Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 150 of 240
Found at i:47126915 original size:28 final size:28
Alignment explanation
Indices: 47126872--47126957 Score: 93
Period size: 28 Copynumber: 3.1 Consensus size: 28
47126862 TATACCTATA
* * *
47126872 TATATGGCCCACTAGGCCCAATCTCTTT
1 TATATGGCCCATTAGGCCCAATCACATT
* *
47126900 TATATGGGCCATTAGGCCCATTCACATT
1 TATATGGCCCATTAGGCCCAATCACATT
* *
47126928 TATGTGGCCCATTAGGCACAAATCAC-TT
1 TATATGGCCCATTAGGC-CCAATCACATT
47126956 TA
1 TA
47126958 CCAAATCACA
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
28 42 0.88
29 6 0.12
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.31
Consensus pattern (28 bp):
TATATGGCCCATTAGGCCCAATCACATT
Found at i:47131399 original size:29 final size:28
Alignment explanation
Indices: 47131308--47131419 Score: 109
Period size: 28 Copynumber: 4.0 Consensus size: 28
47131298 TCCTATATAT
* * * *
47131308 ATATGGCCCACTAGGCCCAATCTCTTTC
1 ATATGGCCCATTAGGCCAAATCACATTC
* * *
47131336 ATATGGCCCATTAGGCCCATTCACATTT
1 ATATGGCCCATTAGGCCAAATCACATTC
* *
47131364 ATGTGGCCCATTAAGCCTAAATCACATTC
1 ATATGGCCCATTAGGCC-AAATCACATTC
*
47131393 ATATGG-CCACTAGGCCCAAATCACATT
1 ATATGGCCCATTAGG-CCAAATCACATT
47131420 TACAGTCATT
Statistics
Matches: 69, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
28 54 0.78
29 15 0.22
ACGTcount: A:0.28, C:0.30, G:0.14, T:0.28
Consensus pattern (28 bp):
ATATGGCCCATTAGGCCAAATCACATTC
Found at i:47131506 original size:17 final size:18
Alignment explanation
Indices: 47131484--47131517 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
47131474 TTCCTATTAT
47131484 GGGCCCA-ATAGCCCATA
1 GGGCCCATATAGCCCATA
*
47131501 GGGCCCATTTAGCCCAT
1 GGGCCCATATAGCCCAT
47131518 TTTGGCCCGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.24, C:0.35, G:0.24, T:0.18
Consensus pattern (18 bp):
GGGCCCATATAGCCCATA
Found at i:47131670 original size:16 final size:16
Alignment explanation
Indices: 47131631--47131663 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
47131621 CTACTGTAGC
*
47131631 CAAACTTTCGGCTTTT
1 CAAAATTTCGGCTTTT
47131647 CAAAATTTCGGCTTTT
1 CAAAATTTCGGCTTTT
47131663 C
1 C
47131664 GAGATTTGCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.24, G:0.12, T:0.42
Consensus pattern (16 bp):
CAAAATTTCGGCTTTT
Found at i:47133888 original size:48 final size:48
Alignment explanation
Indices: 47133810--47134197 Score: 282
Period size: 48 Copynumber: 7.8 Consensus size: 48
47133800 ACCATGCTAA
* *
47133810 ATGTGCTTGTGTAAGACCATGTCTGGGACATGGCATCGACGAAGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGACGATGATAT
*
47133858 ATTTGCCTGTGTAAGACCATGTCTGGGACATGGCATC-AGCGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGA-CGATGATAT
* * *
47133906 ATGTACTTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGACGATGATAT
* * * * * * *
47133954 GTGTGCCAGCGTAAGACCATGTTTGGGATATGGAATCGGCGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGACGATGATAT
* * * * * *
47134002 GTGTCGGC-GATGATATGTGTGCCAGTATAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
1 ATGT-GCCTG-TG-TA--AG-ACC---AT--G-TC-TG----GGACATGGCATCGACGATGATAT
* * **
47134066 GTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGACGATGATAT
* *
47134114 GTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATC-A-G-TGATGAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGACGATGAT-AT
** * * *
47134160 ATGTAGATTCATGTAAGACCCTGTCGGGGACATGGCAT
1 ATGT-GCCT-GTGTAAGACCATGTCTGGGACATGGCAT
47134198 TGGTACTTTA
Statistics
Matches: 281, Mismatches: 36, Indels: 46
0.77 0.10 0.13
Matches are distributed among these distances:
45 4 0.01
46 6 0.02
47 2 0.01
48 215 0.77
49 3 0.01
50 2 0.01
52 3 0.01
53 3 0.01
54 1 0.00
56 4 0.01
58 1 0.00
59 2 0.01
60 3 0.01
62 2 0.01
63 4 0.01
64 26 0.09
ACGTcount: A:0.25, C:0.17, G:0.31, T:0.27
Consensus pattern (48 bp):
ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGACGATGATAT
Found at i:47133981 original size:96 final size:96
Alignment explanation
Indices: 47133810--47134197 Score: 341
Period size: 96 Copynumber: 3.9 Consensus size: 96
47133800 ACCATGCTAA
* * * * * *
47133810 ATGTGCTTGTGTAAGACCATGTCTGGGACATGGCATCGACGAAGATATATTTGCCTGTGTAAGAC
1 ATGTACTTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATGTGTGCCAGTGTAAGAC
*
47133875 CATGTCTGGGACATGGCATCAGCGATGATAT
66 CATGTCTGGGACATGGCATCGGCGATGATAT
*
47133906 ATGTACTTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATGTGTGCCAGCGTAAGAC
1 ATGTACTTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATGTGTGCCAGTGTAAGAC
* * *
47133971 CATGTTTGGGATATGGAATCGGCGATGATAT
66 CATGTCTGGGACATGGCATCGGCGATGATAT
* * * * * *
47134002 GTGTCGGCGATGATATGTGTGCCAGTA-TAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
1 ATGT-----A--CT-TGTGT--AAG-ACCATG----TC--TGGGACATGGCATCGGCGATGATAT
*
47134066 GTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATAT
49 GTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* * ** * * *
47134114 GTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGTGATGATATGTAGAT-TCA-TGTAAG
1 ATGTACTTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATGT-G-TGCCAGTGTAAG
* *
47134177 ACCCTGTCGGGGACATGGCAT
64 ACCATGTCTGGGACATGGCAT
47134198 TGGTACTTTA
Statistics
Matches: 237, Mismatches: 35, Indels: 40
0.76 0.11 0.13
Matches are distributed among these distances:
96 138 0.58
97 3 0.01
98 2 0.01
101 2 0.01
102 4 0.02
103 1 0.00
104 9 0.04
106 4 0.02
107 1 0.00
110 1 0.00
112 72 0.30
ACGTcount: A:0.25, C:0.17, G:0.31, T:0.27
Consensus pattern (96 bp):
ATGTACTTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATGTGTGCCAGTGTAAGAC
CATGTCTGGGACATGGCATCGGCGATGATAT
Found at i:47134010 original size:16 final size:16
Alignment explanation
Indices: 47133989--47134021 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
47133979 GGATATGGAA
47133989 TCGGCGATGATATGTG
1 TCGGCGATGATATGTG
47134005 TCGGCGATGATATGTG
1 TCGGCGATGATATGTG
47134021 T
1 T
47134022 GCCAGTATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.12, G:0.36, T:0.33
Consensus pattern (16 bp):
TCGGCGATGATATGTG
Found at i:47134020 original size:64 final size:64
Alignment explanation
Indices: 47133941--47134069 Score: 213
Period size: 64 Copynumber: 2.0 Consensus size: 64
47133931 GGACATGGCA
* * *
47133941 TCGGCGATGATATGTGTGCCAGCGTAAGACCATGTTTGGGATATGGAATCGGCGATGATATGTG
1 TCGGCGATGATATGTGTGCCAGCATAAGACCATGTCTGGGACATGGAATCGGCGATGATATGTG
* *
47134005 TCGGCGATGATATGTGTGCCAGTATAAGACCATGTCTGGGACATGGCATCGGCGATGATATGTG
1 TCGGCGATGATATGTGTGCCAGCATAAGACCATGTCTGGGACATGGAATCGGCGATGATATGTG
47134069 T
1 T
47134070 GCCAGTGTAA
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 60 1.00
ACGTcount: A:0.23, C:0.16, G:0.33, T:0.28
Consensus pattern (64 bp):
TCGGCGATGATATGTGTGCCAGCATAAGACCATGTCTGGGACATGGAATCGGCGATGATATGTG
Found at i:47134133 original size:160 final size:160
Alignment explanation
Indices: 47133869--47134163 Score: 482
Period size: 160 Copynumber: 1.8 Consensus size: 160
47133859 TTTGCCTGTG
**
47133869 TAAGACCATGTCTGGGACATGGCATCAGCGATGATATATGTACTTGTGTAAGACCATGTCTGGGA
1 TAAGACCATGTCTGGGACATGGCATCAGCGATGATATATGTACCAGTGTAAGACCATGTCTGGGA
* * *
47133934 CATGGCATCGGCGATGATATGTGTGCCAGCGTAAGACCATGTTTGGGATATGGAATCGGCGATGA
66 CATGGCATCGGCGATGATATGTGTGCCAGCGTAAGACCATGTCTGGGACATGGAATCAGCGATGA
47133999 TATGTGTCGGCGATGATATGTGTGCCAGTA
131 TATGTGTCGGCGATGATATGTGTGCCAGTA
* * *
47134029 TAAGACCATGTCTGGGACATGGCATCGGCGATGATATGTGTGCCAGTGTAAGACCATGTCTGGGA
1 TAAGACCATGTCTGGGACATGGCATCAGCGATGATATATGTACCAGTGTAAGACCATGTCTGGGA
* * * *
47134094 CATGGCATCGGTGATGATATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGTGATGA
66 CATGGCATCGGCGATGATATGTGTGCCAGCGTAAGACCATGTCTGGGACATGGAATCAGCGATGA
47134159 TATGT
131 TATGT
47134164 AGATTCATGT
Statistics
Matches: 123, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
160 123 1.00
ACGTcount: A:0.25, C:0.17, G:0.32, T:0.27
Consensus pattern (160 bp):
TAAGACCATGTCTGGGACATGGCATCAGCGATGATATATGTACCAGTGTAAGACCATGTCTGGGA
CATGGCATCGGCGATGATATGTGTGCCAGCGTAAGACCATGTCTGGGACATGGAATCAGCGATGA
TATGTGTCGGCGATGATATGTGTGCCAGTA
Found at i:47136992 original size:37 final size:37
Alignment explanation
Indices: 47136850--47136994 Score: 245
Period size: 37 Copynumber: 3.9 Consensus size: 37
47136840 GCTCAGACGA
* * * *
47136850 AATCTCCACACGAAGTTATCGGGTCTTACCCAGACAA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
47136887 AATCTCCACACGTAGTCATCGGGTCTGACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
47136924 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
47136961 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
47136995 ATATATTTCC
Statistics
Matches: 102, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 102 1.00
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.23
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
Found at i:47137206 original size:46 final size:46
Alignment explanation
Indices: 47137138--47137274 Score: 184
Period size: 46 Copynumber: 3.0 Consensus size: 46
47137128 TATATATACA
* * * *
47137138 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* * * *
47137184 CATTTCATACACGTTTTGCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* *
47137230 TATCTCATACACATTTCGCATTAGCCATTCGGCCTTACCACATAT
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
47137275 ATACATGTTC
Statistics
Matches: 77, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
46 77 1.00
ACGTcount: A:0.26, C:0.30, G:0.09, T:0.36
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
Found at i:47137309 original size:47 final size:47
Alignment explanation
Indices: 47137248--47137681 Score: 643
Period size: 47 Copynumber: 9.1 Consensus size: 47
47137238 ACACATTTCG
* * * *
47137248 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
* *
47137295 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
*
47137342 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
*
47137389 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
* * * * *
47137436 CATTGGTCATTCGGCCTTATCACGCATATATATACAGGTTCACATTCGTCA
1 CATTGGCCATTCGGCCTTATCA--C--ACATATGCATGTTCACATTCATCA
*
47137487 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
* **
47137534 TATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATATGCAT----GTTCACATTCATCA
47137585 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
47137632 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
47137679 CAT
1 CAT
47137682 AAAATCCTAA
Statistics
Matches: 353, Mismatches: 26, Indels: 16
0.89 0.07 0.04
Matches are distributed among these distances:
47 267 0.76
49 2 0.01
51 84 0.24
ACGTcount: A:0.26, C:0.29, G:0.13, T:0.32
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
Found at i:47137513 original size:98 final size:98
Alignment explanation
Indices: 47137248--47137660 Score: 644
Period size: 98 Copynumber: 4.3 Consensus size: 98
47137238 ACACATTTCG
* *
47137248 CATTAGCCATTCGGCCTTA-C-CAC--ATATATACATGTTCACATTCATCACATTGGCCATTCGG
1 CATTGGCCATTCGGCCTTATCACACATATATATACAGGTTCACATTCATCACATTGGCCATTCGG
* * *
47137309 CCTTATCTCATATATGCATGTTCACATTCATCA
66 CCTTATCACACATACGCATGTTCACATTCATCA
** *
47137342 CATTGGCCATTCGGCCTTATCACAC----ATACGCATGTTCACATTCATCACATTGGCCATTCGG
1 CATTGGCCATTCGGCCTTATCACACATATATATACAGGTTCACATTCATCACATTGGCCATTCGG
47137403 CCTTATCACACATACGCATGTTCACATTCATCA
66 CCTTATCACACATACGCATGTTCACATTCATCA
* * *
47137436 CATTGGTCATTCGGCCTTATCACGCATATATATACAGGTTCACATTCGTCACATTGGCCATTCGG
1 CATTGGCCATTCGGCCTTATCACACATATATATACAGGTTCACATTCATCACATTGGCCATTCGG
47137501 CCTTATCACACATACGCATGTTCACATTCATCA
66 CCTTATCACACATACGCATGTTCACATTCATCA
* *
47137534 TATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCACATTGGCCATTCGG
1 CATTGGCCATTCGGCCTTATCACACATATATATACAGGTTCACATTCATCACATTGGCCATTCGG
*
47137599 CCTTATCACACATATGCATGTTCACATTCATCA
66 CCTTATCACACATACGCATGTTCACATTCATCA
47137632 CATTGGCCATTCGGCCTTATCACACATAT
1 CATTGGCCATTCGGCCTTATCACACATAT
47137661 GCATGTTCAC
Statistics
Matches: 294, Mismatches: 19, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
94 105 0.36
95 1 0.00
96 3 0.01
98 185 0.63
ACGTcount: A:0.26, C:0.29, G:0.13, T:0.32
Consensus pattern (98 bp):
CATTGGCCATTCGGCCTTATCACACATATATATACAGGTTCACATTCATCACATTGGCCATTCGG
CCTTATCACACATACGCATGTTCACATTCATCA
Found at i:47137518 original size:145 final size:142
Alignment explanation
Indices: 47137248--47137681 Score: 665
Period size: 145 Copynumber: 3.0 Consensus size: 142
47137238 ACACATTTCG
* * *
47137248 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATATACATGTTCACATTCATCACATTGGCCATTCGGCCTT
*
47137313 ATC-TCATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGT
66 ATCACCATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGT
47137377 TCACATTCATCA
131 TCACATTCATCA
** *
47137389 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGTCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATATACATGTTCACATTCATCACATTGGCCATTCGGCCTT
* * *
47137454 ATCACGCATATATATACAGGTTCACATTCGTCACATTGGCCATTCGGCCTTATCACACATACGCA
66 ATCAC-C--ATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCA
47137519 TGTTCACATTCATCA
128 TGTTCACATTCATCA
* *
47137534 TATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCACATTGGCCATTCGG
1 CATTGGCCATTCGGCCTTATCACACATATACAT----GTTCACATTCATCACATTGGCCATTCGG
* *
47137599 CCTTATCA-CACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGC
62 CCTTATCACCATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGC
47137663 ATGTTCACATTCATCA
127 ATGTTCACATTCATCA
47137679 CAT
1 CAT
47137682 AAAATCCTAA
Statistics
Matches: 264, Mismatches: 21, Indels: 12
0.89 0.07 0.04
Matches are distributed among these distances:
141 62 0.23
143 1 0.00
145 165 0.62
147 1 0.00
149 35 0.13
ACGTcount: A:0.26, C:0.29, G:0.13, T:0.32
Consensus pattern (142 bp):
CATTGGCCATTCGGCCTTATCACACATATACATGTTCACATTCATCACATTGGCCATTCGGCCTT
ATCACCATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGT
TCACATTCATCA
Found at i:47137632 original size:25 final size:25
Alignment explanation
Indices: 47137603--47137680 Score: 69
Period size: 25 Copynumber: 3.2 Consensus size: 25
47137593 ATTCGGCCTT
47137603 ATCACACATATGCATGTTCACATTC
1 ATCACACATATGCATGTTCACATTC
* *
47137628 AT--CACAT-TGGCCA--TTCGGCCTT-
1 ATCACACATAT-G-CATGTTC-ACATTC
47137650 ATCACACATATGCATGTTCACATTC
1 ATCACACATATGCATGTTCACATTC
47137675 ATCACA
1 ATCACA
47137681 TAAAATCCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 6 0.15
23 11 0.28
24 11 0.28
25 12 0.30
ACGTcount: A:0.29, C:0.29, G:0.10, T:0.31
Consensus pattern (25 bp):
ATCACACATATGCATGTTCACATTC
Found at i:47137655 original size:22 final size:22
Alignment explanation
Indices: 47137581--47137655 Score: 57
Period size: 22 Copynumber: 3.3 Consensus size: 22
47137571 GTTCACATTC
47137581 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* *
47137603 ATCACACATAT-G-CATGTTC-ACATT
1 AT--CACAT-TGGCCA--TTCGGCCTT
47137627 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
47137650 ATCACA
1 ATCACA
47137656 CATATGCATG
Statistics
Matches: 40, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 12 0.30
23 11 0.28
24 11 0.28
25 6 0.15
ACGTcount: A:0.25, C:0.31, G:0.13, T:0.31
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:47137682 original size:23 final size:23
Alignment explanation
Indices: 47137607--47137682 Score: 61
Period size: 23 Copynumber: 3.3 Consensus size: 23
47137597 GGCCTTATCA
47137607 CACATATGCATGTTCACATTCAT
1 CACATATGCATGTTCACATTCAT
* *
47137630 CACAT-TGGCCA--TTCGGCCTT-AT
1 CACATAT-G-CATGTTC-ACATTCAT
47137652 CACACATATGCATGTTCACATTCAT
1 --CACATATGCATGTTCACATTCAT
47137677 CACATA
1 CACATA
47137683 AAATCCTAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 6 0.15
23 17 0.43
24 11 0.28
25 6 0.15
ACGTcount: A:0.29, C:0.29, G:0.11, T:0.32
Consensus pattern (23 bp):
CACATATGCATGTTCACATTCAT
Found at i:47141791 original size:16 final size:16
Alignment explanation
Indices: 47141772--47141803 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
47141762 AATTGTTTTA
47141772 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
47141788 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
47141804 ACTCCATTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:47142058 original size:50 final size:50
Alignment explanation
Indices: 47141982--47142368 Score: 366
Period size: 50 Copynumber: 7.7 Consensus size: 50
47141972 ACCGAAGCTC
* * * * *
47141982 TCTGGTATC-CATGGTAGCTTGCACTTAGTACTACACATGCGACCTATCAA
1 TCTGGTA-CACATAGTAGCCTGCACTTAGTACTACACACGTGACATATCAA
* * * * *
47142032 TCTGGTACACGTAGTAACCTGCACTTAGTACTACACACGTGACTTAACCA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACATATCAA
* * * * *
47142082 TCTGATACACATAGTAGCCTACACTTAGTACTACACACATGATCAAAGTTAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-CATA-TCAA
* * * * *
47142134 -CGGGTACGCATAGTAGCCTGTACTTAGTACTACACATGCGACATATCAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACATATCAA
* * * * *
47142183 TTTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACTTACCCA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACATATCAA
* * * * *
47142233 TCTGATACACATAGTAGCTTGCACTTAGTACTACACACGTAATCAAAGTTAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-CATA-TCAA
* ** * *
47142285 T-GGGTATGCATAGTAGCCTGCACTTAGTACTACACACGCGACCTATCAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACATATCAA
* * *
47142334 TCCGGTACACGTAGTAGACTGCACTTAGTACTACA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACA
47142369 GATGTGACTC
Statistics
Matches: 266, Mismatches: 64, Indels: 14
0.77 0.19 0.04
Matches are distributed among these distances:
49 8 0.03
50 185 0.70
51 70 0.26
52 3 0.01
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (50 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACATATCAA
Found at i:47142269 original size:151 final size:151
Alignment explanation
Indices: 47141995--47142377 Score: 613
Period size: 151 Copynumber: 2.5 Consensus size: 151
47141985 GGTATCCATG
* *
47141995 GTAGCTTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAACCTGCACTTAG
1 GTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCCTGCACTTAG
*
47142060 TACTACACACGTGACTTAACCATCTGATACACATAGTAGCCTACACTTAGTACTACACACATGAT
66 TACTACACACGTGACTTAACCATCTGATACACATAGTAGCCTACACTTAGTACTACACACATAAT
47142125 CAAAGTTAACGGGTACGCATA
131 CAAAGTTAACGGGTACGCATA
* * *
47142146 GTAGCCTGTACTTAGTACTACACATGCGACATATCAATTTGGTACACGTAGTAGCCTGCACTTAG
1 GTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCCTGCACTTAG
* * * *
47142211 TACTACACACGTGACTTACCCATCTGATACACATAGTAGCTTGCACTTAGTACTACACACGTAAT
66 TACTACACACGTGACTTAACCATCTGATACACATAGTAGCCTACACTTAGTACTACACACATAAT
* *
47142276 CAAAGTTAATGGGTATGCATA
131 CAAAGTTAACGGGTACGCATA
* * *
47142297 GTAGCCTGCACTTAGTACTACACACGCGACCTATCAATCCGGTACACGTAGTAGACTGCACTTAG
1 GTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCCTGCACTTAG
* *
47142362 TACTACAGATGTGACT
66 TACTACACACGTGACT
47142378 CACAACGGAT
Statistics
Matches: 212, Mismatches: 20, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
151 212 1.00
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (151 bp):
GTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCCTGCACTTAG
TACTACACACGTGACTTAACCATCTGATACACATAGTAGCCTACACTTAGTACTACACACATAAT
CAAAGTTAACGGGTACGCATA
Found at i:47142754 original size:19 final size:20
Alignment explanation
Indices: 47142732--47142771 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
47142722 TGTTATATCG
47142732 TCAAAATAATCACATA-ATA
1 TCAAAATAATCACATATATA
* *
47142751 TCAAATTATTCACATATATA
1 TCAAAATAATCACATATATA
47142771 T
1 T
47142772 ACTTACAACT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.50, C:0.15, G:0.00, T:0.35
Consensus pattern (20 bp):
TCAAAATAATCACATATATA
Found at i:47144235 original size:69 final size:69
Alignment explanation
Indices: 47144116--47144469 Score: 358
Period size: 69 Copynumber: 5.2 Consensus size: 69
47144106 TTTTTAGGTT
* * * *
47144116 TCACTAATTGTGTTGAAGGCTGCGACTCTTCTCCTGCAAGCCTTACTATGAAAGCTAGGAGCTTT
1 TCACTAACTGTGTTGAAGGCTGCGGCTCTTCGCCTGCAAGCCTTAATATGAAAGCTAGGAGCTTT
*
47144181 GCAC
66 GCTC
* * * * *
47144185 TCGCTAACTGTGTTGAAGGCTGCAGCTCTTCGCCTGCAAACCTTAATATGATAGTTCA-GAGCTT
1 TCACTAACTGTGTTGAAGGCTGCGGCTCTTCGCCTGCAAGCCTTAATATGAAAGCT-AGGAGCTT
* *
47144249 TGTTT
65 TGCTC
** * * * * * * * * *
47144254 TCTTTAACTATGTTGGAGGCTGTGGCTCTTTGCTTCCGAGCCTTAATATGACAGCT-GGAAGTTT
1 TCACTAACTGTGTTGAAGGCTGCGGCTCTTCGCCTGCAAGCCTTAATATGAAAGCTAGG-AGCTT
47144318 TGCTC
65 TGCTC
* * * * *
47144323 TCACTAACTGTGTTGAAGGCTACGGCTCTTCACCTACGAGCCTTAATATGAAAGCTGGGAGCTTT
1 TCACTAACTGTGTTGAAGGCTGCGGCTCTTCGCCTGCAAGCCTTAATATGAAAGCTAGGAGCTTT
47144388 GCTC
66 GCTC
* * * *
47144392 TCACTAATTGCT-TTGAAGGCTACGGCTCTTCGCCTGCAAGCCTTAATATGACAGTTAGGAGCTT
1 TCACTAACTG-TGTTGAAGGCTGCGGCTCTTCGCCTGCAAGCCTTAATATGAAAGCTAGGAGCTT
47144456 TGCTC
65 TGCTC
47144461 T-A-TAACTGT
1 TCACTAACTGT
47144470 TTTAGAGGCT
Statistics
Matches: 232, Mismatches: 48, Indels: 13
0.79 0.16 0.04
Matches are distributed among these distances:
66 1 0.00
67 5 0.02
68 2 0.01
69 220 0.95
70 4 0.02
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.33
Consensus pattern (69 bp):
TCACTAACTGTGTTGAAGGCTGCGGCTCTTCGCCTGCAAGCCTTAATATGAAAGCTAGGAGCTTT
GCTC
Found at i:47151228 original size:40 final size:40
Alignment explanation
Indices: 47151016--47151221 Score: 328
Period size: 40 Copynumber: 5.2 Consensus size: 40
47151006 AACCCAAGTA
*
47151016 CCTTCGGGATTTAG-CCGGATATAG-CAACTCA-CACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACT-AGCACAAATG
*
47151055 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
47151095 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
47151135 CCTTCGGGACTTAGCCCGAATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
47151175 CCTTCAGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
47151215 CCTTCGG
1 CCTTCGG
47151222 ATCTTAGTCC
Statistics
Matches: 155, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
39 14 0.09
40 140 0.90
41 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:47152459 original size:13 final size:13
Alignment explanation
Indices: 47152441--47152466 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
47152431 ATTTTTATTT
47152441 TTAACATAAAATA
1 TTAACATAAAATA
47152454 TTAACATAAAATA
1 TTAACATAAAATA
47152467 ATTATAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACATAAAATA
Found at i:47159150 original size:40 final size:40
Alignment explanation
Indices: 47158978--47159143 Score: 266
Period size: 40 Copynumber: 4.2 Consensus size: 40
47158968 AACCCAAGTA
*
47158978 CCTTCGGGATTTAG-CCGGATATAG-CAACTCA-CACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACT-AGCACAAATG
47159017 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
47159057 CCTTCGGGACTTAGCCCGAATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
47159097 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
47159137 CCTTCGG
1 CCTTCGG
47159144 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
39 14 0.12
40 104 0.87
41 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:47160377 original size:13 final size:13
Alignment explanation
Indices: 47160359--47160384 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
47160349 ATTTTTATTT
47160359 TTAACATAAAATA
1 TTAACATAAAATA
47160372 TTAACATAAAATA
1 TTAACATAAAATA
47160385 ATTATAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACATAAAATA
Found at i:47167401 original size:39 final size:40
Alignment explanation
Indices: 47167356--47167523 Score: 106
Period size: 40 Copynumber: 4.2 Consensus size: 40
47167346 CGGGGTTTAG
* * *
47167356 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
47167395 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
47167435 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
47167475 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
47167516 CCGGATAT
1 CCGGATAT
47167524 CATTCGAGTA
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 18 0.17
40 61 0.56
41 27 0.25
42 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:47167506 original size:41 final size:40
Alignment explanation
Indices: 47167379--47167523 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
47167369 CTCGCACAAG
* * * * *
47167379 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
47167419 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
47167459 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
47167500 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
47167524 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.64
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:47168751 original size:38 final size:38
Alignment explanation
Indices: 47168709--47168784 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
47168699 CAAGAACTCC
47168709 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
47168747 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
47168785 AAAGGATGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.32
Consensus pattern (38 bp):
TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
Found at i:47181644 original size:18 final size:16
Alignment explanation
Indices: 47181612--47181655 Score: 70
Period size: 18 Copynumber: 2.6 Consensus size: 16
47181602 GTCACACAAT
47181612 AAAATAAAAACAACTA
1 AAAATAAAAACAACTA
47181628 AAAATAAAAGTACAACTA
1 AAAATAAAA--ACAACTA
47181646 AAAATAAAAA
1 AAAATAAAAA
47181656 TAAATGAAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
16 10 0.38
18 16 0.62
ACGTcount: A:0.75, C:0.09, G:0.02, T:0.14
Consensus pattern (16 bp):
AAAATAAAAACAACTA
Found at i:47182365 original size:24 final size:24
Alignment explanation
Indices: 47182338--47182386 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
47182328 TGGCATGAAT
47182338 CACATGAGTGATACACTTGTAAAC
1 CACATGAGTGATACACTTGTAAAC
* *
47182362 CACATGAGTGATGCAGTTGTAAAC
1 CACATGAGTGATACACTTGTAAAC
47182386 C
1 C
47182387 TATTAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.24
Consensus pattern (24 bp):
CACATGAGTGATACACTTGTAAAC
Found at i:47184458 original size:17 final size:17
Alignment explanation
Indices: 47184419--47184469 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
47184409 TTATTTATTT
*
47184419 AATTTAATTAATTT-T-
1 AATTAAATTAATTTCTC
*
47184434 ATTTAAATTAATTTCTC
1 AATTAAATTAATTTCTC
*
47184451 AATTAAATTCATTTCTC
1 AATTAAATTAATTTCTC
47184468 AA
1 AA
47184470 CCTAATTTCA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 17 0.57
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.51
Consensus pattern (17 bp):
AATTAAATTAATTTCTC
Found at i:47186663 original size:208 final size:208
Alignment explanation
Indices: 47186300--47186721 Score: 781
Period size: 208 Copynumber: 2.0 Consensus size: 208
47186290 AGTTTCCATG
* *
47186300 TATTCCACATATATTTATTTTCCTCCTCCTCCTCTCCATTCCACATCCTTAATGTATATAGCATT
1 TATTTCACATATATTTATTTTCATCCTCCTCCTCTCCATTCCACATCCTTAATGTATATAGCATT
*
47186365 CTTGTAAGTACGATTTCACAATTTACTAATAAATGTTCACATCAAACTGTCCACATGAGTCATAG
66 CTTGTAAGTACGATTTCACAATTTACTAATAAATGTTCACATCAAACTGTCCACACGAGTCATAG
*
47186430 TCACTTAATTATTTATAATTTGATCTACAGAGCTCCAAATTAAGATCCGTAAATGTCCCCTGAAA
131 TCACTTAATTATTTATAATTTGATCTAAAGAGCTCCAAATTAAGATCCGTAAATGTCCCCTGAAA
*
47186495 CTAGACTCACATA
196 CTACACTCACATA
47186508 TATTTCACATATATTTATTTTCATCCTCCTCCTCTCCATTCCACATCCTTAATGTATATAGCATT
1 TATTTCACATATATTTATTTTCATCCTCCTCCTCTCCATTCCACATCCTTAATGTATATAGCATT
47186573 CTTGTAAGTACGATTTCACAATTTACTAATAAATGTTCACATCAAACTGTCCACACGAGTCATAG
66 CTTGTAAGTACGATTTCACAATTTACTAATAAATGTTCACATCAAACTGTCCACACGAGTCATAG
*
47186638 TCACTTAATTATTTATAATTTGATCTAAAGAGCTCCAAATTAAGATCCGTAAATTTCCCCTGAAA
131 TCACTTAATTATTTATAATTTGATCTAAAGAGCTCCAAATTAAGATCCGTAAATGTCCCCTGAAA
47186703 CTACACTCACATA
196 CTACACTCACATA
*
47186716 TCTTTC
1 TATTTC
47186722 CACCATAAAA
Statistics
Matches: 207, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
208 207 1.00
ACGTcount: A:0.32, C:0.24, G:0.08, T:0.36
Consensus pattern (208 bp):
TATTTCACATATATTTATTTTCATCCTCCTCCTCTCCATTCCACATCCTTAATGTATATAGCATT
CTTGTAAGTACGATTTCACAATTTACTAATAAATGTTCACATCAAACTGTCCACACGAGTCATAG
TCACTTAATTATTTATAATTTGATCTAAAGAGCTCCAAATTAAGATCCGTAAATGTCCCCTGAAA
CTACACTCACATA
Found at i:47193024 original size:27 final size:27
Alignment explanation
Indices: 47192993--47193170 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
47192983 TAAATTGTAC
47192993 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
47193020 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
47193046 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
47193074 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
47193102 GGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
47193129 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
47193156 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
47193171 GACTCGATAT
Statistics
Matches: 131, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
27 107 0.82
28 24 0.18
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:47193107 original size:82 final size:81
Alignment explanation
Indices: 47192994--47193149 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
47192984 AAATTGTACA
*
47192994 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAAATGAATATGTA-GCACTAAGTG
47193058 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
47193075 GCACTAAGTGTGCGAGTTTGACTATGTGGCACTAAGTGTGCGATTTGATTATGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTGGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTG
*
47193140 TGCGAGTTGA
65 TGCGAATTGA
47193150 TTATATAGCA
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 15 0.22
82 52 0.76
83 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:47193161 original size:82 final size:81
Alignment explanation
Indices: 47192990--47193170 Score: 238
Period size: 82 Copynumber: 2.2 Consensus size: 81
47192980 GATTAAATTG
*
47192990 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAAATGAATATGATGCACTAA
47193055 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
47193071 TGCGGCACTAAGTGTGCGAGTTTGACTATGTGGCACTAAGTGTGCGATTTGATTATG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTGGCACTAAGTGTGCGAAATGAATATGAT-GCACT
* **
47193135 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
47193153 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
47193171 GACTCGATAT
Statistics
Matches: 85, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
81 18 0.21
82 67 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAAATGAATATGATGCACTAA
GTGTGCGAATTGACCA
Found at i:47195411 original size:52 final size:50
Alignment explanation
Indices: 47195314--47195411 Score: 124
Period size: 52 Copynumber: 1.9 Consensus size: 50
47195304 GTATCTGACA
** *
47195314 ATATATCTACAATTTTGGTGGCTTGACCACAATATTCTGTATCTGGAAAT
1 ATATATCTACAATTTTGGTGGCTCAACCACAATATTCTATATCTGGAAAT
* * *
47195364 ATATATCTGCAATTATCTGGTGGCTCAACCACAATATTTTATTTCTGG
1 ATATATCTACAATT-T-TGGTGGCTCAACCACAATATTCTATATCTGG
47195412 CGACTCAACT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
50 13 0.32
51 1 0.03
52 26 0.65
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.39
Consensus pattern (50 bp):
ATATATCTACAATTTTGGTGGCTCAACCACAATATTCTATATCTGGAAAT
Found at i:47197426 original size:134 final size:134
Alignment explanation
Indices: 47197249--47197514 Score: 442
Period size: 134 Copynumber: 2.0 Consensus size: 134
47197239 GGGGTAATAC
* * * *
47197249 TAGTTAATTAATAGCTAATTCATATTACAGCTCAAATTATGAAATTAGTTAATCTTCTGTTCATT
1 TAGTTAACTAATAGCTAATTCATATTACAACCCAAATTATGAAATTAGTTAATCTTCTATTCATT
* * *
47197314 AATTAGGAATTTAATCGATCATTGGCTAGAGGCTCGCATTGTAAACTCTAGGAATAGGAAAGTCC
66 AATTAGAAATTTAATCGATCATGGGCTAGAGGCTCGCATTGTAAACACTAGGAATAGGAAAGTCC
47197379 ATAT
131 ATAT
*
47197383 TAGTTAACTAATAGCTAATTCATATTACAACCCAAATTATGAAATTAGTTAATCTTCTATTTATT
1 TAGTTAACTAATAGCTAATTCATATTACAACCCAAATTATGAAATTAGTTAATCTTCTATTCATT
* *
47197448 AATTAGAAATTTAATCGATCATGGGCTAGAGGCTTGCATTGTCAACACTAGGAATAGGAAAGTCC
66 AATTAGAAATTTAATCGATCATGGGCTAGAGGCTCGCATTGTAAACACTAGGAATAGGAAAGTCC
47197513 AT
131 AT
47197515 TAGGTTAATT
Statistics
Matches: 122, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
134 122 1.00
ACGTcount: A:0.36, C:0.14, G:0.15, T:0.35
Consensus pattern (134 bp):
TAGTTAACTAATAGCTAATTCATATTACAACCCAAATTATGAAATTAGTTAATCTTCTATTCATT
AATTAGAAATTTAATCGATCATGGGCTAGAGGCTCGCATTGTAAACACTAGGAATAGGAAAGTCC
ATAT
Found at i:47201957 original size:20 final size:20
Alignment explanation
Indices: 47201934--47202001 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
47201924 GCTTATCTGT
47201934 AATATTGGTGGCTTGTCCAC
1 AATATTGGTGGCTTGTCCAC
* *** **
47201954 AATAATGGCAACTTGTCTGC
1 AATATTGGTGGCTTGTCCAC
*
47201974 AATACTGGTGGCTTGTCCAC
1 AATATTGGTGGCTTGTCCAC
47201994 AATATTGG
1 AATATTGG
47202002 CAGTTTATCT
Statistics
Matches: 35, Mismatches: 13, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (20 bp):
AATATTGGTGGCTTGTCCAC
Found at i:47201983 original size:40 final size:40
Alignment explanation
Indices: 47201839--47202040 Score: 176
Period size: 40 Copynumber: 5.0 Consensus size: 40
47201829 AGGAAGTAAC
* * *
47201839 GGCAGCTTGTCTGCAACACTAGTGGCTTGACCACATATTACT
1 GGCAGCTTGTCTGCAATACTGGTGGCTTGTCCACA-A-TACT
** * **
47201881 GATAGCTTGTCT-CAATACAGGTGGCTTGTCCATGATACT
1 GGCAGCTTGTCTGCAATACTGGTGGCTTGTCCACAATACT
* * * * *
47201920 GATC-GCTTATCTGTAATATTGGTGGCTTGTCCACAATAAT
1 G-GCAGCTTGTCTGCAATACTGGTGGCTTGTCCACAATACT
* *
47201960 GGCAACTTGTCTGCAATACTGGTGGCTTGTCCACAATATT
1 GGCAGCTTGTCTGCAATACTGGTGGCTTGTCCACAATACT
* * * * *
47202000 GGCAGTTTATCTGTAATACTGGCGGCTTATCCACAA-ACT
1 GGCAGCTTGTCTGCAATACTGGTGGCTTGTCCACAATACT
47202039 GG
1 GG
47202041 TGTGTTATTG
Statistics
Matches: 127, Mismatches: 30, Indels: 9
0.77 0.18 0.05
Matches are distributed among these distances:
39 17 0.13
40 84 0.66
41 16 0.13
42 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.32
Consensus pattern (40 bp):
GGCAGCTTGTCTGCAATACTGGTGGCTTGTCCACAATACT
Found at i:47202010 original size:80 final size:79
Alignment explanation
Indices: 47201886--47202035 Score: 194
Period size: 80 Copynumber: 1.9 Consensus size: 79
47201876 TTACTGATAG
** * * * *
47201886 CTTGTCTCAATACAGGTGGCTTGTCCATGATACTGATCGCTTATCTGTAATATTGGTGGCTTGTC
1 CTTGTCTCAATACAGGTGGCTTGTCCACAATACTGAGCGCTTATCTGTAATACTGGCGGCTTATC
47201951 CACAATAATGGCAA
66 CACAATAATGGCAA
* * *
47201965 CTTGTCTGCAATACTGGTGGCTTGTCCACAATATTG-GCAGTTTATCTGTAATACTGGCGGCTTA
1 CTTGTCT-CAATACAGGTGGCTTGTCCACAATACTGAGC-GCTTATCTGTAATACTGGCGGCTTA
47202029 TCCACAA
64 TCCACAA
47202036 ACTGGTGTGT
Statistics
Matches: 60, Mismatches: 9, Indels: 3
0.83 0.12 0.04
Matches are distributed among these distances:
79 8 0.13
80 52 0.87
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.34
Consensus pattern (79 bp):
CTTGTCTCAATACAGGTGGCTTGTCCACAATACTGAGCGCTTATCTGTAATACTGGCGGCTTATC
CACAATAATGGCAA
Found at i:47202980 original size:46 final size:46
Alignment explanation
Indices: 47202912--47203040 Score: 179
Period size: 46 Copynumber: 2.8 Consensus size: 46
47202902 AATATTCCGA
*
47202912 TATTCTCAAGTCCGCAACATATGCAGGAGCTCGGAACCTAAAT-TTG
1 TATTCTCAAGTCCGCAACATATGCAGGAGCTCAGAACCT-AATCTTG
** * * * *
47202958 TATTCTTGAGTTCGCAAGATATGCAGGATCTCAGAACCTATTCTTG
1 TATTCTCAAGTCCGCAACATATGCAGGAGCTCAGAACCTAATCTTG
47203004 TATTCTCAAGTCCGCAACATATGCAGGAGCTCAGAAC
1 TATTCTCAAGTCCGCAACATATGCAGGAGCTCAGAAC
47203041 TTGGGCAAGA
Statistics
Matches: 70, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
45 2 0.03
46 68 0.97
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.28
Consensus pattern (46 bp):
TATTCTCAAGTCCGCAACATATGCAGGAGCTCAGAACCTAATCTTG
Found at i:47206770 original size:39 final size:39
Alignment explanation
Indices: 47206717--47206802 Score: 154
Period size: 39 Copynumber: 2.2 Consensus size: 39
47206707 AAAACTAAGA
* *
47206717 AAAACATTTCCCACTACCAATTTTTCTCTTAACTATATC
1 AAAATATTTACCACTACCAATTTTTCTCTTAACTATATC
47206756 AAAATATTTACCACTACCAATTTTTCTCTTAACTATATC
1 AAAATATTTACCACTACCAATTTTTCTCTTAACTATATC
47206795 AAAATATT
1 AAAATATT
47206803 CTCCTATAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.37, C:0.23, G:0.00, T:0.40
Consensus pattern (39 bp):
AAAATATTTACCACTACCAATTTTTCTCTTAACTATATC
Found at i:47218141 original size:22 final size:23
Alignment explanation
Indices: 47218109--47218155 Score: 78
Period size: 22 Copynumber: 2.1 Consensus size: 23
47218099 AATATGAATG
*
47218109 AAATTGAAATGATGGTTTTAATA
1 AAATTGAAATGATGGTTTCAATA
47218132 AAATT-AAATGATGGTTTCAATA
1 AAATTGAAATGATGGTTTCAATA
47218154 AA
1 AA
47218156 GATGGTATTG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.47, C:0.02, G:0.15, T:0.36
Consensus pattern (23 bp):
AAATTGAAATGATGGTTTCAATA
Found at i:47220411 original size:11 final size:12
Alignment explanation
Indices: 47220383--47220420 Score: 51
Period size: 11 Copynumber: 3.1 Consensus size: 12
47220373 TTACACAAGT
47220383 TTTTAATAGTAGAA
1 TTTTAATAG-A-AA
47220397 TTTTAAT-GAAA
1 TTTTAATAGAAA
47220408 TTTTAATAGAAA
1 TTTTAATAGAAA
47220420 T
1 T
47220421 AATTGACTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 9 0.39
12 6 0.26
13 1 0.04
14 7 0.30
ACGTcount: A:0.45, C:0.00, G:0.11, T:0.45
Consensus pattern (12 bp):
TTTTAATAGAAA
Found at i:47227871 original size:27 final size:27
Alignment explanation
Indices: 47227841--47228018 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
47227831 ATATTGAGTC
* *
47227841 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
47227868 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
47227895 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
47227923 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* * **
47227950 CGCACACTTAGCGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
47227977 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
47228004 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
47228019 GTACAATTTA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:47235968 original size:27 final size:27
Alignment explanation
Indices: 47235938--47236115 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
47235928 ATATTGAGTC
* *
47235938 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
47235965 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
47235992 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
47236020 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* * **
47236047 CGCACACTTAGCGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
47236074 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
47236101 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
47236116 GTACAATTTA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:47238324 original size:51 final size:51
Alignment explanation
Indices: 47238248--47238349 Score: 177
Period size: 51 Copynumber: 2.0 Consensus size: 51
47238238 CAAGATTTTA
*
47238248 CGCAAAACCTAGGGCAGATTTCTTTTCCTCGTCTCTACGTCTATGATCTTT
1 CGCAAAACCTAGGGCAGATTTCTTTTCCTCGTCACTACGTCTATGATCTTT
* *
47238299 CGCAAAACCTAGGGCAGATTTCTTTTCCTTGTCACTGCGTCTATGATCTTT
1 CGCAAAACCTAGGGCAGATTTCTTTTCCTCGTCACTACGTCTATGATCTTT
47238350 TCTTTTTAGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.20, C:0.26, G:0.17, T:0.37
Consensus pattern (51 bp):
CGCAAAACCTAGGGCAGATTTCTTTTCCTCGTCACTACGTCTATGATCTTT
Found at i:47239897 original size:43 final size:43
Alignment explanation
Indices: 47239806--47239964 Score: 153
Period size: 43 Copynumber: 3.7 Consensus size: 43
47239796 CAATGCTATA
* * ** * *
47239806 TCCCAGATATGGTCTTACATGTTATCACATATCGGTGCCAATAG
1 TCCCAGACATGGTCTTACACGAAATCACATAACGATGCCAAT-G
** * *
47239850 -CCCAGGTATGGTATTACACGAAATTA-ATTAACGATGCCAATG
1 TCCCAGACATGGTCTTACACGAAATCACA-TAACGATGCCAATG
* * *
47239892 TCCCAGACATGGTCTTACATGTAATCACATAATGATGCCAATG
1 TCCCAGACATGGTCTTACACGAAATCACATAACGATGCCAATG
47239935 TCCCAGACATGGTCTTACAC-ATAATCACAT
1 TCCCAGACATGGTCTTACACGA-AATCACAT
47239965 CTCGTTAATC
Statistics
Matches: 94, Mismatches: 17, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
42 2 0.02
43 91 0.97
44 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.28
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACACGAAATCACATAACGATGCCAATG
Found at i:47247492 original size:43 final size:43
Alignment explanation
Indices: 47247441--47247546 Score: 124
Period size: 43 Copynumber: 2.5 Consensus size: 43
47247431 GCCCAGCTAT
47247441 GGTCTTACACAAAATTA-ATTAATGATGCAAATGTCCCAAAAAA
1 GGTCTTACACAAAATTACA-TAATGATGCAAATGTCCCAAAAAA
* ** * * *
47247484 GGTTTTACACGTAATTACATAATGATGCCAATGTCCCAGAAAT
1 GGTCTTACACAAAATTACATAATGATGCAAATGTCCCAAAAAA
* *
47247527 GGTCTTACACATAATCACAT
1 GGTCTTACACAAAATTACAT
47247547 CTCGTTAATC
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
43 52 0.98
44 1 0.02
ACGTcount: A:0.40, C:0.19, G:0.13, T:0.28
Consensus pattern (43 bp):
GGTCTTACACAAAATTACATAATGATGCAAATGTCCCAAAAAA
Found at i:47248278 original size:17 final size:17
Alignment explanation
Indices: 47248253--47248286 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
47248243 AGAATACAAA
* *
47248253 GTAACAATATTAAAAAC
1 GTAAAAATATCAAAAAC
47248270 GTAAAAATATCAAAAAC
1 GTAAAAATATCAAAAAC
47248287 TGAGCTAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.62, C:0.12, G:0.06, T:0.21
Consensus pattern (17 bp):
GTAAAAATATCAAAAAC
Found at i:47252945 original size:79 final size:79
Alignment explanation
Indices: 47252810--47252959 Score: 200
Period size: 79 Copynumber: 1.9 Consensus size: 79
47252800 TTGAATGCTG
47252810 TCCGGGCTAAGTCCCGAAGGCTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATTTG
47252875 TGCGAGATACTAAT
66 TGCGAGATACTAAT
* * **
47252889 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAA-ATCCGGGTTAAG-TCCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGCA
47252950 TTTGTGCGAG
62 TTTGTGCGAG
47252960 TTCCCGAAGG
Statistics
Matches: 63, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
78 10 0.16
79 45 0.71
80 8 0.13
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATTTG
TGCGAGATACTAAT
Found at i:47252960 original size:40 final size:40
Alignment explanation
Indices: 47252810--47252961 Score: 188
Period size: 39 Copynumber: 3.9 Consensus size: 40
47252800 TTGAATGCTG
* *
47252810 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
* * *
47252849 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
47252889 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
47252928 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTT
47252962 CCCGAAGGCA
Statistics
Matches: 98, Mismatches: 9, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
39 53 0.54
40 37 0.38
41 8 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:47252967 original size:22 final size:22
Alignment explanation
Indices: 47252939--47252983 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
47252929 CCGGGTTAAG
47252939 TCCCGAAGGCATTTGTGCGAGT
1 TCCCGAAGGCATTTGTGCGAGT
47252961 TCCCGAAGGCATTTGTGCGAGT
1 TCCCGAAGGCATTTGTGCGAGT
47252983 T
1 T
47252984 ACTAAATCCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.18, C:0.22, G:0.31, T:0.29
Consensus pattern (22 bp):
TCCCGAAGGCATTTGTGCGAGT
Found at i:47253019 original size:33 final size:33
Alignment explanation
Indices: 47252972--47253037 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 33
47252962 CCCGAAGGCA
* * *
47252972 TTTGTGCGAGTTACTA-AATCCGGGTTAAGTCCC
1 TTTGTGCAAATTACTATAA-CCGGGCTAAGTCCC
*
47253005 TTTGTGCAAATTACTATAACCGGGCTATGTCCC
1 TTTGTGCAAATTACTATAACCGGGCTAAGTCCC
47253038 GAAGGCATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 26 0.93
34 2 0.07
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (33 bp):
TTTGTGCAAATTACTATAACCGGGCTAAGTCCC
Found at i:47255568 original size:23 final size:24
Alignment explanation
Indices: 47255542--47255596 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 24
47255532 AGAGACTTAT
47255542 TATTCA-G-CTCATGCTTTCTTACA
1 TATTCACGTCTCATG-TTTCTTACA
*
47255565 TATTCATCGTTTTCATGTTTCTTACA
1 TATTCA-CG-TCTCATGTTTCTTACA
47255591 TATTCA
1 TATTCA
47255597 TCGTTTTCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 6 0.22
25 1 0.04
26 15 0.56
27 5 0.19
ACGTcount: A:0.22, C:0.22, G:0.07, T:0.49
Consensus pattern (24 bp):
TATTCACGTCTCATGTTTCTTACA
Found at i:47255580 original size:27 final size:27
Alignment explanation
Indices: 47255550--47255621 Score: 119
Period size: 26 Copynumber: 2.7 Consensus size: 27
47255540 ATTATTCAGC
47255550 TCATGCTTTCTTACATATTCATCGTTT
1 TCATGCTTTCTTACATATTCATCGTTT
47255577 TCATG-TTTCTTACATATTCATCGTTT
1 TCATGCTTTCTTACATATTCATCGTTT
*
47255603 TCATACTTTCTCTACATAT
1 TCATGCTTTCT-TACATAT
47255622 CGAGGCACAT
Statistics
Matches: 42, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
26 25 0.60
27 10 0.24
28 7 0.17
ACGTcount: A:0.21, C:0.22, G:0.06, T:0.51
Consensus pattern (27 bp):
TCATGCTTTCTTACATATTCATCGTTT
Found at i:47257974 original size:40 final size:40
Alignment explanation
Indices: 47257944--47258153 Score: 296
Period size: 40 Copynumber: 5.3 Consensus size: 40
47257934 GGACTAAGAT
* * * * *
47257944 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
47257984 CCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
47258024 CCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
* * *
47258064 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTACGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
* * * * *
47258104 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
47258143 CCGAAGGCATT
1 CCGAAGGCATT
47258154 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 14, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 33 0.21
40 123 0.79
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
Found at i:47258173 original size:79 final size:80
Alignment explanation
Indices: 47257944--47258188 Score: 244
Period size: 80 Copynumber: 3.1 Consensus size: 80
47257934 GGACTAAGAT
* * * * * ** * *
47257944 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTA-TT
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAG-GAGCT
*
47258008 AAAGCCGGGTTAAGTC
65 AAATCCGGGTTAAGTC
* * * ** ** *
47258024 CCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
47258089 AATCCGGGTTACGTC
66 AATCCGGGTTAAGTC
* * *
47258104 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
* *
47258168 TATCC-GGTTAAATC
66 AATCCGGGTTAAGTC
47258182 CCGAAGG
1 CCGAAGG
47258189 TACGTGATTT
Statistics
Matches: 142, Mismatches: 22, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
78 14 0.10
79 47 0.33
80 81 0.57
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.24
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTAAGTC
Found at i:47269076 original size:29 final size:29
Alignment explanation
Indices: 47269043--47269116 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
47269033 GTTGTGAGAT
* *
47269043 TGGCACTAGGTGTGCGAACTTGAAA-TGCA
1 TGGCACTAAGTGTGCG-ACTTGAAAGTACA
* *
47269072 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGACTTGAAAGTACA
47269101 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
47269117 CGGTTGATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 6 0.15
29 34 0.85
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGACTTGAAAGTACA
Found at i:47272105 original size:51 final size:51
Alignment explanation
Indices: 47272029--47272147 Score: 238
Period size: 51 Copynumber: 2.3 Consensus size: 51
47272019 TATTCGTACA
47272029 TTTCATTTAATATCTCAACATTTGTCCAATAAAATAATTACTATCTCAACT
1 TTTCATTTAATATCTCAACATTTGTCCAATAAAATAATTACTATCTCAACT
47272080 TTTCATTTAATATCTCAACATTTGTCCAATAAAATAATTACTATCTCAACT
1 TTTCATTTAATATCTCAACATTTGTCCAATAAAATAATTACTATCTCAACT
47272131 TTTCATTTAATATCTCA
1 TTTCATTTAATATCTCA
47272148 TTTACTATCT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 68 1.00
ACGTcount: A:0.36, C:0.19, G:0.02, T:0.43
Consensus pattern (51 bp):
TTTCATTTAATATCTCAACATTTGTCCAATAAAATAATTACTATCTCAACT
Found at i:47272150 original size:12 final size:12
Alignment explanation
Indices: 47272133--47272171 Score: 69
Period size: 12 Copynumber: 3.2 Consensus size: 12
47272123 TCTCAACTTT
47272133 TCATTTAATATC
1 TCATTTAATATC
*
47272145 TCATTTACTATC
1 TCATTTAATATC
47272157 TCATTTAATATC
1 TCATTTAATATC
47272169 TCA
1 TCA
47272172 ATTTGAATAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.31, C:0.21, G:0.00, T:0.49
Consensus pattern (12 bp):
TCATTTAATATC
Found at i:47273828 original size:21 final size:21
Alignment explanation
Indices: 47273802--47273855 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
47273792 AAACCTCTAT
47273802 CTGTCAGTTCTTGCAACTGAG
1 CTGTCAGTTCTTGCAACTGAG
47273823 CTGTCAGTTCTTGCAACTGAG
1 CTGTCAGTTCTTGCAACTGAG
* *
47273844 CTTTCAATTCTT
1 CTGTCAGTTCTT
47273856 TTAACTCTGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.19, C:0.24, G:0.19, T:0.39
Consensus pattern (21 bp):
CTGTCAGTTCTTGCAACTGAG
Found at i:47276223 original size:13 final size:13
Alignment explanation
Indices: 47276193--47276230 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
47276183 GCTGAACAGG
*
47276193 GATAAGGACAC-A
1 GATAAGGACACGT
47276205 GATAAGGACACGT
1 GATAAGGACACGT
47276218 GATAAGGACACGT
1 GATAAGGACACGT
47276231 CCGTGTGCCA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 11 0.46
13 13 0.54
ACGTcount: A:0.42, C:0.16, G:0.29, T:0.13
Consensus pattern (13 bp):
GATAAGGACACGT
Found at i:47291506 original size:15 final size:15
Alignment explanation
Indices: 47291464--47291506 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
47291454 TGTGTTGTTG
*
47291464 GATTAAATTGAATGA
1 GATTAATTTGAATGA
* *
47291479 AATTATGTTTGAATGA
1 GATTA-ATTTGAATGA
47291495 GATTAATTTGAA
1 GATTAATTTGAA
47291507 ATTGTATAGA
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
15 10 0.45
16 12 0.55
ACGTcount: A:0.42, C:0.00, G:0.19, T:0.40
Consensus pattern (15 bp):
GATTAATTTGAATGA
Found at i:47294422 original size:27 final size:26
Alignment explanation
Indices: 47294381--47294485 Score: 122
Period size: 27 Copynumber: 3.9 Consensus size: 26
47294371 AGGAAGCATC
47294381 CTGGTGGCTAC-GCCACAATTATCTGAT
1 CTGGTGGCT-CTGCCAC-ATTATCTGAT
* *
47294408 CTGGTGGCTCTGCCATATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
47294435 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* *
47294463 CTGGTGACTCTGTCACATTATCT
1 CTGGTGGCTCTGCCACATTATCT
47294486 ATTCTAGCAG
Statistics
Matches: 68, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
26 3 0.04
27 48 0.71
28 17 0.25
ACGTcount: A:0.17, C:0.25, G:0.22, T:0.36
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:47294485 original size:54 final size:54
Alignment explanation
Indices: 47294381--47294490 Score: 143
Period size: 54 Copynumber: 2.0 Consensus size: 54
47294371 AGGAAGCATC
* * *
47294381 CTGGTGGCTACGCCACAATTATCTGATCTGGTGGCTCTGCCATATATATCTGTT
1 CTGGTGGCTACGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTATT
* *
47294435 CTGGTGGCT-CTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTATT
1 CTGGTGGCTAC-GCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTATT
47294489 CT
1 CT
47294491 AGCAGGCATG
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
53 1 0.02
54 31 0.63
55 17 0.35
ACGTcount: A:0.17, C:0.25, G:0.21, T:0.37
Consensus pattern (54 bp):
CTGGTGGCTACGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTATT
Found at i:47335308 original size:18 final size:18
Alignment explanation
Indices: 47335281--47335319 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
47335271 TTTTTCTATC
*
47335281 TTTATTTCA-TTGTTTCT
1 TTTATTTCATTTCTTTCT
47335298 TTTATTTTCATTTCTTTCT
1 TTTA-TTTCATTTCTTTCT
47335317 TTT
1 TTT
47335320 GTTTAATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 5 0.26
19 10 0.53
ACGTcount: A:0.10, C:0.13, G:0.03, T:0.74
Consensus pattern (18 bp):
TTTATTTCATTTCTTTCT
Found at i:47335412 original size:23 final size:23
Alignment explanation
Indices: 47335378--47335421 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
47335368 AAGTATGTAA
47335378 ATATATTAATTACAAATGTATAC
1 ATATATTAATTACAAATGTATAC
* *
47335401 ATATATTTATTACACATGTAT
1 ATATATTAATTACAAATGTAT
47335422 TTATAATTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.43, C:0.09, G:0.05, T:0.43
Consensus pattern (23 bp):
ATATATTAATTACAAATGTATAC
Found at i:47343848 original size:50 final size:50
Alignment explanation
Indices: 47343685--47343968 Score: 333
Period size: 50 Copynumber: 5.7 Consensus size: 50
47343675 ACATGACAAA
* * * * *
47343685 GCCATGTCCCAGACATGGTCTTACATGTGA--TGTT-TCTTGTACTGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCG--GTGCCAAC
* * ** * * * *
47343734 GCCATATCCCAGATATGGTCTTACATGGGAGTTCTCAT-TCGATGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGGTGCCAAC
** * * *
47343783 GCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCAGTGTCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGGTGCCAAC
*
47343833 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTTGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGGTGCCAAC
* *
47343883 GCCTTCTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGGTGCCAAC
47343933 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTT
47343969 TACCCAAATA
Statistics
Matches: 201, Mismatches: 30, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
49 65 0.32
50 131 0.65
51 4 0.02
52 1 0.00
ACGTcount: A:0.20, C:0.30, G:0.21, T:0.29
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGGTGCCAAC
Found at i:47349303 original size:50 final size:52
Alignment explanation
Indices: 47349242--47349348 Score: 173
Period size: 50 Copynumber: 2.1 Consensus size: 52
47349232 ATAAAGTCAA
* *
47349242 GCATTATGTAACTCTCATGTTAGTT-AAGTTTGCATCA-TAAATTATGACAT
1 GCATTATGTAACTCCCATGTTAGTTAAAGTTTGCATCATTAAATTAAGACAT
*
47349292 GCATTATGTAACTCCCATGTTAGTTAAAGTTTGCATCATTAAATTAAGTCAT
1 GCATTATGTAACTCCCATGTTAGTTAAAGTTTGCATCATTAAATTAAGACAT
47349344 GCATT
1 GCATT
47349349 CAGTTACTCA
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
50 24 0.46
51 12 0.23
52 16 0.31
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.39
Consensus pattern (52 bp):
GCATTATGTAACTCCCATGTTAGTTAAAGTTTGCATCATTAAATTAAGACAT
Found at i:47351973 original size:20 final size:20
Alignment explanation
Indices: 47351948--47352027 Score: 97
Period size: 20 Copynumber: 4.0 Consensus size: 20
47351938 TTGTACAGGA
*
47351948 TTTGCACTTTGGTGCCTCTG
1 TTTGCACTTCGGTGCCTCTG
* * *
47351968 TTTGCACTTTGGTGCTTTTG
1 TTTGCACTTCGGTGCCTCTG
**
47351988 TTTGCACTTCAATGCCTCTG
1 TTTGCACTTCGGTGCCTCTG
*
47352008 TCTGCACTTCGGTGCCTCTG
1 TTTGCACTTCGGTGCCTCTG
47352028 CTATGCATCT
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 50 1.00
ACGTcount: A:0.07, C:0.26, G:0.23, T:0.44
Consensus pattern (20 bp):
TTTGCACTTCGGTGCCTCTG
Found at i:47353602 original size:24 final size:24
Alignment explanation
Indices: 47353538--47353594 Score: 105
Period size: 24 Copynumber: 2.4 Consensus size: 24
47353528 CACTCAGTTA
*
47353538 AATGAGAAGGTCACTTCCTCAGAG
1 AATGAGAAGGTCACTTCCTCAAAG
47353562 AATGAGAAGGTCACTTCCTCAAAG
1 AATGAGAAGGTCACTTCCTCAAAG
47353586 AATGAGAAG
1 AATGAGAAG
47353595 ATTACTTCAG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.19
Consensus pattern (24 bp):
AATGAGAAGGTCACTTCCTCAAAG
Found at i:47358595 original size:21 final size:21
Alignment explanation
Indices: 47358569--47358620 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
47358559 TCACTTCGTT
47358569 TCTTTTTGTCCAAGTTACTTC
1 TCTTTTTGTCCAAGTTACTTC
*
47358590 TCTTTTTGTCCAAGTTGCTTC
1 TCTTTTTGTCCAAGTTACTTC
47358611 TCTTTTTGTC
1 TCTTTTTGTC
47358621 TAACTCACTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.10, C:0.23, G:0.12, T:0.56
Consensus pattern (21 bp):
TCTTTTTGTCCAAGTTACTTC
Found at i:47358631 original size:21 final size:21
Alignment explanation
Indices: 47358549--47358631 Score: 85
Period size: 21 Copynumber: 3.8 Consensus size: 21
47358539 ACAAAAAAGA
*
47358549 TTTGTCTAAGTCACTTCGTTTCTT
1 TTTGTCCAAGTCACTTC---TCTT
*
47358573 TTTGTCCAAGTTACTTCTCTT
1 TTTGTCCAAGTCACTTCTCTT
**
47358594 TTTGTCCAAGTTGCTTCTCTT
1 TTTGTCCAAGTCACTTCTCTT
* *
47358615 TTTGTCTAACTCACTTC
1 TTTGTCCAAGTCACTTC
47358632 GTTTTTTCTT
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
21 37 0.71
24 15 0.29
ACGTcount: A:0.13, C:0.24, G:0.11, T:0.52
Consensus pattern (21 bp):
TTTGTCCAAGTCACTTCTCTT
Found at i:47361695 original size:391 final size:391
Alignment explanation
Indices: 47360600--47362162 Score: 2983
Period size: 391 Copynumber: 4.0 Consensus size: 391
47360590 TTACGAAAAT
47360600 GAGGTTCTGAAACTACATTTTCCGACGTGACTTAAATCTGGTTGTTATATGAAAAATCTCCATCT
1 GAGGTTCTGAAACTACATTTTCCGACGTGACTTAAATCTGGTTGTTATATGAAAAATCTCCATCT
*
47360665 CCTTTAGATATTGCATATCTTTTTCTTGG-AGAAGTAACATGTGAAGTACGAAAAAATTATCCAA
66 CCTTTTGATATTGCATATCTTTTTCTTGGTAGAAGTAACATGTGAAGTACGAAAAAATTATCCAA
*
47360729 AAATAATCTTACCATGTCAATCCATGTATATAGATCTAAAAGTTAGATAAAATAGTCAGTCATTT
131 AAATAATCTTACCATGTCAATCCATGTATATAGATCTAAAAGTTAGATAAAATAGTCAGTCCTTT
47360794 GCCTTGTTGGCTAGTGAAAAAGGGAAGACTCTTAGTTTAATTTGCTCATT-A---GTCACTCCTT
196 GCCTTGTTGGCTAGTGAAAAAGGGAAGACTCTTAGTTTAATTTGCTCATTAATTGGTCACTCCTT
* *
47360855 ATGGTCTCACCATAGAACACACCACATGGAACTCCTTAAAGTGCTTGTGAGGATCTTTGTTCTCT
261 ATGGTCTCACCGTAGAACACACCACATGGAACTCCTTAAAGTGCTTGTGAGGATCTTCGTTCTCT
47360920 AGATCATGAAAAGTAGGAAATAAATGAATTACTCCAAATTTTATTTCAAAAGATACCTCAAGTTC
326 AGATCATGAAAAGTAGGAAATAAATGAATTACTCCAAATTTTATTTCAAAAGATACCTCAAGTTC
47360985 A
391 A
*
47360986 GAGGTTCTGAAACTACATTTTCTGACGTGACTTAAATCTGGTTGTTATATGAAAAATCTCCATCT
1 GAGGTTCTGAAACTACATTTTCCGACGTGACTTAAATCTGGTTGTTATATGAAAAATCTCCATCT
*
47361051 CCTTTTGATATTGCATATCTTTTCCTTGGTAGAAGTAACATGTGAAGTACGAAAAAAATTATCCA
66 CCTTTTGATATTGCATATCTTTTTCTTGGTAGAAGTAACATGTGAAGTACG-AAAAAATTATCCA
47361116 AAAATAATCTTACCATGTCAATCCATGTATATAGATCTAAAAGTTAGATAAAATAGTCAGTCCTT
130 AAAATAATCTTACCATGTCAATCCATGTATATAGATCTAAAAGTTAGATAAAATAGTCAGTCCTT
47361181 TGCCTTGTTGGCTAGTGAAAAAGGGAAGACTCTTAGTTTAATTTGCTCATTAATTGGTCACTCCT
195 TGCCTTGTTGGCTAGTGAAAAAGGGAAGACTCTTAGTTTAATTTGCTCATTAATTGGTCACTCCT
47361246 TATGGTCTCACCGTAGAACACACCACATGGAACTCCTTAAAGTGCTTGTGAGGATCTTCGTTCTC
260 TATGGTCTCACCGTAGAACACACCACATGGAACTCCTTAAAGTGCTTGTGAGGATCTTCGTTCTC
*
47361311 TAGATCATGAAAAGTAGGAAATAAATGAATTACTCCAATTTTTATTTCAAAAGATACCTCAAGTT
325 TAGATCATGAAAAGTAGGAAATAAATGAATTACTCCAAATTTTATTTCAAAAGATACCTCAAGTT
47361376 CA
390 CA
*
47361378 GAGGTTCTGAAACTACATTTTTCGACGTGACTTAAATCTGGTTGTTATATGAAAAATCTCCATCT
1 GAGGTTCTGAAACTACATTTTCCGACGTGACTTAAATCTGGTTGTTATATGAAAAATCTCCATCT
47361443 CCTTTTGATATTGCATATCTTTTTCTTGGTAGAAGTAACATGTGAAGTACGAAAAAATTATCCAA
66 CCTTTTGATATTGCATATCTTTTTCTTGGTAGAAGTAACATGTGAAGTACGAAAAAATTATCCAA
*
47361508 AAATAATCTTACCATGTCAATCCATGTATATAGATCTAAAAGTTAGATAAAATAGTCAATCCTTT
131 AAATAATCTTACCATGTCAATCCATGTATATAGATCTAAAAGTTAGATAAAATAGTCAGTCCTTT
47361573 GCCTTGTTGGCTAGTGAAAAAGGGAAGACTCTTAGTTTAATTTGCTCATTAATTGGTCACTCCTT
196 GCCTTGTTGGCTAGTGAAAAAGGGAAGACTCTTAGTTTAATTTGCTCATTAATTGGTCACTCCTT
47361638 ATGGTCTCACCGTAGAACACACCACATGGAACTCCTTAAAGTGCTTGTGAGGATCTTCGTTCTCT
261 ATGGTCTCACCGTAGAACACACCACATGGAACTCCTTAAAGTGCTTGTGAGGATCTTCGTTCTCT
47361703 AGATCATGAAAAGTAGGAAATAAATGAATTACTCCAAATTTTATTTCAAAAGATACCTCAAGTTC
326 AGATCATGAAAAGTAGGAAATAAATGAATTACTCCAAATTTTATTTCAAAAGATACCTCAAGTTC
47361768 A
391 A
47361769 GAGGTTCTGAAACTACATTTTCCGACGTGACTTAAATCTGGTTGTTATATGAAAAATCTCCATCT
1 GAGGTTCTGAAACTACATTTTCCGACGTGACTTAAATCTGGTTGTTATATGAAAAATCTCCATCT
47361834 CCTTTTGATATTGCATATCTTTTTCTTGGTAGAAGTAACATGTGAAGTACGAAAAAATTATCCAA
66 CCTTTTGATATTGCATATCTTTTTCTTGGTAGAAGTAACATGTGAAGTACGAAAAAATTATCCAA
47361899 AAATAATCTTACCATGTCAATCCATGTATATAGATCTAAAAGTTAGATAAAATAGTCAGTCCTTT
131 AAATAATCTTACCATGTCAATCCATGTATATAGATCTAAAAGTTAGATAAAATAGTCAGTCCTTT
*
47361964 GCCTTGTTGGCTACTGAAAAAGGGAAGACTCTTAGTTTAATTTGCTCATTAATTGGTCACTCCTT
196 GCCTTGTTGGCTAGTGAAAAAGGGAAGACTCTTAGTTTAATTTGCTCATTAATTGGTCACTCCTT
47362029 ATGGTCTCACCGTAGAACACACCACATGGAACTCCTTAAAGTGCTTGTGAGGATCTTCGTTCTCT
261 ATGGTCTCACCGTAGAACACACCACATGGAACTCCTTAAAGTGCTTGTGAGGATCTTCGTTCTCT
*
47362094 AGATCATGAAAAGTAGGAAATAAATGAATTACTCCAAATTTTATTTCAAAAGATACCTCAAGTTT
326 AGATCATGAAAAGTAGGAAATAAATGAATTACTCCAAATTTTATTTCAAAAGATACCTCAAGTTC
47362159 A
391 A
47362160 GAG
1 GAG
47362163 ATTCGATTTA
Statistics
Matches: 1155, Mismatches: 16, Indels: 7
0.98 0.01 0.01
Matches are distributed among these distances:
386 91 0.08
387 21 0.02
388 128 0.11
389 1 0.00
391 663 0.57
392 251 0.22
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (391 bp):
GAGGTTCTGAAACTACATTTTCCGACGTGACTTAAATCTGGTTGTTATATGAAAAATCTCCATCT
CCTTTTGATATTGCATATCTTTTTCTTGGTAGAAGTAACATGTGAAGTACGAAAAAATTATCCAA
AAATAATCTTACCATGTCAATCCATGTATATAGATCTAAAAGTTAGATAAAATAGTCAGTCCTTT
GCCTTGTTGGCTAGTGAAAAAGGGAAGACTCTTAGTTTAATTTGCTCATTAATTGGTCACTCCTT
ATGGTCTCACCGTAGAACACACCACATGGAACTCCTTAAAGTGCTTGTGAGGATCTTCGTTCTCT
AGATCATGAAAAGTAGGAAATAAATGAATTACTCCAAATTTTATTTCAAAAGATACCTCAAGTTC
A
Found at i:47365069 original size:14 final size:15
Alignment explanation
Indices: 47365040--47365073 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
47365030 GTACATTGAA
47365040 TTTCATGCTTCAGTT
1 TTTCATGCTTCAGTT
*
47365055 TTTCAT-CTTCGGTT
1 TTTCATGCTTCAGTT
47365069 TTTCA
1 TTTCA
47365074 AATGCGAGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.12, C:0.21, G:0.12, T:0.56
Consensus pattern (15 bp):
TTTCATGCTTCAGTT
Found at i:47368895 original size:122 final size:123
Alignment explanation
Indices: 47368678--47369021 Score: 539
Period size: 122 Copynumber: 2.8 Consensus size: 123
47368668 TTATTTCGAG
*
47368678 TTGACGTTTCTG-GTCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTAT
1 TTGACGTTTCTGAG-CAAATAGTATAAAATCGCCTCTACCAGGATGCTATTTGAGAAGAAATTAT
* * *
47368742 GAAATTGCGCCCTCGTGGATGCGATTTTGCTACAGTAGGTCATGTAAGAAAT-TTTTTT
65 GAAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAAGTCATGTAAGAAATATTTTTT
* *
47368800 TTGACGTTTCTGAGCAAATAGTATAAAATTGCCTCTACCAGGATGCTATTTGAGAAGAAATTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCCTCTACCAGGATGCTATTTGAGAAGAAATTATG
* * *
47368865 AAATCACGCCCTCATGGACGCGATTTTGCTATAGTAAGTCATGTAAGAAATAATTTTTT
66 AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAAGTCATGTAAGAAAT-ATTTTTT
* ** *
47368924 TTTACGTTTCTGAGCAAATAGTATAAAATCGCCTCTACCAAAATGCTATTTGAGAAGAAATTATA
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCCTCTACCAGGATGCTATTTGAGAAGAAATTATG
47368989 AAATCGCGCCCTCGTGGACGCGATTTTGCTACA
66 AAATCGCGCCCTCGTGGACGCGATTTTGCTACA
47369022 ATAGCAAGTT
Statistics
Matches: 201, Mismatches: 18, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
122 105 0.52
123 1 0.00
124 95 0.47
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (123 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCGCCTCTACCAGGATGCTATTTGAGAAGAAATTATG
AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAAGTCATGTAAGAAATATTTTTT
Found at i:47372149 original size:10 final size:10
Alignment explanation
Indices: 47372134--47372158 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
47372124 CAAATCTAAC
47372134 ATTATGTAAA
1 ATTATGTAAA
47372144 ATTATGTAAA
1 ATTATGTAAA
47372154 ATTAT
1 ATTAT
47372159 TAAGTCTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (10 bp):
ATTATGTAAA
Found at i:47372209 original size:18 final size:18
Alignment explanation
Indices: 47372186--47372269 Score: 69
Period size: 18 Copynumber: 4.6 Consensus size: 18
47372176 TTAATGGTTA
47372186 GTAAAATTATCAAATTAT
1 GTAAAATTATCAAATTAT
* *** *
47372204 GTAAAATTATTAAGCCAA
1 GTAAAATTATCAAATTAT
** * *
47372222 AAAAAATTTAATTAAATTAG
1 GTAAAA-TT-ATCAAATTAT
47372242 GTAAAATTATCAAATTAT
1 GTAAAATTATCAAATTAT
47372260 GTAAAATTAT
1 GTAAAATTAT
47372270 TAAGTCCAAA
Statistics
Matches: 49, Mismatches: 15, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
18 35 0.71
19 4 0.08
20 10 0.20
ACGTcount: A:0.52, C:0.05, G:0.07, T:0.36
Consensus pattern (18 bp):
GTAAAATTATCAAATTAT
Found at i:47372298 original size:56 final size:56
Alignment explanation
Indices: 47372142--47372298 Score: 196
Period size: 56 Copynumber: 2.8 Consensus size: 56
47372132 ACATTATGTA
* *
47372142 AAATTATGTAAAATTATTAAGTCTC-AAACTTTTGTTAATGGTTA-GTAAAATTATC
1 AAATTATGTAAAATTATTAAGTC-CAAAAATTATGTTAATGGTTAGGTAAAATTATC
** **
47372197 AAATTATGTAAAATTATTAAG-CCAAAAAAAAT-TTAATTAAATTAGGTAAAATTATC
1 AAATTATGTAAAATTATTAAGTCCAAAAATTATGTTAA-T-GGTTAGGTAAAATTATC
*
47372253 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGG
1 AAATTATGTAAAATTATTAAGTCCAAAAATTATGTTAATGGTTAGG
47372299 GTTAGGGTTT
Statistics
Matches: 85, Mismatches: 11, Indels: 11
0.79 0.10 0.10
Matches are distributed among these distances:
53 5 0.06
54 6 0.07
55 24 0.28
56 37 0.44
57 9 0.11
58 4 0.05
ACGTcount: A:0.45, C:0.06, G:0.11, T:0.38
Consensus pattern (56 bp):
AAATTATGTAAAATTATTAAGTCCAAAAATTATGTTAATGGTTAGGTAAAATTATC
Found at i:47372342 original size:17 final size:18
Alignment explanation
Indices: 47372299--47372387 Score: 84
Period size: 18 Copynumber: 5.3 Consensus size: 18
47372289 AATGGTTAGG
47372299 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
47372317 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
* **
47372335 TTTA-GG---TT-A--GG
1 GTTAGGGTTTTTAATTAA
47372346 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
*
47372364 GTTAGGATTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
*
47372382 ATTAGG
1 GTTAGG
47372388 TTAGGGTTAG
Statistics
Matches: 56, Mismatches: 8, Indels: 14
0.72 0.10 0.18
Matches are distributed among these distances:
11 3 0.05
12 2 0.04
13 1 0.02
14 2 0.04
15 2 0.04
16 1 0.02
17 2 0.04
18 43 0.77
ACGTcount: A:0.28, C:0.00, G:0.24, T:0.48
Consensus pattern (18 bp):
GTTAGGGTTTTTAATTAA
Found at i:47372350 original size:29 final size:29
Alignment explanation
Indices: 47372317--47372474 Score: 151
Period size: 29 Copynumber: 5.8 Consensus size: 29
47372307 TTTTAATTAA
*
47372317 GTTAGGGTTTTTAATTAATTTAGGTTAGG
1 GTTAGGGTTTTTAATTAAGTTAGGTTAGG
47372346 GTTAGGGTTTTTAATTAAGTTAGGATT---
1 GTTAGGGTTTTTAATTAAGTTAGG-TTAGG
* * * *
47372373 TTTA----ATTAAATTAGGTTAGG-----
1 GTTAGGGTTTTTAATTAAGTTAGGTTAGG
*
47372393 GTTAGGGTTTTTAATTAAATTAGGTTAGG
1 GTTAGGGTTTTTAATTAAGTTAGGTTAGG
*
47372422 GTTAGTGTTTTTAATTAAGTTAGGTTAGG
1 GTTAGGGTTTTTAATTAAGTTAGGTTAGG
*
47372451 GTTAGGATTTTTAATTAAGTTAGG
1 GTTAGGGTTTTTAATTAAGTTAGG
47372475 GTTTTTAATT
Statistics
Matches: 105, Mismatches: 14, Indels: 20
0.76 0.10 0.14
Matches are distributed among these distances:
20 3 0.03
23 13 0.12
24 12 0.11
27 3 0.03
29 72 0.69
30 2 0.02
ACGTcount: A:0.27, C:0.00, G:0.26, T:0.47
Consensus pattern (29 bp):
GTTAGGGTTTTTAATTAAGTTAGGTTAGG
Found at i:47372493 original size:18 final size:18
Alignment explanation
Indices: 47372451--47372582 Score: 82
Period size: 18 Copynumber: 7.7 Consensus size: 18
47372441 TTAGGTTAGG
*
47372451 GTTAGGATTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
*
47372469 GTTAGGGTTTTTAATTAG
1 GTTAGGGTTTTTAATTAA
**** *
47372487 GTTAGGG-TTAGGGTTAGG
1 GTTAGGGTTTTTAATTA-A
*
47372505 GTTAGGATTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
* **
47372523 ATTA-GG---TT-A--GG
1 GTTAGGGTTTTTAATTAA
47372534 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
*
47372552 GTTAGGGTTTTTAAATAA
1 GTTAGGGTTTTTAATTAA
*
47372570 ATTAGGGTTTTTA
1 GTTAGGGTTTTTA
47372583 TTACATCAAA
Statistics
Matches: 84, Mismatches: 21, Indels: 18
0.68 0.17 0.15
Matches are distributed among these distances:
11 3 0.04
12 2 0.02
13 1 0.01
14 2 0.02
15 2 0.02
16 1 0.01
17 6 0.07
18 62 0.74
19 5 0.06
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.46
Consensus pattern (18 bp):
GTTAGGGTTTTTAATTAA
Found at i:47372497 original size:6 final size:6
Alignment explanation
Indices: 47372486--47372510 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
47372476 TTTTTAATTA
47372486 GGTTAG GGTTAG GGTTAG GGTTAG G
1 GGTTAG GGTTAG GGTTAG GGTTAG G
47372511 ATTTTTAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.52, T:0.32
Consensus pattern (6 bp):
GGTTAG
Found at i:47372537 original size:29 final size:29
Alignment explanation
Indices: 47372498--47372557 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
47372488 TTAGGGTTAG
47372498 GGTTAGGGTTAGGATTTTTAATTAAATTA
1 GGTTAGGGTTAGGATTTTTAATTAAATTA
* *
47372527 GGTTAGGGTTAGGGTTTTTAATTAAGTTA
1 GGTTAGGGTTAGGATTTTTAATTAAATTA
47372556 GG
1 GG
47372558 GTTTTTAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.27, C:0.00, G:0.30, T:0.43
Consensus pattern (29 bp):
GGTTAGGGTTAGGATTTTTAATTAAATTA
Found at i:47372575 original size:47 final size:47
Alignment explanation
Indices: 47372292--47372507 Score: 279
Period size: 47 Copynumber: 4.3 Consensus size: 47
47372282 TTGTGTTAAT
*
47372292 GGTTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTTTTAATTAATTTA
1 GGTTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTTTTAATTAAGTTA
* *
47372339 GGTTAGGGTTAGGGTTTTTAATTAAGTTAGGATTTTTAATTAAATTA
1 GGTTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTTTTAATTAAGTTA
47372386 GGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGTGTTTTTAATTAAGTTA
1 GGTTAGGGTTAGGGTTTTTAATT--A--A-GTTA--G---G-GTTTTTAATTAAGTTA
* *
47372444 GGTTAGGGTTAGGATTTTTAATTAAGTTAGGGTTTTTAATTAGGTTA
1 GGTTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTTTTAATTAAGTTA
47372491 GGGTTAGGGTTAGGGTT
1 -GGTTAGGGTTAGGGTT
47372508 AGGATTTTTA
Statistics
Matches: 150, Mismatches: 7, Indels: 23
0.83 0.04 0.13
Matches are distributed among these distances:
47 83 0.55
48 16 0.11
49 1 0.01
51 2 0.01
52 4 0.03
53 4 0.03
54 2 0.01
56 1 0.01
57 1 0.01
58 36 0.24
ACGTcount: A:0.25, C:0.00, G:0.28, T:0.46
Consensus pattern (47 bp):
GGTTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTTTTAATTAAGTTA
Found at i:47372575 original size:83 final size:83
Alignment explanation
Indices: 47372415--47372578 Score: 267
Period size: 83 Copynumber: 2.0 Consensus size: 83
47372405 AATTAAATTA
*
47372415 GGTTAGGGTTAGTGTTTTTAATTAAGTTAGGTTAGGGTTAGGATTTTTAATTAAGTTAGGGTTTT
1 GGTTAGGGTTAGTGTTTTTAATTAAATTAGGTTAGGGTTAGGATTTTTAATTAAGTTAGGGTTTT
* **
47372480 TAATTAGGTTAGGGTTAG
66 TAAATAAATTAGGGTTAG
*
47372498 GGTTAGGGTTAG-GATTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTT
1 GGTTAGGGTTAGTG-TTTTTAATTAAATTAGGTTAGGGTTAGGATTTTTAATTAAGTTAGGGTTT
47372562 TTAAATAAATTAGGGTT
65 TTAAATAAATTAGGGTT
47372579 TTTATTACAT
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
82 1 0.01
83 74 0.99
ACGTcount: A:0.26, C:0.00, G:0.29, T:0.45
Consensus pattern (83 bp):
GGTTAGGGTTAGTGTTTTTAATTAAATTAGGTTAGGGTTAGGATTTTTAATTAAGTTAGGGTTTT
TAAATAAATTAGGGTTAG
Found at i:47372636 original size:25 final size:26
Alignment explanation
Indices: 47372578--47372641 Score: 85
Period size: 25 Copynumber: 2.5 Consensus size: 26
47372568 AAATTAGGGT
*
47372578 TTTTATTACATCAAATAGAATTTATA
1 TTTTATTACATCAAATAGAACTTATA
* * *
47372604 TTTTATTATATTAAATA-AACTTCTA
1 TTTTATTACATCAAATAGAACTTATA
47372629 TTTTATTACATCA
1 TTTTATTACATCA
47372642 GATAATAAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
25 17 0.53
26 15 0.47
ACGTcount: A:0.39, C:0.09, G:0.02, T:0.50
Consensus pattern (26 bp):
TTTTATTACATCAAATAGAACTTATA
Found at i:47373745 original size:7 final size:7
Alignment explanation
Indices: 47373735--47373759 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
47373725 TTATATACAT
47373735 AATACTA
1 AATACTA
47373742 AATACTA
1 AATACTA
47373749 AATACTA
1 AATACTA
47373756 AATA
1 AATA
47373760 TCAATCGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:47374876 original size:31 final size:31
Alignment explanation
Indices: 47374841--47374904 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
47374831 GCTATTGATG
47374841 AAAATATAAAAAAATTTAAAATTATTTTAAA
1 AAAATATAAAAAAATTTAAAATTATTTTAAA
47374872 AAAATATAAAAAAATTTAAAATTATTTTAAA
1 AAAATATAAAAAAATTTAAAATTATTTTAAA
47374903 AA
1 AA
47374905 TGAAATTGAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (31 bp):
AAAATATAAAAAAATTTAAAATTATTTTAAA
Found at i:47374888 original size:21 final size:20
Alignment explanation
Indices: 47374841--47374892 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
47374831 GCTATTGATG
* *
47374841 AAAATATAAAAAAATTTAAA
1 AAAATTTAAAAAAATATAAA
* *
47374861 ATTATTTTAAAAAAATATAAA
1 A-AAATTTAAAAAAATATAAA
47374882 AAAATTTAAAA
1 AAAATTTAAAA
47374893 TTATTTTAAA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
20 9 0.36
21 16 0.64
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (20 bp):
AAAATTTAAAAAAATATAAA
Found at i:47374898 original size:10 final size:10
Alignment explanation
Indices: 47374841--47374892 Score: 59
Period size: 10 Copynumber: 5.1 Consensus size: 10
47374831 GCTATTGATG
*
47374841 AAAATATAAA
1 AAAATTTAAA
47374851 AAAATTTAAA
1 AAAATTTAAA
* *
47374861 ATTATTTTAAA
1 A-AAATTTAAA
*
47374872 AAAATATAAA
1 AAAATTTAAA
47374882 AAAATTTAAA
1 AAAATTTAAA
47374892 A
1 A
47374893 TTATTTTAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
10 26 0.76
11 8 0.24
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (10 bp):
AAAATTTAAA
Found at i:47375612 original size:6 final size:6
Alignment explanation
Indices: 47375599--47375631 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
47375589 TTTTATTTTA
47375599 TAAT-T TAATAT TAATAT TAATAT TAATAT TAAT
1 TAATAT TAATAT TAATAT TAATAT TAATAT TAAT
47375632 TAAAAATAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.15
6 23 0.85
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TAATAT
Found at i:47376445 original size:9 final size:10
Alignment explanation
Indices: 47376418--47376442 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
47376408 ACGGTGTTAA
47376418 AATTTTGGAT
1 AATTTTGGAT
47376428 AATTTTGGAT
1 AATTTTGGAT
47376438 AATTT
1 AATTT
47376443 GGACAATGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (10 bp):
AATTTTGGAT
Found at i:47376506 original size:18 final size:18
Alignment explanation
Indices: 47376483--47376517 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
47376473 ACCAGACAAA
47376483 AAAATAA-GTATCAAATTG
1 AAAATAAGGTAT-AAATTG
47376501 AAAATAAGGTATAAATT
1 AAAATAAGGTATAAATT
47376518 AGGGTGCAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.57, C:0.03, G:0.11, T:0.29
Consensus pattern (18 bp):
AAAATAAGGTATAAATTG
Found at i:47378661 original size:13 final size:13
Alignment explanation
Indices: 47378643--47378668 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
47378633 ATTCTAGACA
47378643 AAATTTAAATTTT
1 AAATTTAAATTTT
47378656 AAATTTAAATTTT
1 AAATTTAAATTTT
47378669 TTATAGAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
AAATTTAAATTTT
Found at i:47378955 original size:17 final size:20
Alignment explanation
Indices: 47378919--47378956 Score: 55
Period size: 17 Copynumber: 2.0 Consensus size: 20
47378909 AATAATTAAA
47378919 TAATTATTTATTTTATTATT
1 TAATTATTTATTTTATTATT
47378939 TAATT-TTT-TTTTA-TATT
1 TAATTATTTATTTTATTATT
47378956 T
1 T
47378957 TTATAATGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 5 0.28
18 5 0.28
19 3 0.17
20 5 0.28
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (20 bp):
TAATTATTTATTTTATTATT
Found at i:47380932 original size:24 final size:24
Alignment explanation
Indices: 47380869--47380955 Score: 129
Period size: 24 Copynumber: 3.6 Consensus size: 24
47380859 ACGAGCTGCA
* *
47380869 AATCGGTAAGCTCATATGAGTTGAG
1 AATCGGTAAGCTCTTATGAGTTG-C
*
47380894 AATTGGTAAGCTCTTATGAGTTGC
1 AATCGGTAAGCTCTTATGAGTTGC
*
47380918 AATCGTTAAGCTCTTATGAGTTGC
1 AATCGGTAAGCTCTTATGAGTTGC
47380942 AATCGGTAAGCTCT
1 AATCGGTAAGCTCT
47380956 CACAAGCTGT
Statistics
Matches: 56, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
24 35 0.62
25 21 0.38
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (24 bp):
AATCGGTAAGCTCTTATGAGTTGC
Found at i:47380970 original size:48 final size:49
Alignment explanation
Indices: 47380855--47380970 Score: 126
Period size: 48 Copynumber: 2.4 Consensus size: 49
47380845 ATCAGTATGT
* *
47380855 TCTCACGAGCTGCAAATCGGTAAGCTCATATGAGTTGAGAATTGGTAAGC
1 TCTCACGAGCTG-AAATCGGTAAGCTCATATGAGTTGACAATCGGTAAGC
* * * * * *
47380905 TCTTATGAGTTGCAATCGTTAAGCTCTTATGAGTTG-CAATCGGTAAGC
1 TCTCACGAGCTGAAATCGGTAAGCTCATATGAGTTGACAATCGGTAAGC
* *
47380953 TCTCACAAGCTGTAATCG
1 TCTCACGAGCTGAAATCG
47380971 ATAATCCCTA
Statistics
Matches: 53, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
48 23 0.43
49 21 0.40
50 9 0.17
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (49 bp):
TCTCACGAGCTGAAATCGGTAAGCTCATATGAGTTGACAATCGGTAAGC
Found at i:47384791 original size:48 final size:48
Alignment explanation
Indices: 47384729--47384925 Score: 277
Period size: 48 Copynumber: 4.1 Consensus size: 48
47384719 AACAGATTTC
* * * *
47384729 TCGGTAGCCTGCACATAGTCCGTGCCACCCTTGTATCTTAACAGATTA
1 TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCATAACAGAATA
** * *
47384777 TTAGTGTCCTGCACACAGTCCGTGCCACCCTTGTATCATAACAAAATA
1 TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCATAACAGAATA
*
47384825 TCGGTGGCTTGCACACAGTCCGTGCCACCCTTGTATCATAACAGAATA
1 TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCATAACAGAATA
* * * *
47384873 TCGGTGGCCTGCACACAATCCGTGCCACTCTTGTGTCATAACAGAACA
1 TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCATAACAGAATA
47384921 TCGGT
1 TCGGT
47384926 ACGCATAATA
Statistics
Matches: 131, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 131 1.00
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.26
Consensus pattern (48 bp):
TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCATAACAGAATA
Found at i:47392182 original size:25 final size:25
Alignment explanation
Indices: 47392084--47392185 Score: 107
Period size: 25 Copynumber: 4.1 Consensus size: 25
47392074 ATTGGTAATT
* *
47392084 TCATATGAGCTGAGAATCGAGATAGC
1 TCATACGAGCTGAGAATCGATA-AGC
* * *
47392110 TCAAACGAGCTGAGAATCGAAAAAC
1 TCATACGAGCTGAGAATCGATAAGC
* * * *
47392135 TCTTACGAGCTG-CAATCGGTAAGT
1 TCATACGAGCTGAGAATCGATAAGC
47392159 TCATACGAGCTGAGAATCGATAAGC
1 TCATACGAGCTGAGAATCGATAAGC
47392184 TC
1 TC
47392186 TCATGAGTTG
Statistics
Matches: 60, Mismatches: 15, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
24 18 0.30
25 23 0.38
26 19 0.32
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.22
Consensus pattern (25 bp):
TCATACGAGCTGAGAATCGATAAGC
Found at i:47393980 original size:14 final size:14
Alignment explanation
Indices: 47393961--47393990 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
47393951 TAATCCTAAG
47393961 TGGATGATGGGCTA
1 TGGATGATGGGCTA
47393975 TGGATGATGGGCTA
1 TGGATGATGGGCTA
47393989 TG
1 TG
47393991 TATGTGTGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.07, G:0.43, T:0.30
Consensus pattern (14 bp):
TGGATGATGGGCTA
Found at i:47397877 original size:13 final size:13
Alignment explanation
Indices: 47397843--47397879 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
47397833 TGCAAACATT
47397843 AAAGAAAGAAAAG
1 AAAGAAAGAAAAG
47397856 AAA-ATAAGAAAAG
1 AAAGA-AAGAAAAG
47397869 AAAGAAAGAAA
1 AAAGAAAGAAA
47397880 TAGTAAAAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 1 0.05
13 20 0.91
14 1 0.05
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (13 bp):
AAAGAAAGAAAAG
Found at i:47399074 original size:54 final size:54
Alignment explanation
Indices: 47399016--47399172 Score: 181
Period size: 54 Copynumber: 2.9 Consensus size: 54
47399006 TACATGGGTA
* * *
47399016 GAGACATGGGCTGAGACACGATCATGTGTCTCAATTTAGTGAGTTACACAGGCG
1 GAGACATGGGCTGGGACACGATCATGTGTCTCAACTTAGTGAGTTACACAGGAG
* * * **
47399070 GAGACATGGGCTGGGACA-TAGTCGTGTGTCTCAAGTTAGTGAGTTACATGGGAG
1 GAGACATGGGCTGGGACACGA-TCATGTGTCTCAACTTAGTGAGTTACACAGGAG
* * * * *
47399124 GAGACATGGGCTGGGATACGACCATGTGTCCCAACTTAGAGAGTCACAC
1 GAGACATGGGCTGGGACACGATCATGTGTCTCAACTTAGTGAGTTACAC
47399173 GGTCTGGGGC
Statistics
Matches: 85, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
53 1 0.01
54 83 0.98
55 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.32, T:0.23
Consensus pattern (54 bp):
GAGACATGGGCTGGGACACGATCATGTGTCTCAACTTAGTGAGTTACACAGGAG
Found at i:47403782 original size:15 final size:16
Alignment explanation
Indices: 47403761--47403802 Score: 68
Period size: 15 Copynumber: 2.7 Consensus size: 16
47403751 TATAGATAAA
47403761 AATTTTAATTTTAGTT
1 AATTTTAATTTTAGTT
*
47403777 -ATTTTAATTTTATTT
1 AATTTTAATTTTAGTT
47403792 AATTTTAATTT
1 AATTTTAATTT
47403803 CTCTAATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 14 0.58
16 10 0.42
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (16 bp):
AATTTTAATTTTAGTT
Found at i:47403809 original size:25 final size:25
Alignment explanation
Indices: 47403764--47403813 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
47403754 AGATAAAAAT
* *
47403764 TTTAATTTTAGTTATTTTAATTTTA
1 TTTAATTTTAATTATTCTAATTTTA
47403789 TTTAATTTTAATT-TCTCTAATTTTA
1 TTTAATTTTAATTAT-TCTAATTTTA
47403814 GTGCATAACT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 1 0.05
25 21 0.95
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.66
Consensus pattern (25 bp):
TTTAATTTTAATTATTCTAATTTTA
Found at i:47403811 original size:15 final size:16
Alignment explanation
Indices: 47403761--47403813 Score: 58
Period size: 15 Copynumber: 3.4 Consensus size: 16
47403751 TATAGATAAA
47403761 AATTTTAATTTTAGT-T
1 AATTTTAATTTTA-TCT
*
47403777 -ATTTTAATTTTATTT
1 AATTTTAATTTTATCT
*
47403792 AATTTTAA-TTTCTCT
1 AATTTTAATTTTATCT
47403807 AATTTTA
1 AATTTTA
47403814 GTGCATAACT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
14 1 0.03
15 25 0.76
16 7 0.21
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (16 bp):
AATTTTAATTTTATCT
Found at i:47409498 original size:24 final size:24
Alignment explanation
Indices: 47409470--47409520 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
47409460 TAACTTGAAA
47409470 GAAGTATAATTTTGTAAGGAAAAT
1 GAAGTATAATTTTGTAAGGAAAAT
47409494 GAAGTATAATTTTGTAAGGAAAAT
1 GAAGTATAATTTTGTAAGGAAAAT
47409518 GAA
1 GAA
47409521 CACGATGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.47, C:0.00, G:0.22, T:0.31
Consensus pattern (24 bp):
GAAGTATAATTTTGTAAGGAAAAT
Found at i:47411235 original size:22 final size:22
Alignment explanation
Indices: 47411205--47411249 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
47411195 TTATGGTGTG
*
47411205 TAAGGTTTCATTCTGGGTACTA
1 TAAGATTTCATTCTGGGTACTA
*
47411227 TAAGATTTCGTTCTGGGTACTA
1 TAAGATTTCATTCTGGGTACTA
47411249 T
1 T
47411250 TAGTGTTTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.22, C:0.13, G:0.22, T:0.42
Consensus pattern (22 bp):
TAAGATTTCATTCTGGGTACTA
Found at i:47423925 original size:19 final size:18
Alignment explanation
Indices: 47423881--47423927 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 18
47423871 CATGCATAAA
*
47423881 TTTATAAAAATTATAATT
1 TTTATAATAATTATAATT
47423899 TTTAATAATAATT-TAATAT
1 TTT-ATAATAATTATAAT-T
47423918 TATTATAATA
1 T-TTATAATA
47423928 CTTTCTATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 7 0.28
19 16 0.64
20 2 0.08
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTATAATAATTATAATT
Found at i:47428994 original size:50 final size:50
Alignment explanation
Indices: 47428881--47429066 Score: 183
Period size: 50 Copynumber: 3.6 Consensus size: 50
47428871 AGATCCCATG
* * **
47428881 TAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTACAAGAGGTCCCATG
1 TAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAGA-T--GAGAGGTCCCACA
* *
47428937 TAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCCA
1 TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCACA
* * ** * **
47428987 TAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTCCTATG
1 TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCACA
* *
47429037 TAAGACCATATCTGGGATATGGCATTGGCA
1 TAAGACCATGTCTGGGACATGGCATTGGCA
47429067 GTACAGAAAG
Statistics
Matches: 112, Mismatches: 18, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
50 77 0.69
52 1 0.01
53 4 0.04
55 1 0.01
56 29 0.26
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (50 bp):
TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCACA
Found at i:47429332 original size:12 final size:12
Alignment explanation
Indices: 47429315--47429353 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
47429305 ATGAGTTATT
47429315 TAAGTAAGCAAG
1 TAAGTAAGCAAG
*
47429327 TAAGTAAACAAG
1 TAAGTAAGCAAG
* *
47429339 TAAGTGAGTAAG
1 TAAGTAAGCAAG
47429351 TAA
1 TAA
47429354 AGAAGCGAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.51, C:0.05, G:0.23, T:0.21
Consensus pattern (12 bp):
TAAGTAAGCAAG
Found at i:47440582 original size:18 final size:17
Alignment explanation
Indices: 47440549--47440587 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
47440539 TTTTATAAAT
47440549 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
47440567 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
47440584 TGTG
1 TGTG
47440588 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:47440720 original size:8 final size:8
Alignment explanation
Indices: 47440707--47440734 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
47440697 ACTAGAGACT
47440707 AGTGTTAC
1 AGTGTTAC
47440715 AGTGTTAC
1 AGTGTTAC
47440723 AGTGTTAC
1 AGTGTTAC
47440731 AGTG
1 AGTG
47440735 AGTCCCGAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.25, C:0.11, G:0.29, T:0.36
Consensus pattern (8 bp):
AGTGTTAC
Found at i:47440852 original size:23 final size:23
Alignment explanation
Indices: 47440821--47440896 Score: 125
Period size: 23 Copynumber: 3.3 Consensus size: 23
47440811 AGTGTTATTG
47440821 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* * *
47440844 TTCAGTGGTAGCTACGACTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
47440867 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
47440890 ATCAGTG
1 ATCAGTG
47440897 TGGCACTTAT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:47446142 original size:16 final size:17
Alignment explanation
Indices: 47446115--47446149 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
47446105 AGAGAGTCGA
47446115 GAGAGAGGATGAGAGAT
1 GAGAGAGGATGAGAGAT
*
47446132 GAGAG-GGATGAGGGAT
1 GAGAGAGGATGAGAGAT
47446148 GA
1 GA
47446150 TTGGAAAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.37, C:0.00, G:0.51, T:0.11
Consensus pattern (17 bp):
GAGAGAGGATGAGAGAT
Found at i:47447484 original size:29 final size:28
Alignment explanation
Indices: 47447451--47447517 Score: 75
Period size: 29 Copynumber: 2.4 Consensus size: 28
47447441 ATATATAGTA
47447451 CTTACTAAATAAAACACCAGCACAAAGC
1 CTTACTAAATAAAACACCAGCACAAAGC
* * *
47447479 GCTTACTACCA-AAAACACCGGCACGAAGC
1 -CTTACTA-AATAAAACACCAGCACAAAGC
47447508 C-TACTAAATA
1 CTTACTAAATA
47447518 TACACCGACG
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 6 0.19
28 1 0.03
29 23 0.72
30 1 0.03
ACGTcount: A:0.45, C:0.30, G:0.10, T:0.15
Consensus pattern (28 bp):
CTTACTAAATAAAACACCAGCACAAAGC
Found at i:47449655 original size:24 final size:24
Alignment explanation
Indices: 47449624--47449670 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
47449614 AAAAGATATC
*
47449624 ATCTTCAT-CTCGACCCTCGTCTTT
1 ATCTTCATCCTC-ACCCCCGTCTTT
47449648 ATCTTCATCCTCACCCCCGTCTT
1 ATCTTCATCCTCACCCCCGTCTT
47449671 CGTCTATGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 18 0.86
25 3 0.14
ACGTcount: A:0.13, C:0.43, G:0.06, T:0.38
Consensus pattern (24 bp):
ATCTTCATCCTCACCCCCGTCTTT
Found at i:47467530 original size:42 final size:43
Alignment explanation
Indices: 47467479--47467683 Score: 249
Period size: 43 Copynumber: 4.8 Consensus size: 43
47467469 TTTTATAAAT
47467479 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTATTCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTATTCCCAC
**
47467522 -AACGCCGCTAAAGACCAAGACCTTTAGCGGCTATATTCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTATTCCCAC
* *
47467564 AAACGCCGCTAAAGAGCAAGACCTTTAGCAGCGCT-TGTCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTAT-TCCCAC
* * * * *
47467607 AAACGCCACTAAAGACCATGACCTTTAGCGACAG-TTTTCACAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGC-GCTATTCCCAC
* *
47467650 AAGCGCCGCTATAGA--ATAGACCTTTAGCGGCGCT
1 AAACGCCGCTAAAGACCA-AGACCTTTAGCGGCGCT
47467684 TTTCTGAAAA
Statistics
Matches: 139, Mismatches: 17, Indels: 13
0.82 0.10 0.08
Matches are distributed among these distances:
41 2 0.01
42 54 0.39
43 81 0.58
44 2 0.01
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.19
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTATTCCCAC
Done.