *
46678152 CTATTTGAGGGTATTTTGGTAATTTTG
1 CAAACTAAGGGTATTTCGATAATTTTG
* *
46678179 TAAACCAAGGGTA-TTC-AGTAATTTTG
1 CAAACTAAGGGTATTTCGA-TAATTTTG
*
46678205 TAAAC
1 CAAAC
46678210 CATCCCAGTC
Statistics
Matches: 197, Mismatches: 39, Indels: 29
0.74 0.15 0.11
Matches are distributed among these distances:
26 18 0.09
27 148 0.75
28 12 0.06
29 8 0.04
30 11 0.06
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (27 bp):
CAAACTAAGGGTATTTCGATAATTTTG
Found at i:46678075 original size:54 final size:54
Alignment explanation
Indices: 46677952--46678193 Score: 186
Period size: 54 Copynumber: 4.4 Consensus size: 54
46677942 GGTATTTCGA
* * * ** *
46677952 TAATTTTGCAAACCAATGGTATTTCTATAATTTTTGATAGTTAAGGGTGTATTTCT-G
1 TAATTTTACAAACCAAGGGTATTTCGATAATTTTCCA-AATT-AGGG-GTATTT-TAG
* *
46678009 TAATTTTCCAAATCAAGGGTATTTCGATAATTTTCCAAATTAGGGGTATTTTAG
1 TAATTTTACAAACCAAGGGTATTTCGATAATTTTCCAAATTAGGGGTATTTTAG
*** * * *
46678063 TAATTTTACAAATTGAGGGTATTTAGGTAA-TTTCACAAATCAGGGGTA-TTTAGG
1 TAATTTTACAAACCAAGGGTATTTCGATAATTTTC-CAAATTAGGGGTATTTTA-G
* * * * * * *
46678117 TAATTTTACAAACCAGGGGTATTTTGGTAATTTTTC-TATTTGAGGGTATTTTGG
1 TAATTTTACAAACCAAGGGTATTTCGATAATTTTCCAAATTAG-GGGTATTTTAG
**
46678171 TAATTTTGTAAACCAAGGGTATT
1 TAATTTTACAAACCAAGGGTATT
46678194 CAGTAATTTT
Statistics
Matches: 153, Mismatches: 26, Indels: 15
0.79 0.13 0.08
Matches are distributed among these distances:
53 12 0.08
54 97 0.63
55 10 0.07
56 3 0.02
57 31 0.20
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.42
Consensus pattern (54 bp):
TAATTTTACAAACCAAGGGTATTTCGATAATTTTCCAAATTAGGGGTATTTTAG
Found at i:46678122 original size:81 final size:80
Alignment explanation
Indices: 46677939--46678203 Score: 228
Period size: 81 Copynumber: 3.2 Consensus size: 80
46677929 TCTACAAACT
* * ** ** * *
46677939 AAGGGTATTTCGATAATTTTGCAAACCAATGGTATTTCTA-TAATTTTTGATAGTTAAGGGTGTA
1 AAGGGTATTTAGATAATTTTACAAACCAGGGGTATTT-TAGTAATTTTACA-AATTGA-GG-GTA
**
46678003 TTTCTGTAATTTTCCAAATC
62 TTTAGGTAA-TTTCCAAATC
* * **
46678023 AAGGGTATTTCGATAATTTTCCAAATTAGGGGTATTTTAGTAATTTTACAAATTGAGGGTATTTA
1 AAGGGTATTTAGATAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAAATTGAGGGTATTTA
46678088 GGTAATTTCACAAATC
66 GGTAATTTC-CAAATC
* * * * * * *
46678104 AGGGGTATTTAGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTTCTATTTGAGGGTATTTT
1 AAGGGTATTTAGATAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAAATTGAGGGTATTTA
** *
46678169 GGTAATTTTGTAAACC
66 GGTAA-TTTCCAAATC
*
46678185 AAGGGTATTCAG-TAATTTT
1 AAGGGTATTTAGATAATTTT
46678204 GTAAACCATC
Statistics
Matches: 151, Mismatches: 27, Indels: 10
0.80 0.14 0.05
Matches are distributed among these distances:
80 11 0.07
81 89 0.59
82 5 0.03
83 6 0.04
84 40 0.26
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.42
Consensus pattern (80 bp):
AAGGGTATTTAGATAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAAATTGAGGGTATTTA
GGTAATTTCCAAATC
Found at i:46678870 original size:40 final size:41
Alignment explanation
Indices: 46678777--46678895 Score: 179
Period size: 40 Copynumber: 2.9 Consensus size: 41
46678767 AAGCCACCGA
* *
46678777 TGGATCCACGGTCGTCAAGCAACTATGCGATCC-CTAATCGG
1 TGGATCCACGGTCGTCAAGCAACCATACGATCCTC-AATCGG
46678818 TGGATCCACGGTCGTCAAGCAACCATACGATCCTCAA-CGG
1 TGGATCCACGGTCGTCAAGCAACCATACGATCCTCAATCGG
* *
46678858 TGGAGCCACGGTCGTCAAGCAACCATTCGATCCTCAAT
1 TGGATCCACGGTCGTCAAGCAACCATACGATCCTCAAT
46678896 TTCTTCCTCC
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
40 38 0.53
41 33 0.46
42 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.23, T:0.20
Consensus pattern (41 bp):
TGGATCCACGGTCGTCAAGCAACCATACGATCCTCAATCGG
Found at i:46679175 original size:27 final size:27
Alignment explanation
Indices: 46679153--46679476 Score: 244
Period size: 27 Copynumber: 12.0 Consensus size: 27
46679143 TTGGTAAATC
46679153 TACAAATCAAGGGTATTTCGGTAATTT
1 TACAAATCAAGGGTATTTCGGTAATTT
* ** *
46679180 TGCAAA-CTAATAGTATTTCTGTAATTT
1 TACAAATC-AAGGGTATTTCGGTAATTT
* **
46679207 TAGAAAGTCAAGGGTATTTCTATAATTT
1 TACAAA-TCAAGGGTATTTCGGTAATTT
** * *
46679235 TGTAAATCAAGAGTATTTCTGTAATTT
1 TACAAATCAAGGGTATTTCGGTAATTT
* * *
46679262 TCCAAATTAAGTGTATTTCGGTAATTT
1 TACAAATCAAGGGTATTTCGGTAATTT
* * * **
46679289 TCCAAATTAGGGGTATTTTAGTAA-TT
1 TACAAATCAAGGGTATTTCGGTAATTT
** *
46679315 TACAAATTGAGGGTATTTAGGTAATTT
1 TACAAATCAAGGGTATTTCGGTAATTT
* *
46679342 CACAAATCAAGGGTATTTTGGTAATTT
1 TACAAATCAAGGGTATTTCGGTAATTT
* * *
46679369 TACAAACCAGGGGTATTTTGGTAATTT
1 TACAAATCAAGGGTATTTCGGTAATTT
* *
46679396 TACAAA-CTAGAGGTATTTTGGTAATTT
1 TACAAATCAAG-GGTATTTCGGTAATTT
* * * *
46679423 TGCTAATTGAA-GGTATTTTGGTAATTT
1 TAC-AAATCAAGGGTATTTCGGTAATTT
** * *
46679450 TGTAAACCAAGGGTATTT-AGTAATTT
1 TACAAATCAAGGGTATTTCGGTAATTT
46679476 T
1 T
46679477 GTAAACCAGC
Statistics
Matches: 244, Mismatches: 45, Indels: 17
0.80 0.15 0.06
Matches are distributed among these distances:
26 36 0.15
27 184 0.75
28 22 0.09
29 2 0.01
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.41
Consensus pattern (27 bp):
TACAAATCAAGGGTATTTCGGTAATTT
Found at i:46679348 original size:80 final size:79
Alignment explanation
Indices: 46679255--46679476 Score: 243
Period size: 80 Copynumber: 2.8 Consensus size: 79
46679245 GAGTATTTCT
* * **
46679255 GTAATTTTCCAAATTAAGTGTATTTCGGTAATTTTCCAAATTAGGGGTATTTTAGTAA-TTTACA
1 GTAA-TTTCCAAATTAAG-GTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTACA
*
46679319 AA-TTGAGGGTATTTAG
64 AACTAGA-GGTATTTAG
* *
46679335 GTAATTTCACAAATCAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACA
1 GTAATTTC-CAAATTAA-GGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTACA
*
46679400 AACTAGAGGTATTTTG
64 AACTAGAGGTATTTAG
* * ** *
46679416 GTAATTTTGCTAATTGAAGGTATTTTGGTAATTTTGTAAACCAAGGGTA-TTTAGTAATTTT
1 GTAA-TTTCCAAATT-AAGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTT
46679477 GTAAACCAGC
Statistics
Matches: 121, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
79 4 0.03
80 56 0.46
81 53 0.44
82 8 0.07
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (79 bp):
GTAATTTCCAAATTAAGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAAA
CTAGAGGTATTTAG
Found at i:46679483 original size:107 final size:106
Alignment explanation
Indices: 46679153--46679485 Score: 292
Period size: 107 Copynumber: 3.1 Consensus size: 106
46679143 TTGGTAAATC
* * * * * * *
46679153 TACAAATCAAGGGTATTTCGGTAATTTTGCAAACTA-ATAGTATTTCT-GTAATTTTAGAAAGTC
1 TACAAACCAGGGGTATTTCGGTAATTTTACAAACTAGA-GGTATTT-TAGTAA-TTTACAAATTG
*** * *
46679216 AAGGGTATTTCTATAATTTTGTAAATCAAGAGTATTTCTGTAATTT
63 AA-GGTATTTAGGTAATTTTGTAAATCAAGGGTATTT-AGTAATTT
* ** * * * * * *
46679262 TCCAAATTAAGTGTATTTCGGTAATTTTCCAAATTAGGGGTATTTTAGTAATTTACAAATTGAGG
1 TACAAACCAGGGGTATTTCGGTAATTTTACAAACTAGAGGTATTTTAGTAATTTACAAATTGAAG
*** *
46679327 GTATTTAGGTAATTTCACAAATCAAGGGTATTTTGGTAATTT
66 GTATTTAGGTAATTTTGTAAATCAAGGGTA-TTTAGTAATTT
* * * *
46679369 TACAAACCAGGGGTATTTTGGTAATTTTACAAACTAGAGGTATTTTGGTAATTTTGCTAATTGAA
1 TACAAACCAGGGGTATTTCGGTAATTTTACAAACTAGAGGTATTTTAGTAA-TTTACAAATTGAA
* *
46679434 GGTATTTTGGTAATTTTGTAAACCAAGGGTATTTAGTAATTT
65 GGTATTTAGGTAATTTTGTAAATCAAGGGTATTTAGTAATTT
**
46679476 TGTAAACCAG
1 TACAAACCAG
46679486 CCCAGTCCAA
Statistics
Matches: 180, Mismatches: 40, Indels: 10
0.78 0.17 0.04
Matches are distributed among these distances:
107 90 0.50
108 49 0.27
109 41 0.23
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (106 bp):
TACAAACCAGGGGTATTTCGGTAATTTTACAAACTAGAGGTATTTTAGTAATTTACAAATTGAAG
GTATTTAGGTAATTTTGTAAATCAAGGGTATTTAGTAATTT
Found at i:46679884 original size:22 final size:22
Alignment explanation
Indices: 46679840--46679904 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
46679830 GCAAATTCGT
*
46679840 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
*
46679862 TTGGCACAAAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
** *
46679884 TTGGTGCAAAGGCATAATCAG
1 TTGGCACAAAGCCATAATCAG
46679905 AATAATTGGA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 2 0.06
22 31 0.89
23 2 0.06
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.22
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:46680142 original size:40 final size:41
Alignment explanation
Indices: 46680049--46680167 Score: 186
Period size: 40 Copynumber: 2.9 Consensus size: 41
46680039 AAGCCACCGA
* *
46680049 TGGATCCACGGTCGTCAAGCAACCATGCGATCCTTAATCGG
1 TGGATCCACGGTCGTCAAGCAACCATACGATCCTCAATCGG
46680090 TGGATCCACGGTCGTCAAGCAACCATACGATCCTCAA-CGG
1 TGGATCCACGGTCGTCAAGCAACCATACGATCCTCAATCGG
* * *
46680130 TGGAGCCACGGTCGTCAAGCAGCCATTCGATCCTCAAT
1 TGGATCCACGGTCGTCAAGCAACCATACGATCCTCAAT
46680168 TAATTCCTCC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
40 37 0.51
41 35 0.49
ACGTcount: A:0.25, C:0.31, G:0.24, T:0.20
Consensus pattern (41 bp):
TGGATCCACGGTCGTCAAGCAACCATACGATCCTCAATCGG
Found at i:46680457 original size:27 final size:27
Alignment explanation
Indices: 46680427--46680749 Score: 244
Period size: 27 Copynumber: 12.0 Consensus size: 27
46680417 GGTAAATCTA
*
46680427 CAAACCAAGGGTATTTCGGTAATTTTG
1 CAAATCAAGGGTATTTCGGTAATTTTG
** *
46680454 CAAA-CTAATAGTATTTCTGTAATTTTTG
1 CAAATC-AAGGGTATTTCGGTAA-TTTTG
**
46680482 -AAAGTCAAGGGTATTTCTATAATTTTG
1 CAAA-TCAAGGGTATTTCGGTAATTTTG
* * *
46680509 TAAATCAAGAGTATTTCTGTAATTTTG
1 CAAATCAAGGGTATTTCGGTAATTTTG
* * *
46680536 CAAATTAAGTGTATTTCGGTAATTTTC
1 CAAATCAAGGGTATTTCGGTAATTTTG
* * ** *
46680563 CAAATTAGGGGTATTTTAGTAATTTTA
1 CAAATCAAGGGTATTTCGGTAATTTTG
** * **
46680590 CAAATTGAGGGTATTTAGGTAATTTCA
1 CAAATCAAGGGTATTTCGGTAATTTTG
* *
46680617 CAAATCAAGGGTATTTTGGTAATTTTA
1 CAAATCAAGGGTATTTCGGTAATTTTG
* * *
46680644 CAAA-CCAGGGTATTTTGGTAATTTTA
1 CAAATCAAGGGTATTTCGGTAATTTTG
* *
46680670 CAAA-CTAGAGGTATTTTGGTAATTTTG
1 CAAATCAAG-GGTATTTCGGTAATTTTG
* * *
46680697 CTAATTGAA-GGTATTTTGGTAATTTTG
1 C-AAATCAAGGGTATTTCGGTAATTTTG
* * *
46680724 TAAACCAAGGGTA-TTCAGTAATTTTG
1 CAAATCAAGGGTATTTCGGTAATTTTG
46680750 TAAACCAGCC
Statistics
Matches: 248, Mismatches: 39, Indels: 19
0.81 0.13 0.06
Matches are distributed among these distances:
26 44 0.18
27 179 0.72
28 23 0.09
29 2 0.01
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.41
Consensus pattern (27 bp):
CAAATCAAGGGTATTTCGGTAATTTTG
Found at i:46680614 original size:81 final size:79
Alignment explanation
Indices: 46680434--46680748 Score: 269
Period size: 80 Copynumber: 3.9 Consensus size: 79
46680424 CTACAAACCA
* * **
46680434 AGGGTATTTCGGTAATTTTGCAAACTAA-TAGTATTTCTGTAATTTTTGAAAGTCAAGGGTATTT
1 AGGGTATTTCGGTAATTTTGCAAATTAAGT-GTATTTCGGTAATTTTACAAA-TC-AGGGTATTT
** *
46680498 CTA-TAATTTTGTAAATCA
63 -TAGTAATTTTACAAAT-T
* * * *
46680516 AGAGTATTTCTGTAATTTTGCAAATTAAGTGTATTTCGGTAATTTTCCAAATTAGGGGTATTTTA
1 AGGGTATTTCGGTAATTTTGCAAATTAAGTGTATTTCGGTAATTTTACAAATCA-GGGTATTTTA
46680581 GTAATTTTACAAATT
65 GTAATTTTACAAATT
* ** * * * * *
46680596 GAGGGTATTTAGGTAATTTCACAAATCAAGGGTATTTTGGTAATTTTACAAACCAGGGTATTTTG
1 -AGGGTATTTCGGTAATTTTGCAAATTAAGTGTATTTCGGTAATTTTACAAATCAGGGTATTTTA
*
46680661 GTAATTTTACAAACT
65 GTAATTTTACAAATT
* * * ** *
46680676 AGAGGTATTTTGGTAATTTTGCTAATTGAAG-GTATTTTGGTAATTTTGTAAACCAAGGGTA-TT
1 AG-GGTATTTCGGTAATTTTGCAAATT-AAGTGTATTTCGGTAATTTTACAAATC-AGGGTATTT
*
46680739 CAGTAATTTT
63 TAGTAATTTT
46680749 GTAAACCAGC
Statistics
Matches: 194, Mismatches: 32, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
79 2 0.01
80 76 0.39
81 72 0.37
82 43 0.22
83 1 0.01
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (79 bp):
AGGGTATTTCGGTAATTTTGCAAATTAAGTGTATTTCGGTAATTTTACAAATCAGGGTATTTTAG
TAATTTTACAAATT
Found at i:46681141 original size:22 final size:22
Alignment explanation
Indices: 46681113--46681177 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
46681103 GCAAATTCGT
*
46681113 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
*
46681135 TTGGCACAAAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
**
46681157 TTGGTGCAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
46681178 AATAATTGGA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.22
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:46681378 original size:41 final size:40
Alignment explanation
Indices: 46681315--46681438 Score: 167
Period size: 40 Copynumber: 3.1 Consensus size: 40
46681305 GGATTAAAAC
* *
46681315 CAACGATGGATCCACGGTCGTCAAGCAACCATGCGATCCT
1 CAACGGTGGATCCACGGTCGTCAAGCAACCATACGATCCT
*
46681355 TAATCGGTGGATCCACGGTCGTCAAGCAACCATACGATCCT
1 CAA-CGGTGGATCCACGGTCGTCAAGCAACCATACGATCCT
* * ** *
46681396 CAACGGTAGAGCCACGACCGTCAAGCAACCATTCGATCCT
1 CAACGGTGGATCCACGGTCGTCAAGCAACCATACGATCCT
46681436 CAA
1 CAA
46681439 TTTCTTCCTC
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
40 37 0.50
41 37 0.50
ACGTcount: A:0.29, C:0.32, G:0.21, T:0.18
Consensus pattern (40 bp):
CAACGGTGGATCCACGGTCGTCAAGCAACCATACGATCCT
Found at i:46681729 original size:27 final size:27
Alignment explanation
Indices: 46681699--46682022 Score: 233
Period size: 27 Copynumber: 12.0 Consensus size: 27
46681689 GCTAAATCTA
* *
46681699 CAAACCAAGGGCATTTCGGTAATTTTG
1 CAAATCAAGGGTATTTCGGTAATTTTG
* ** *
46681726 CAAACCAATAGTATTTCTGTAATTTTTG
1 CAAATCAAGGGTATTTCGGTAA-TTTTG
**
46681754 -AAAGTCAAGGGTATTTCTATAATTTTG
1 CAAA-TCAAGGGTATTTCGGTAATTTTG
* * * *
46681781 TAAATCAAGAGTATTTCTGTAATTTTC
1 CAAATCAAGGGTATTTCGGTAATTTTG
* * *
46681808 CAAATTAAGTGTATTTCGGTAATTTTC
1 CAAATCAAGGGTATTTCGGTAATTTTG
* * ** *
46681835 CAAATTAGGGGTATTTTAGTAATTTTA
1 CAAATCAAGGGTATTTCGGTAATTTTG
** * **
46681862 CAAATTGAGGGTATTTAGGTAATTTCA
1 CAAATCAAGGGTATTTCGGTAATTTTG
* *
46681889 CAAATCAAGGGTATTTTGGTAATTTTA
1 CAAATCAAGGGTATTTCGGTAATTTTG
* * * *
46681916 CAAACCAGGGGTATTTTGGTAATTTTA
1 CAAATCAAGGGTATTTCGGTAATTTTG
* *
46681943 CAAA-CTAGAGGTATTTTGGTAATTTTG
1 CAAATCAAG-GGTATTTCGGTAATTTTG
* * *
46681970 CTAATTGAA-GGTATTTTGGTAATTTTG
1 C-AAATCAAGGGTATTTCGGTAATTTTG
* * *
46681997 TAAACCAAGGGTATTT-AGTAATTTTG
1 CAAATCAAGGGTATTTCGGTAATTTTG
46682023 TAAACCAGCC
Statistics
Matches: 248, Mismatches: 42, Indels: 15
0.81 0.14 0.05
Matches are distributed among these distances:
26 15 0.06
27 208 0.84
28 24 0.10
29 1 0.00
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (27 bp):
CAAATCAAGGGTATTTCGGTAATTTTG
Found at i:46681884 original size:81 final size:80
Alignment explanation
Indices: 46681799--46682021 Score: 263
Period size: 81 Copynumber: 2.8 Consensus size: 80
46681789 GAGTATTTCT
* * **
46681799 GTAATTTTCCAAATTAAGTGTATTTCGGTAATTTTCCAAATTAGGGGTATTTTAGTAATTTTACA
1 GTAATTTTCCAAATTAAG-GTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTACA
*
46681864 AA-TTGAGGGTATTTAG
65 AACTAGA-GGTATTTAG
* *
46681880 GTAA-TTTCACAAATCAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTAC
1 GTAATTTTC-CAAATTAA-GGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTAC
*
46681944 AAACTAGAGGTATTTTG
64 AAACTAGAGGTATTTAG
* * ** *
46681961 GTAATTTTGCTAATTGAAGGTATTTTGGTAATTTTGTAAACCAAGGGTA-TTTAGTAATTTT
1 GTAATTTTCCAAATT-AAGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTT
46682022 GTAAACCAGC
Statistics
Matches: 122, Mismatches: 15, Indels: 11
0.82 0.10 0.07
Matches are distributed among these distances:
80 15 0.12
81 98 0.80
82 9 0.07
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (80 bp):
GTAATTTTCCAAATTAAGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAA
ACTAGAGGTATTTAG
Found at i:46682430 original size:22 final size:22
Alignment explanation
Indices: 46682386--46682450 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
46682376 GCAAATTCGT
*
46682386 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
*
46682408 TTGGCACAAAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
** *
46682430 TTGGTGCAAAGGCATAATCAG
1 TTGGCACAAAGCCATAATCAG
46682451 AATAATTGGA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 2 0.06
22 31 0.89
23 2 0.06
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.22
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:46682651 original size:41 final size:40
Alignment explanation
Indices: 46682588--46682711 Score: 167
Period size: 40 Copynumber: 3.1 Consensus size: 40
46682578 GGATTAAAAC
* *
46682588 CAACGATGGATCCACGGTCGTCAAGCAACCATGCGATCCT
1 CAACGGTGGATCCACGGTCGTCAAGCAACCATACGATCCT
*
46682628 TAATCGGTGGATCCACGGTCGTCAAGCAACCATACGATCCT
1 CAA-CGGTGGATCCACGGTCGTCAAGCAACCATACGATCCT
* * ** *
46682669 CAACGGTAGAGCCACGACCGTCAAGCAACCATTCGATCCT
1 CAACGGTGGATCCACGGTCGTCAAGCAACCATACGATCCT
46682709 CAA
1 CAA
46682712 TTTCTTCCTC
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
40 37 0.50
41 37 0.50
ACGTcount: A:0.29, C:0.32, G:0.21, T:0.18
Consensus pattern (40 bp):
CAACGGTGGATCCACGGTCGTCAAGCAACCATACGATCCT
Done.