Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D05
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: 63323194
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1953226 characters in sequence are not A, C, G, or T
File 145 of 199
Found at i:48182252 original size:27 final size:27
Alignment explanation
Indices: 48182172--48182254 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
48182162 TAAATTGTAC
* *
48182172 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
48182200 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
48182227 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
48182254 A
1 A
48182255 CTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:48185205 original size:17 final size:18
Alignment explanation
Indices: 48185185--48185222 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
48185175 AAAAAAAGGG
48185185 AAAAAAAGAAAGAA-AAT
1 AAAAAAAGAAAGAAGAAT
* *
48185202 AAAAGAATAAAGAAGAAT
1 AAAAAAAGAAAGAAGAAT
48185220 AAA
1 AAA
48185223 TATATGGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.79, C:0.00, G:0.13, T:0.08
Consensus pattern (18 bp):
AAAAAAAGAAAGAAGAAT
Found at i:48191271 original size:12 final size:10
Alignment explanation
Indices: 48191234--48191265 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
48191224 ATTACGCTTA
*
48191234 TTTAGTGTGT
1 TTTAATGTGT
48191244 TTTAATGTGT
1 TTTAATGTGT
48191254 TTTAATGTGT
1 TTTAATGTGT
48191264 TT
1 TT
48191266 GTTAATAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.16, C:0.00, G:0.22, T:0.62
Consensus pattern (10 bp):
TTTAATGTGT
Found at i:48197806 original size:10 final size:10
Alignment explanation
Indices: 48197793--48197817 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
48197783 TTATTTAGTA
48197793 TGTTTTAATG
1 TGTTTTAATG
48197803 TGTTTTAATG
1 TGTTTTAATG
48197813 TGTTT
1 TGTTT
48197818 GTTAATAAAT
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:0.16, C:0.00, G:0.20, T:0.64
Consensus pattern (10 bp):
TGTTTTAATG
Found at i:48214037 original size:37 final size:37
Alignment explanation
Indices: 48213987--48214065 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
48213977 TTATTACGAA
* * *
48213987 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
48214024 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
48214061 GTCTT
1 GTCTT
48214066 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:48214262 original size:47 final size:47
Alignment explanation
Indices: 48214184--48214692 Score: 858
Period size: 47 Copynumber: 10.7 Consensus size: 47
48214174 CCCTTCGGGA
* * * * * *
48214184 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
48214231 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
48214278 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
48214325 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
48214372 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
48214419 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTGGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
48214468 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
48214517 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
48214564 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
48214611 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
48214658 CTTATCACATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
48214693 AGAATCCTAA
Statistics
Matches: 443, Mismatches: 16, Indels: 6
0.95 0.03 0.01
Matches are distributed among these distances:
46 1 0.00
47 348 0.79
49 94 0.21
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:48214615 original size:239 final size:237
Alignment explanation
Indices: 48214184--48214692 Score: 875
Period size: 239 Copynumber: 2.2 Consensus size: 237
48214174 CCCTTCGGGA
* * *
48214184 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATCCATCACATCGGCCACTCGGCCCTATCACATATATAC
48214247 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
48214312 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTAT
131 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTAT
48214377 CACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
196 CACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
48214419 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTGGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATCCATCACATCGGCCACTCGGCCCTATCAC--ATATAT
48214484 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
64 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
*
48214549 CATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
129 CATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGCCTT
48214614 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
194 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
48214658 CTTATCAC--ATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATATACACT-TTCACATCCATCACAT
48214693 AGAATCCTAA
Statistics
Matches: 259, Mismatches: 10, Indels: 8
0.94 0.04 0.03
Matches are distributed among these distances:
235 10 0.04
236 2 0.01
237 60 0.23
239 187 0.72
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (237 bp):
CTTATCACATATATATACACTTTCACATCCATCACATCGGCCACTCGGCCCTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTAT
CACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:48218786 original size:6 final size:6
Alignment explanation
Indices: 48218775--48218809 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
48218765 TGCCGAGCAA
48218775 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
48218810 ATGACATGGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:48220216 original size:16 final size:17
Alignment explanation
Indices: 48220190--48220223 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
48220180 AACATTTTTT
*
48220190 TTAATTTTTAAAATTAA
1 TTAATTTTTAAAAATAA
48220207 TTAA-TTTTAAAAATAA
1 TTAATTTTTAAAAATAA
48220223 T
1 T
48220224 CATGAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTAATTTTTAAAAATAA
Found at i:48224089 original size:13 final size:13
Alignment explanation
Indices: 48224071--48224097 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
48224061 GGCACATGGG
48224071 CGTGTGGCCACCC
1 CGTGTGGCCACCC
48224084 CGTGTGGCCACCC
1 CGTGTGGCCACCC
48224097 C
1 C
48224098 ATATGGGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.07, C:0.48, G:0.30, T:0.15
Consensus pattern (13 bp):
CGTGTGGCCACCC
Found at i:48237191 original size:9 final size:9
Alignment explanation
Indices: 48237178--48237219 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
48237168 TTTATTCAAG
48237178 TTATTATAA
1 TTATTATAA
*
48237187 ATATTAT-A
1 TTATTATAA
48237195 TCTA-TATAA
1 T-TATTATAA
48237204 TTATTATAA
1 TTATTATAA
48237213 TTATTAT
1 TTATTAT
48237220 TTATTCAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
8 6 0.21
9 22 0.79
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (9 bp):
TTATTATAA
Found at i:48237706 original size:10 final size:10
Alignment explanation
Indices: 48237691--48237736 Score: 62
Period size: 10 Copynumber: 4.8 Consensus size: 10
48237681 AACATAAAGT
48237691 AAATGAAATA
1 AAATGAAATA
48237701 AAATGAAATA
1 AAATGAAATA
48237711 AAA-GAAA-A
1 AAATGAAATA
48237719 CAAATGAAATA
1 -AAATGAAATA
48237730 AAA-GAAA
1 AAATGAAA
48237737 GAAAGAAACA
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
8 1 0.03
9 11 0.33
10 20 0.61
11 1 0.03
ACGTcount: A:0.74, C:0.02, G:0.11, T:0.13
Consensus pattern (10 bp):
AAATGAAATA
Found at i:48237810 original size:13 final size:14
Alignment explanation
Indices: 48237784--48237818 Score: 63
Period size: 13 Copynumber: 2.6 Consensus size: 14
48237774 AACAAGGGAG
48237784 AAAGAAAGAAAGAA
1 AAAGAAAGAAAGAA
48237798 AAAGAAA-AAAGAA
1 AAAGAAAGAAAGAA
48237811 AAAGAAAG
1 AAAGAAAG
48237819 GAAAAACTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 13 0.65
14 7 0.35
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (14 bp):
AAAGAAAGAAAGAA
Found at i:48238212 original size:24 final size:27
Alignment explanation
Indices: 48238181--48238239 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
48238171 TGGAGTAATT
48238181 ATTG-ATTG-AAAGGTG-GAAA-AATG
1 ATTGAATTGAAAAGGTGAGAAACAATG
* *
48238204 ATTGAATTGAAAATGTGAGAAACTATG
1 ATTGAATTGAAAAGGTGAGAAACAATG
48238231 ATTGAATTG
1 ATTGAATTG
48238240 GAGTTATATG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 4 0.13
24 4 0.13
25 6 0.20
26 4 0.13
27 12 0.40
ACGTcount: A:0.42, C:0.02, G:0.25, T:0.31
Consensus pattern (27 bp):
ATTGAATTGAAAAGGTGAGAAACAATG
Found at i:48246605 original size:34 final size:34
Alignment explanation
Indices: 48246562--48246627 Score: 123
Period size: 34 Copynumber: 1.9 Consensus size: 34
48246552 GGGAGAATGC
*
48246562 ATGTGAATAAGATTGAATGATATGCTTCTGATGT
1 ATGTGAATAAGACTGAATGATATGCTTCTGATGT
48246596 ATGTGAATAAGACTGAATGATATGCTTCTGAT
1 ATGTGAATAAGACTGAATGATATGCTTCTGAT
48246628 TCTAAATTCT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.33, C:0.08, G:0.23, T:0.36
Consensus pattern (34 bp):
ATGTGAATAAGACTGAATGATATGCTTCTGATGT
Found at i:48250430 original size:11 final size:12
Alignment explanation
Indices: 48250402--48250434 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
48250392 ATTTTAAATT
48250402 AAAATTGAATAGA
1 AAAATT-AATAGA
48250415 AAAATTAATA-A
1 AAAATTAATAGA
48250426 AAAATTAAT
1 AAAATTAAT
48250435 TTAGTGCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 10 0.50
12 4 0.20
13 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.27
Consensus pattern (12 bp):
AAAATTAATAGA
Found at i:48267078 original size:41 final size:42
Alignment explanation
Indices: 48267028--48267136 Score: 122
Period size: 41 Copynumber: 2.7 Consensus size: 42
48267018 GATCAAATGA
48267028 GAGAAAAAGAAAAGAATGAAAATACAAAAGAAAAT-AAAA-AT
1 GAGAAAAAGAAAAGAATGAAAA-ACAAAAGAAAATGAAAAGAT
* *
48267069 GAGAAAAAGAAAGGAA--AAACAACAAAAGAAAGTGAAAAGAT
1 GAGAAAAAGAAAAGAATGAAA-AACAAAAGAAAATGAAAAGAT
*
48267110 GAG-AAAAGAAAA-AGATGAAAAAGAAAA
1 GAGAAAAAGAAAAGA-ATGAAAAACAAAA
48267137 ACAATGCGAG
Statistics
Matches: 58, Mismatches: 4, Indels: 12
0.78 0.05 0.16
Matches are distributed among these distances:
39 15 0.26
40 14 0.24
41 26 0.45
42 3 0.05
ACGTcount: A:0.72, C:0.03, G:0.19, T:0.06
Consensus pattern (42 bp):
GAGAAAAAGAAAAGAATGAAAAACAAAAGAAAATGAAAAGAT
Found at i:48267086 original size:20 final size:20
Alignment explanation
Indices: 48267053--48267120 Score: 61
Period size: 20 Copynumber: 3.4 Consensus size: 20
48267043 ATGAAAATAC
**
48267053 AAAAGAAAATAAAAATGAGA
1 AAAAGAAAGGAAAAATGAGA
*
48267073 AAAAGAAAGGAAAAA-CA-A
1 AAAAGAAAGGAAAAATGAGA
48267091 CAAAAGAAAGTGAAAAGATGAG-
1 -AAAAGAAAG-GAAAA-ATGAGA
48267113 AAAAGAAA
1 AAAAGAAA
48267121 AAGATGAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
18 1 0.03
19 10 0.26
20 18 0.46
21 9 0.23
22 1 0.03
ACGTcount: A:0.72, C:0.03, G:0.19, T:0.06
Consensus pattern (20 bp):
AAAAGAAAGGAAAAATGAGA
Found at i:48267131 original size:15 final size:16
Alignment explanation
Indices: 48267103--48267137 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
48267093 AAAGAAAGTG
48267103 AAAAGATGAGAAAAGA
1 AAAAGATGAGAAAAGA
48267119 AAAAGATGA-AAAAGA
1 AAAAGATGAGAAAAGA
48267134 AAAA
1 AAAA
48267138 CAATGCGAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.74, C:0.00, G:0.20, T:0.06
Consensus pattern (16 bp):
AAAAGATGAGAAAAGA
Found at i:48267136 original size:14 final size:15
Alignment explanation
Indices: 48267102--48267136 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
48267092 AAAAGAAAGT
48267102 GAAAAGATGAGAAAA
1 GAAAAGATGAGAAAA
48267117 GAAAAAGATGA-AAAA
1 G-AAAAGATGAGAAAA
48267132 GAAAA
1 GAAAA
48267137 ACAATGCGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 4 0.21
15 6 0.32
16 9 0.47
ACGTcount: A:0.71, C:0.00, G:0.23, T:0.06
Consensus pattern (15 bp):
GAAAAGATGAGAAAA
Found at i:48270382 original size:28 final size:28
Alignment explanation
Indices: 48270317--48270389 Score: 76
Period size: 28 Copynumber: 2.6 Consensus size: 28
48270307 CATGCATGCA
* *
48270317 TTTAATATGTCTTAG-TTAGTACATGAC
1 TTTAATATGTTTTAGCTTAGTACATCAC
* * * *
48270344 ATTAATTTGTTTTAGCTTATTACATCAT
1 TTTAATATGTTTTAGCTTAGTACATCAC
48270372 TTTAATATGTTTTTAGCT
1 TTTAATATG-TTTTAGCT
48270390 CCAGCCGAAT
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
27 12 0.33
28 16 0.44
29 8 0.22
ACGTcount: A:0.27, C:0.10, G:0.11, T:0.52
Consensus pattern (28 bp):
TTTAATATGTTTTAGCTTAGTACATCAC
Found at i:48273284 original size:15 final size:16
Alignment explanation
Indices: 48273264--48273293 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
48273254 TTAGAATTTA
48273264 TATTAAAAT-TAAATT
1 TATTAAAATATAAATT
48273279 TATTAAAATATAAAT
1 TATTAAAATATAAAT
48273294 ATGACTCATC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
TATTAAAATATAAATT
Found at i:48273572 original size:16 final size:17
Alignment explanation
Indices: 48273541--48273578 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
48273531 CCTACAATTT
*
48273541 TATATTTATTCTTAATA
1 TATATTTATACTTAATA
48273558 TATATTTA-ACTTAATA
1 TATATTTATACTTAATA
48273574 T-TATT
1 TATATT
48273579 ATTTACATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 4 0.20
16 8 0.40
17 8 0.40
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (17 bp):
TATATTTATACTTAATA
Found at i:48273900 original size:24 final size:23
Alignment explanation
Indices: 48273850--48273920 Score: 71
Period size: 23 Copynumber: 3.2 Consensus size: 23
48273840 AATATATTTT
48273850 ATAATTTTAAATAAATTAAATAA
1 ATAATTTTAAATAAATTAAATAA
48273873 ATAATTTTATAAT-AATT-AATAAA
1 ATAATTTTA-AATAAATTAAAT-AA
*
48273896 CATAA-TTAAAATAAA-T-AATAA
1 -ATAATTTTAAATAAATTAAATAA
48273917 ATAA
1 ATAA
48273921 GAGTTAATAT
Statistics
Matches: 43, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
20 4 0.09
21 2 0.05
22 10 0.23
23 20 0.47
24 7 0.16
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (23 bp):
ATAATTTTAAATAAATTAAATAA
Found at i:48279788 original size:31 final size:31
Alignment explanation
Indices: 48279730--48279788 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
48279720 TAAAATAAAC
*
48279730 TATTTAACCAATGTAAAAATCCAATTAAGCA
1 TATTTAACCAATGTAAAAATACAATTAAGCA
*
48279761 TATTTAACCAATG-ATAAATACATATTAA
1 TATTTAACCAATGTAAAAATACA-ATTAA
48279789 TTGAATACTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 7 0.28
31 18 0.72
ACGTcount: A:0.49, C:0.14, G:0.05, T:0.32
Consensus pattern (31 bp):
TATTTAACCAATGTAAAAATACAATTAAGCA
Found at i:48279997 original size:29 final size:29
Alignment explanation
Indices: 48279964--48280019 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
48279954 CTGAATGTAA
48279964 CATTAGTCTAAACAAGCTATGGTTCATAG
1 CATTAGTCTAAACAAGCTATGGTTCATAG
48279993 CATTAGTCTAAACAAGCTATGGTTCAT
1 CATTAGTCTAAACAAGCTATGGTTCAT
48280020 TAAGGTAGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (29 bp):
CATTAGTCTAAACAAGCTATGGTTCATAG
Found at i:48283677 original size:18 final size:18
Alignment explanation
Indices: 48283654--48283690 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
48283644 TCACAAGCCA
* *
48283654 AACCAAATGGCCTTATTC
1 AACCAAATGACCCTATTC
48283672 AACCAAATGACCCTATTC
1 AACCAAATGACCCTATTC
48283690 A
1 A
48283691 CAATCAAACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.38, C:0.30, G:0.08, T:0.24
Consensus pattern (18 bp):
AACCAAATGACCCTATTC
Found at i:48283987 original size:41 final size:41
Alignment explanation
Indices: 48283921--48284155 Score: 176
Period size: 41 Copynumber: 5.8 Consensus size: 41
48283911 TTGTGTTTTA
* * *
48283921 GGGGCTTTAGTGGTGTTTTTCAAAAAGCGTCGCTAAGGCAT-
1 GGGGCTTTAGCGGCGTTTTTGAAAAAGCGTCGCTAAGGC-TC
* * * *
48283962 GGGGATTTAGCGGCGTTTTTGAAAAAGCATCGCTGATGCTC
1 GGGGCTTTAGCGGCGTTTTTGAAAAAGCGTCGCTAAGGCTC
* *
48284003 GGGGCTTTAGCGGCGTTTTTGAAGAAGCGTCGCTAATGCTC
1 GGGGCTTTAGCGGCGTTTTTGAAAAAGCGTCGCTAAGGCTC
**** * * *
48284044 -TATTTTTAGCGACGTCTTTT-AAAAAGCGCCGCTAATGCTC
1 GGGGCTTTAGCGGCGT-TTTTGAAAAAGCGTCGCTAAGGCTC
* * * * * *
48284084 AGGGTCTTTAGAGGCATTTTTGGAAAAGCGCCGCTAATGCTC
1 -GGGGCTTTAGCGGCGTTTTTGAAAAAGCGTCGCTAAGGCTC
***
48284126 --TATTTTAGCGGCGTTTTT-AAAAAGCGTCGC
1 GGGGCTTTAGCGGCGTTTTTGAAAAAGCGTCGC
48284156 AAAAATATTT
Statistics
Matches: 157, Mismatches: 32, Indels: 13
0.78 0.16 0.06
Matches are distributed among these distances:
38 10 0.06
39 13 0.08
40 29 0.18
41 77 0.49
42 28 0.18
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.31
Consensus pattern (41 bp):
GGGGCTTTAGCGGCGTTTTTGAAAAAGCGTCGCTAAGGCTC
Found at i:48284093 original size:82 final size:79
Alignment explanation
Indices: 48283967--48284151 Score: 246
Period size: 82 Copynumber: 2.3 Consensus size: 79
48283957 GGCATGGGGA
** * * *
48283967 TTTAGCGGCGTTTTTGAAAAAGCATCGCTGATGCTCGGGGCTTTAGCGGCGTTTTT-GAAGAAGC
1 TTTAGCGGCGTTTTT-AAAAAGCGCCGCTAATGCTCGGGGCTTTAGAGGCATTTTTGGAA-AAGC
*
48284031 GTCGCTAATGCTCTATT
64 GCCGCTAATGCTCTA-T
* *
48284048 TTTAGCGACGTCTTTTAAAAAGCGCCGCTAATGCTCAGGGTCTTTAGAGGCATTTTTGGAAAAGC
1 TTTAGCGGCGT-TTTTAAAAAGCGCCGCTAATGCTC-GGGGCTTTAGAGGCATTTTTGGAAAAGC
48284113 GCCGCTAATGCTCTAT
64 GCCGCTAATGCTCTAT
48284129 TTTAGCGGCGTTTTTAAAAAGCG
1 TTTAGCGGCGTTTTTAAAAAGCG
48284152 TCGCAAAAAT
Statistics
Matches: 92, Mismatches: 9, Indels: 7
0.85 0.08 0.06
Matches are distributed among these distances:
80 12 0.13
81 38 0.41
82 39 0.42
83 3 0.03
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (79 bp):
TTTAGCGGCGTTTTTAAAAAGCGCCGCTAATGCTCGGGGCTTTAGAGGCATTTTTGGAAAAGCGC
CGCTAATGCTCTAT
Found at i:48284566 original size:7 final size:7
Alignment explanation
Indices: 48284520--48284573 Score: 54
Period size: 7 Copynumber: 7.6 Consensus size: 7
48284510 GAGTTACTAT
*
48284520 TTTAAGG
1 TTTATGG
48284527 TTTATGG
1 TTTATGG
*
48284534 ATTATGAG
1 TTTATG-G
*
48284542 TTTAGGG
1 TTTATGG
* *
48284549 GTTATGA
1 TTTATGG
48284556 TTTATGG
1 TTTATGG
48284563 TTTATGG
1 TTTATGG
48284570 TTTA
1 TTTA
48284574 AAGGCTGGGG
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
7 32 0.86
8 5 0.14
ACGTcount: A:0.22, C:0.00, G:0.28, T:0.50
Consensus pattern (7 bp):
TTTATGG
Found at i:48284614 original size:29 final size:27
Alignment explanation
Indices: 48284581--48284644 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 27
48284571 TTAAAGGCTG
48284581 GGGTTTAAGGTTTACAGG-TTATGTGTTAA
1 GGGTTTAAGGTTT--AGGTTTATG-GTTAA
* *
48284610 GGGTTTTAGGGTTTAGGTTTATGGTTTA
1 GGG-TTTAAGGTTTAGGTTTATGGTTAA
48284638 GGGTTTA
1 GGGTTTA
48284645 GATTAACTAG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
27 4 0.13
28 10 0.32
29 8 0.26
30 9 0.29
ACGTcount: A:0.19, C:0.02, G:0.34, T:0.45
Consensus pattern (27 bp):
GGGTTTAAGGTTTAGGTTTATGGTTAA
Found at i:48285834 original size:23 final size:24
Alignment explanation
Indices: 48285806--48285880 Score: 75
Period size: 22 Copynumber: 3.1 Consensus size: 24
48285796 CCCATGTCAG
48285806 ATTTCCCTAACTTCATTTCCCC-A
1 ATTTCCCTAACTTCATTTCCCCAA
*
48285829 ATTT-CCTAACTTCGTTTCCCCTAA
1 ATTTCCCTAACTTCATTTCCCC-AA
* *
48285853 ATTTCCTTAAGTT-ATTCTTCCCCAA
1 ATTTCCCTAACTTCA-T-TTCCCCAA
48285878 ATT
1 ATT
48285881 ATTTTCCCCA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
22 16 0.37
23 4 0.09
24 5 0.12
25 12 0.28
26 6 0.14
ACGTcount: A:0.23, C:0.32, G:0.03, T:0.43
Consensus pattern (24 bp):
ATTTCCCTAACTTCATTTCCCCAA
Found at i:48288611 original size:86 final size:86
Alignment explanation
Indices: 48288461--48288647 Score: 275
Period size: 86 Copynumber: 2.2 Consensus size: 86
48288451 TCTACTTTAC
* * * * ** *
48288461 AAAAGTTGAAAATTTGGTGTGGTTGTTGATGAATGCATGAACTTGAACTGTTGATTTTTTCTAAT
1 AAAAATTGAAAATTTAGTCTGGTTGTTGATAAATGCATGAACTTGAACCATTGATTTTTGCTAAT
48288526 TTGTTGCACATAAGTTGTTAT
66 TTGTTGCACATAAGTTGTTAT
* *
48288547 AAAAATTGAAAATTTAGTCTGGTTGTTGGTAAATGCATGAACTTGAACCATTTATTTTTGCTAAT
1 AAAAATTGAAAATTTAGTCTGGTTGTTGATAAATGCATGAACTTGAACCATTGATTTTTGCTAAT
*
48288612 TTGTTGCATATAAGTTGTTAT
66 TTGTTGCACATAAGTTGTTAT
*
48288633 AAATATTGAAAATTT
1 AAAAATTGAAAATTT
48288648 TCTTTTTTAG
Statistics
Matches: 90, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
86 90 1.00
ACGTcount: A:0.32, C:0.07, G:0.19, T:0.43
Consensus pattern (86 bp):
AAAAATTGAAAATTTAGTCTGGTTGTTGATAAATGCATGAACTTGAACCATTGATTTTTGCTAAT
TTGTTGCACATAAGTTGTTAT
Found at i:48290391 original size:42 final size:43
Alignment explanation
Indices: 48290260--48290484 Score: 249
Period size: 43 Copynumber: 5.3 Consensus size: 43
48290250 ACCGTACTTT
*** * * *
48290260 TAGCGGCGTTTGTAATAAAAGTGCCGCT-AAAGATCATGTTCTT
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAG-TCATGATCTA
* *
48290303 TAGCGGCGTTTGTGGGTAAAGCGCCGCT-AAAGCTCATGTTCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAG-TCATGATCTA
* * * *
48290346 TAGCGGCGTTTG-AGGAAAAGCGCAGCTAAAAGTAATGATCCA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGATCTA
*
48290388 TAGCGGCATTTGTGGGAAAAGCGCCGCTAAAAGTCATGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGATCTA
* * * * *
48290431 TAGCGGCGTTTGTGGGATAAGTGCCGCTAAAGGTCATGACCTT
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGATCTA
48290474 TAGCGGCGTTT
1 TAGCGGCGTTT
48290485 ATTTATAAAA
Statistics
Matches: 156, Mismatches: 24, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
42 30 0.19
43 126 0.81
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.27
Consensus pattern (43 bp):
TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGATCTA
Found at i:48291231 original size:25 final size:25
Alignment explanation
Indices: 48291193--48291245 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
48291183 TCATGTATAT
* *
48291193 GTATGCTCAAACGAACTGTGAATCG
1 GTATGCTCAAACGAACTATAAATCG
**
48291218 GTATGCTCTCACGAACTATAAATCG
1 GTATGCTCAAACGAACTATAAATCG
48291243 GTA
1 GTA
48291246 ACCCTAATGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (25 bp):
GTATGCTCAAACGAACTATAAATCG
Found at i:48292526 original size:26 final size:26
Alignment explanation
Indices: 48292472--48292614 Score: 108
Period size: 26 Copynumber: 5.3 Consensus size: 26
48292462 CACAAAGACA
* *
48292472 TTCTTTCCATATTCCGCCACATACA-CT
1 TTCTTT-CATATTACGCCACACA-AGCT
* * * *
48292499 TTCTTTTATGTTACGCCATACAGGCT
1 TTCTTTCATATTACGCCACACAAGCT
* *
48292525 TTCCTTCATATTATGGTACGCCATACAAGCT
1 TTCTTTC--A-TAT--TACGCCACACAAGCT
* * *
48292556 TTCCTTCATATTATGCCACACATGCT
1 TTCTTTCATATTACGCCACACAAGCT
*
48292582 TTCTTTCATATTATGCCACACAAGCT
1 TTCTTTCATATTACGCCACACAAGCT
48292608 TTCTTTC
1 TTCTTTC
48292615 CTGACATGTT
Statistics
Matches: 95, Mismatches: 15, Indels: 13
0.77 0.12 0.11
Matches are distributed among these distances:
26 61 0.64
27 6 0.06
28 4 0.04
29 3 0.03
31 21 0.22
ACGTcount: A:0.22, C:0.29, G:0.09, T:0.40
Consensus pattern (26 bp):
TTCTTTCATATTACGCCACACAAGCT
Found at i:48292545 original size:31 final size:31
Alignment explanation
Indices: 48292504--48292570 Score: 116
Period size: 31 Copynumber: 2.2 Consensus size: 31
48292494 ACACTTTCTT
* *
48292504 TTATGTTACGCCATACAGGCTTTCCTTCATA
1 TTATGGTACGCCATACAAGCTTTCCTTCATA
48292535 TTATGGTACGCCATACAAGCTTTCCTTCATA
1 TTATGGTACGCCATACAAGCTTTCCTTCATA
48292566 TTATG
1 TTATG
48292571 CCACACATGC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.24, C:0.24, G:0.13, T:0.39
Consensus pattern (31 bp):
TTATGGTACGCCATACAAGCTTTCCTTCATA
Found at i:48293085 original size:25 final size:25
Alignment explanation
Indices: 48293051--48293101 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
48293041 CATGCAAGAG
48293051 TCAGCTTAAAGACTCACCTGACATC
1 TCAGCTTAAAGACTCACCTGACATC
48293076 TCAGCTTAAAGACTCACCTGACATC
1 TCAGCTTAAAGACTCACCTGACATC
48293101 T
1 T
48293102 ACAAATAGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.31, C:0.31, G:0.12, T:0.25
Consensus pattern (25 bp):
TCAGCTTAAAGACTCACCTGACATC
Found at i:48309520 original size:12 final size:11
Alignment explanation
Indices: 48309503--48309537 Score: 52
Period size: 12 Copynumber: 3.0 Consensus size: 11
48309493 ACTTATACAT
48309503 ACTAAATCATCA
1 ACTAAA-CATCA
48309515 ACTAAACATTCA
1 ACTAAACA-TCA
48309527 ACTAAACATCA
1 ACTAAACATCA
48309538 CCATATGTCC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 5 0.23
12 17 0.77
ACGTcount: A:0.51, C:0.26, G:0.00, T:0.23
Consensus pattern (11 bp):
ACTAAACATCA
Found at i:48318883 original size:105 final size:105
Alignment explanation
Indices: 48318764--48318977 Score: 410
Period size: 105 Copynumber: 2.0 Consensus size: 105
48318754 TCCCTTCATC
48318764 TTATTTGATTGATATTTGATAAGATGTGACATTTTTGTAGTTATTCGCATGTTTAGGAAAATATA
1 TTATTTGATTGATATTTGATAAGATGTGACATTTTTGTAGTTATTCGCATGTTTAGGAAAATATA
* *
48318829 TGGGATTGAATGTGATATTATTGACATTAAAAAATAATTA
66 TGGGATTGAATGTGATATTATTGACATTAAAAAACAATAA
48318869 TTATTTGATTGATATTTGATAAGATGTGACATTTTTGTAGTTATTCGCATGTTTAGGAAAATATA
1 TTATTTGATTGATATTTGATAAGATGTGACATTTTTGTAGTTATTCGCATGTTTAGGAAAATATA
48318934 TGGGATTGAATGTGATATTATTGACATTAAAAAACAATAA
66 TGGGATTGAATGTGATATTATTGACATTAAAAAACAATAA
48318974 TTAT
1 TTAT
48318978 AACTATTTTA
Statistics
Matches: 107, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
105 107 1.00
ACGTcount: A:0.36, C:0.04, G:0.18, T:0.43
Consensus pattern (105 bp):
TTATTTGATTGATATTTGATAAGATGTGACATTTTTGTAGTTATTCGCATGTTTAGGAAAATATA
TGGGATTGAATGTGATATTATTGACATTAAAAAACAATAA
Found at i:48319416 original size:50 final size:47
Alignment explanation
Indices: 48319358--48319492 Score: 121
Period size: 50 Copynumber: 2.7 Consensus size: 47
48319348 TTTAAAAATT
*
48319358 AAAATAAAAA-T-TTTTAAAAAAAAGTATTTTAAAAATATTTTAAAATTAAA
1 AAAATAAAAAGTATTTT--AAAAAA--ATTTTAAAAA-AATTTAAAATTAAA
48319408 AAAATAAAAAAAAGTATTTTAAAAAAATTTTAAAAAAATTTAAAATTAAA
1 AAAAT---AAAAAGTATTTTAAAAAAATTTTAAAAAAATTTAAAATTAAA
* **
48319458 AAAATTAAAAAAAGTATTTTTAAAGTATTTTAAAA
1 AAAA-T--AAAAAGTATTTTAAAAAAATTTTAAAA
48319493 TTAAAAAATA
Statistics
Matches: 75, Mismatches: 4, Indels: 12
0.82 0.04 0.13
Matches are distributed among these distances:
50 48 0.64
51 11 0.15
53 11 0.15
54 1 0.01
55 4 0.05
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (47 bp):
AAAATAAAAAGTATTTTAAAAAAATTTTAAAAAAATTTAAAATTAAA
Found at i:48319427 original size:40 final size:40
Alignment explanation
Indices: 48319372--48319509 Score: 143
Period size: 50 Copynumber: 3.2 Consensus size: 40
48319362 TAAAAATTTT
48319372 TAAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAA
1 TAAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAA
*
48319412 TAAAAAAAAGTATTTTAAAAAAATTTTAAAAAAATTTAAAATTAAAAAAA
1 TAAAAAAAAGTATTTT--AAAAA---T-----ATTTTAAAATTAAAAAAA
* * *
48319462 TTAAAAAAAGTATTTTTAAAGTATTTTAAAATT-AAAAAA
1 TAAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAA
48319501 TAAAAAAAA
1 TAAAAAAAA
48319510 TTTATTATTC
Statistics
Matches: 82, Mismatches: 6, Indels: 21
0.75 0.06 0.19
Matches are distributed among these distances:
39 14 0.17
40 26 0.32
42 5 0.06
45 2 0.02
48 3 0.04
50 32 0.39
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (40 bp):
TAAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAA
Found at i:48319431 original size:11 final size:11
Alignment explanation
Indices: 48319423--48319452 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
48319413 AAAAAAAAGT
48319423 ATTTTAAAAAA
1 ATTTTAAAAAA
48319434 ATTTTAAAAAA
1 ATTTTAAAAAA
48319445 A-TTTAAAA
1 ATTTTAAAA
48319453 TTAAAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 7 0.37
11 12 0.63
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (11 bp):
ATTTTAAAAAA
Found at i:48319468 original size:16 final size:16
Alignment explanation
Indices: 48319437--48319468 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
48319427 TAAAAAAATT
*
48319437 TTAAAAAAATTTAAAA
1 TTAAAAAAATTAAAAA
48319453 TTAAAAAAATTAAAAA
1 TTAAAAAAATTAAAAA
48319469 AAGTATTTTT
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:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
TTAAAAAAATTAAAAA
Found at i:48320030 original size:23 final size:23
Alignment explanation
Indices: 48320003--48320047 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
48319993 GTAAGTGTTC
48320003 TTTTATTTGATTATTTTATAACG
1 TTTTATTTGATTATTTTATAACG
48320026 TTTTATTTGATTATTTTATAAC
1 TTTTATTTGATTATTTTATAAC
48320048 TCGTTATCAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.27, C:0.04, G:0.07, T:0.62
Consensus pattern (23 bp):
TTTTATTTGATTATTTTATAACG
Found at i:48320660 original size:29 final size:29
Alignment explanation
Indices: 48320600--48320661 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
48320590 GCCCTTTTTT
* * ***
48320600 AAAATTACATGAATAGACTGATTTTTTGA
1 AAAATTACAGGAATAGACCGATTTTACAA
*
48320629 AAAATTACAGGAATAGGCCGATTTTACAA
1 AAAATTACAGGAATAGACCGATTTTACAA
48320658 AAAA
1 AAAA
48320662 CGCATCCGGC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.47, C:0.10, G:0.15, T:0.29
Consensus pattern (29 bp):
AAAATTACAGGAATAGACCGATTTTACAA
Found at i:48322884 original size:50 final size:51
Alignment explanation
Indices: 48322818--48322916 Score: 164
Period size: 50 Copynumber: 2.0 Consensus size: 51
48322808 TTATTACAAT
*
48322818 ATTTGGTAGTAAAAAATTAGTTGAAAGCTCTA-AAGAGTTAATATATCACG
1 ATTTGGTAGTAAAAAATTAGTTGAAAGCTCCATAAGAGTTAATATATCACG
* *
48322868 ATTTGGTAGTATAAAATTAGTTGAAAGCTCCATAAGAGTTAATGTATCA
1 ATTTGGTAGTAAAAAATTAGTTGAAAGCTCCATAAGAGTTAATATATCA
48322917 GTATCTAAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
50 30 0.67
51 15 0.33
ACGTcount: A:0.40, C:0.08, G:0.18, T:0.33
Consensus pattern (51 bp):
ATTTGGTAGTAAAAAATTAGTTGAAAGCTCCATAAGAGTTAATATATCACG
Found at i:48333852 original size:21 final size:19
Alignment explanation
Indices: 48333804--48333876 Score: 119
Period size: 19 Copynumber: 3.7 Consensus size: 19
48333794 AATCTTCAAG
48333804 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
48333823 GACATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
48333842 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
48333863 GATATGCAATCTTA
1 GATATGCAATCTTA
48333877 AAAGATATGA
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
19 32 0.64
21 18 0.36
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:48333904 original size:22 final size:22
Alignment explanation
Indices: 48333804--48333887 Score: 78
Period size: 19 Copynumber: 4.1 Consensus size: 22
48333794 AATCTTCAAG
48333804 GATATGCAATCTT---AGATAT
1 GATATGCAATCTTAAAAGATAT
*
48333823 GACATGCAATCTT---AGATAT
1 GATATGCAATCTTAAAAGATAT
48333842 GATATATGCAATCTT---AGATAT
1 G--ATATGCAATCTTAAAAGATAT
48333863 GATATGCAATCTTAAAAGATAT
1 GATATGCAATCTTAAAAGATAT
48333885 GAT
1 GAT
48333888 TTTGTAATCT
Statistics
Matches: 58, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
19 31 0.53
21 18 0.31
22 9 0.16
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.35
Consensus pattern (22 bp):
GATATGCAATCTTAAAAGATAT
Found at i:48334149 original size:23 final size:23
Alignment explanation
Indices: 48334105--48334149 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
48334095 TCTTATTTTG
** *
48334105 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGAATATAATTGATTTA
*
48334128 TTGATTTGAATATTATTGATTT
1 TTGATTTGAATATAATTGATTT
48334150 CAAATCTCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.27, C:0.00, G:0.13, T:0.60
Consensus pattern (23 bp):
TTGATTTGAATATAATTGATTTA
Found at i:48334628 original size:23 final size:22
Alignment explanation
Indices: 48334601--48334643 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
48334591 ATAATTCACA
*
48334601 TACATATATATTTTTCTTATACG
1 TACATATATATATTT-TTATACG
48334624 TACATATATATATTTTTATA
1 TACATATATATATTTTTATA
48334644 TTTTATAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.35, C:0.09, G:0.02, T:0.53
Consensus pattern (22 bp):
TACATATATATATTTTTATACG
Found at i:48334824 original size:3 final size:3
Alignment explanation
Indices: 48334818--48334862 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
48334808 TTATCTTTTC
*
48334818 ATT ATT ATT ATT ATT ACT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
48334863 GTTCTTGATC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:48335678 original size:35 final size:35
Alignment explanation
Indices: 48335639--48335709 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
48335629 CGATCACACC
48335639 TAAATAAAAGGATCGGTGGCGACTCCCATTTTCAT
1 TAAATAAAAGGATCGGTGGCGACTCCCATTTTCAT
48335674 TAAATAAAAGGATCGGTGGCGACTCCCATTTTCAT
1 TAAATAAAAGGATCGGTGGCGACTCCCATTTTCAT
48335709 T
1 T
48335710 TTTTTCAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.30
Consensus pattern (35 bp):
TAAATAAAAGGATCGGTGGCGACTCCCATTTTCAT
Found at i:48338823 original size:20 final size:20
Alignment explanation
Indices: 48338800--48338837 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
48338790 AAAAACCCAA
48338800 AAAAAATCAAAATCACAATT
1 AAAAAATCAAAATCACAATT
* *
48338820 AAAAAATGAAAATGACAA
1 AAAAAATCAAAATCACAA
48338838 AAAGAAAAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.68, C:0.11, G:0.05, T:0.16
Consensus pattern (20 bp):
AAAAAATCAAAATCACAATT
Found at i:48339897 original size:44 final size:44
Alignment explanation
Indices: 48339848--48340291 Score: 495
Period size: 44 Copynumber: 10.8 Consensus size: 44
48339838 TTTGCGTCCC
48339848 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTA
1 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTA
*
48339892 AGTCCTATCTCCCTGATCAGCAGTGGAATA----G--G--TG--
1 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTA
* *
48339926 AGTCCTATCTCCCTAGTCAGCAGTGGAATAGGTTGAAGATTGTG
1 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTA
* *
48339970 AGTCCTATCTCCCTGGTCAGTAATGGAATAGGTTGAAGATTGTA
1 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTA
*
48340014 AGTCCTATCTCCCTGGTCAGCAATGG-A-A---T--AGA-TG-A
1 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTA
* *
48340049 A-TCCTATCTCCCTGGTTAGCAGTGGAATAGGTTGAAGATTGTG
1 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTA
* *
48340092 AGTCCTATCTCCCTGGTCAGCAGTCGAATAGGTTGAAGATTGTG
1 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTA
*
48340136 AG-CCTTATCTCCCTAGTCAGCAGTGGAATAGGTTGAAGATTGTA
1 AGTCC-TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTA
*
48340180 AGTCCTATCTCCCTGGTCAACAGTGGAATA----G--G--TG-A
1 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTA
48340215 A-TCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGA
1 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGT-A
* * *
48340259 A-TCATATCTCCCTGAG-CAACAGTGGAGTAGGTT
1 AGTCCTATCTCCCTG-GTCAGCAGTGGAATAGGTT
48340292 CAAAATTACA
Statistics
Matches: 345, Mismatches: 22, Indels: 66
0.80 0.05 0.15
Matches are distributed among these distances:
34 77 0.22
35 5 0.01
36 7 0.02
37 3 0.01
38 4 0.01
39 2 0.01
40 4 0.01
41 3 0.01
42 7 0.02
43 4 0.01
44 226 0.66
45 3 0.01
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.29
Consensus pattern (44 bp):
AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTA
Found at i:48339935 original size:34 final size:34
Alignment explanation
Indices: 48339892--48339958 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
48339882 GAAGATTGTA
48339892 AGTCCTATCTCCCT-GATCAGCAGTGGAATAGGTG
1 AGTCCTATCTCCCTAG-TCAGCAGTGGAATAGGTG
48339926 AGTCCTATCTCCCTAGTCAGCAGTGGAATAGGT
1 AGTCCTATCTCCCTAGTCAGCAGTGGAATAGGT
48339959 TGAAGATTGT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
34 31 0.97
35 1 0.03
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.27
Consensus pattern (34 bp):
AGTCCTATCTCCCTAGTCAGCAGTGGAATAGGTG
Found at i:48339977 original size:78 final size:78
Alignment explanation
Indices: 48339848--48340002 Score: 265
Period size: 78 Copynumber: 2.0 Consensus size: 78
48339838 TTTGCGTCCC
*
48339848 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTATCTCCCTGATCAGC
1 AGTCCTATCTCCCTAGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTATCTCCCTGATCAGC
*
48339913 AGTGGAATAGGTG
66 AATGGAATAGGTG
* * *
48339926 AGTCCTATCTCCCTAGTCAGCAGTGGAATAGGTTGAAGATTGTGAGTCCTATCTCCCTGGTCAGT
1 AGTCCTATCTCCCTAGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTATCTCCCTGATCAGC
48339991 AATGGAATAGGT
66 AATGGAATAGGT
48340003 TGAAGATTGT
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
78 72 1.00
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (78 bp):
AGTCCTATCTCCCTAGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTATCTCCCTGATCAGC
AATGGAATAGGTG
Found at i:48340042 original size:122 final size:122
Alignment explanation
Indices: 48339848--48340290 Score: 534
Period size: 122 Copynumber: 3.6 Consensus size: 122
48339838 TTTGCGTCCC
*
48339848 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTATCTCCCTGATCAGC
1 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTATCTCCCTGGTCAGC
*
48339913 AGTGGAATAGGTGAGTCCTATCTCCCTAGTCAGCAGTGGAATAGGTTGAAGATTGTG
66 AGTGGAATAGGTGAATCCTATCTCCCTAGTCAGCAGTGGAATAGGTTGAAGATTGTG
* *
48339970 AGTCCTATCTCCCTGGTCAGTAATGGAATAGGTTGAAGATTGTAAGTCCTATCTCCCTGGTCAGC
1 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTATCTCCCTGGTCAGC
* * * *
48340035 AATGGAATAGATGAATCCTATCTCCCTGGTTAGCAGTGGAATAGGTTGAAGATTGTG
66 AGTGGAATAGGTGAATCCTATCTCCCTAGTCAGCAGTGGAATAGGTTGAAGATTGTG
* * *
48340092 AGTCCTATCTCCCTGGTCAGCAGTCGAATAGGTTGAAGATTGTGAG-CCTTATCTCCCTAGTCAG
1 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC-TATCTCCCTGGTCAG
* *
48340156 CAGTGGAATAGGTTGAAGATTGTAAGTCCTATCTCCCTGGTCAACAGTGGAATAGG-T---GA--
65 CAGTGGAATA----G--G--TG-AA-TCCTATCTCCCTAGTCAGCAGTGGAATAGGTTGAAGATT
48340215 ---
120 GTG
*
48340215 A-TCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAA-TCATATCTCCCTGAG-CA
1 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGT-AAGTCCTATCTCCCTG-GTCA
* *
48340277 ACAGTGGAGTAGGT
64 GCAGTGGAATAGGT
48340291 TCAAAATTAC
Statistics
Matches: 284, Mismatches: 23, Indels: 36
0.83 0.07 0.10
Matches are distributed among these distances:
114 1 0.00
116 1 0.00
118 1 0.00
121 2 0.01
122 239 0.84
123 4 0.01
126 1 0.00
128 2 0.01
130 2 0.01
131 3 0.01
132 28 0.10
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (122 bp):
AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTATCTCCCTGGTCAGC
AGTGGAATAGGTGAATCCTATCTCCCTAGTCAGCAGTGGAATAGGTTGAAGATTGTG
Found at i:48340123 original size:166 final size:166
Alignment explanation
Indices: 48339923--48340272 Score: 585
Period size: 166 Copynumber: 2.1 Consensus size: 166
48339913 AGTGGAATAG
* * *
48339923 GTGAGTCCTATCTCCCTAGTCAGCAGTGGAATAGGTTGAAGATTGTGAGTCC-TATCTCCCTGGT
1 GTGAGTCCTATCTCCCTGGTCAGCAGTCGAATAGGTTGAAGATTGTGAG-CCTTATCTCCCTAGT
* *
48339987 CAGTAATGGAATAGGTTGAAGATTGTAAGTCCTATCTCCCTGGTCAGCAATGGAATAGATGAATC
65 CAGCAATGGAATAGGTTGAAGATTGTAAGTCCTATCTCCCTGGTCAACAATGGAATAGATGAATC
*
48340052 CTATCTCCCTGGTTAGCAGTGGAATAGGTTGAAGATT
130 CTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATT
48340089 GTGAGTCCTATCTCCCTGGTCAGCAGTCGAATAGGTTGAAGATTGTGAGCCTTATCTCCCTAGTC
1 GTGAGTCCTATCTCCCTGGTCAGCAGTCGAATAGGTTGAAGATTGTGAGCCTTATCTCCCTAGTC
* * *
48340154 AGCAGTGGAATAGGTTGAAGATTGTAAGTCCTATCTCCCTGGTCAACAGTGGAATAGGTGAATCC
66 AGCAATGGAATAGGTTGAAGATTGTAAGTCCTATCTCCCTGGTCAACAATGGAATAGATGAATCC
48340219 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATT
131 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATT
* *
48340255 GTGAATCATATCTCCCTG
1 GTGAGTCCTATCTCCCTG
48340273 AGCAACAGTG
Statistics
Matches: 172, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
165 2 0.01
166 170 0.99
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (166 bp):
GTGAGTCCTATCTCCCTGGTCAGCAGTCGAATAGGTTGAAGATTGTGAGCCTTATCTCCCTAGTC
AGCAATGGAATAGGTTGAAGATTGTAAGTCCTATCTCCCTGGTCAACAATGGAATAGATGAATCC
TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATT
Found at i:48340225 original size:34 final size:34
Alignment explanation
Indices: 48340182--48340246 Score: 121
Period size: 34 Copynumber: 1.9 Consensus size: 34
48340172 AGATTGTAAG
48340182 TCCTATCTCCCTGGTCAACAGTGGAATAGGTGAA
1 TCCTATCTCCCTGGTCAACAGTGGAATAGGTGAA
*
48340216 TCCTATCTCCCTGGTCAGCAGTGGAATAGGT
1 TCCTATCTCCCTGGTCAACAGTGGAATAGGT
48340247 TGAAGATTGT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.28
Consensus pattern (34 bp):
TCCTATCTCCCTGGTCAACAGTGGAATAGGTGAA
Found at i:48340279 original size:78 final size:78
Alignment explanation
Indices: 48340141--48340290 Score: 241
Period size: 78 Copynumber: 1.9 Consensus size: 78
48340131 TTGTGAGCCT
*
48340141 TATCTCCCTAGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTATCTCCCTGGTCAACAGTGG
1 TATCTCCCTAGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCATATCTCCCTGGTCAACAGTGG
48340206 AATAGGTGAATCC
66 AATAGGTGAATCC
*
48340219 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAA-TCATATCTCCCTGAG-CAACAGT
1 TATCTCCCTAGTCAGCAGTGGAATAGGTTGAAGATTGT-AAGTCATATCTCCCTG-GTCAACAGT
*
48340282 GGAGTAGGT
64 GGAATAGGT
48340291 TCAAAATTAC
Statistics
Matches: 67, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
78 64 0.96
79 3 0.04
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (78 bp):
TATCTCCCTAGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCATATCTCCCTGGTCAACAGTGG
AATAGGTGAATCC
Found at i:48340311 original size:122 final size:122
Alignment explanation
Indices: 48340089--48340315 Score: 316
Period size: 122 Copynumber: 1.9 Consensus size: 122
48340079 GTTGAAGATT
* * *
48340089 GTGAGTCCTATCTCCCTGGTCAGCAGTCGAATAGGTTGAAGATTGTGAGCCTTATCTCCCTAGTC
1 GTGAATCCTATCTCCCTGGTCAGCAGTCGAATAGGTTGAAGATTGTGAACCATATCTCCCTAGTC
* * *
48340154 AGCAGTGGAATAGGTTGAAGATTGTAAGTCCTATCTCCCTGGTCAACAGTGGAATAG
66 AACAGTGGAATAGGTTCAAGAATGTAAGTCCTATCTCCCTGGTCAACAGTGGAATAG
* *
48340211 GTGAATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCATATCTCCCTGAG-
1 GTGAATCCTATCTCCCTGGTCAGCAGTCGAATAGGTTGAAGATTGTGAACCATATCTCCCT-AGT
* *
48340275 CAACAGTGGAGTAGGTTCAA-AAT-TACAGATCTTATCTCCCT
65 CAACAGTGGAATAGGTTCAAGAATGTA-AG-TCCTATCTCCCT
48340316 AAGCAGTAGT
Statistics
Matches: 92, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
120 2 0.02
121 4 0.04
122 84 0.91
123 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (122 bp):
GTGAATCCTATCTCCCTGGTCAGCAGTCGAATAGGTTGAAGATTGTGAACCATATCTCCCTAGTC
AACAGTGGAATAGGTTCAAGAATGTAAGTCCTATCTCCCTGGTCAACAGTGGAATAG
Found at i:48340311 original size:166 final size:166
Alignment explanation
Indices: 48339931--48340316 Score: 508
Period size: 166 Copynumber: 2.3 Consensus size: 166
48339921 AGGTGAGTCC
* * * * * ** * *
48339931 TATCTCCCTAGTCAGCAGTGGAATAGGTTGAAGATTGTGAGTCC-TATCTCCCTGGTCAGTAATG
1 TATCTCCCTGGTCAACAGTCGAATAGGTTCAAAATTCAGAG-CCTTATCTCCCTAGTCAGCAATG
*
48339995 GAATAGGTTGAAGATTGTAAGTCCTATCTCCCTGGTCAGCAATGGAATAGATGAATCCTATCTCC
65 GAATAGGTTGAAGATTGTAAGTCCTATCTCCCTGGTCAACAATGGAATAGATGAATCCTATCTCC
* * *
48340060 CTGGTTAGCAGTGGAATAGGTTGAAGATTGTGAGTCC
130 CTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCA
* * * ** *
48340097 TATCTCCCTGGTCAGCAGTCGAATAGGTTGAAGATTGTGAGCCTTATCTCCCTAGTCAGCAGTGG
1 TATCTCCCTGGTCAACAGTCGAATAGGTTCAAAATTCAGAGCCTTATCTCCCTAGTCAGCAATGG
* *
48340162 AATAGGTTGAAGATTGTAAGTCCTATCTCCCTGGTCAACAGTGGAATAGGTGAATCCTATCTCCC
66 AATAGGTTGAAGATTGTAAGTCCTATCTCCCTGGTCAACAATGGAATAGATGAATCCTATCTCCC
48340227 TGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCA
131 TGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCA
* * *
48340263 TATCTCCCTGAG-CAACAGTGGAGTAGGTTCAAAATTACAGA-TCTTATCTCCCTA
1 TATCTCCCTG-GTCAACAGTCGAATAGGTTCAAAATT-CAGAGCCTTATCTCCCTA
48340317 AGCAGTAGTG
Statistics
Matches: 198, Mismatches: 19, Indels: 6
0.89 0.09 0.03
Matches are distributed among these distances:
165 2 0.01
166 193 0.97
167 3 0.02
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (166 bp):
TATCTCCCTGGTCAACAGTCGAATAGGTTCAAAATTCAGAGCCTTATCTCCCTAGTCAGCAATGG
AATAGGTTGAAGATTGTAAGTCCTATCTCCCTGGTCAACAATGGAATAGATGAATCCTATCTCCC
TGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCA
Found at i:48341111 original size:17 final size:19
Alignment explanation
Indices: 48341089--48341173 Score: 84
Period size: 19 Copynumber: 4.5 Consensus size: 19
48341079 ATGGAAACAT
48341089 AATCTT-GA-AGGATATAC
1 AATCTTAGATAGGATATAC
* *
48341106 AATCTTAGATATGATATGC
1 AATCTTAGATAGGATATAC
* *
48341125 AATCTTAGATATGATATATGA
1 AATCTTAGATAGGATATA--C
* *
48341146 AATCTTAGATATGATATGC
1 AATCTTAGATAGGATATAC
48341165 AATCTTAGA
1 AATCTTAGA
48341174 AGATATGATT
Statistics
Matches: 58, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
17 6 0.10
18 2 0.03
19 33 0.57
21 17 0.29
ACGTcount: A:0.40, C:0.09, G:0.15, T:0.35
Consensus pattern (19 bp):
AATCTTAGATAGGATATAC
Found at i:48341127 original size:19 final size:19
Alignment explanation
Indices: 48341099--48341173 Score: 114
Period size: 19 Copynumber: 3.8 Consensus size: 19
48341089 AATCTTGAAG
*
48341099 GATATACAATCTTAGATAT
1 GATATGCAATCTTAGATAT
48341118 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
48341137 GATATATGAAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
48341158 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
48341174 AGATATGATT
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
19 33 0.65
21 18 0.35
ACGTcount: A:0.40, C:0.09, G:0.15, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:48341149 original size:21 final size:21
Alignment explanation
Indices: 48341106--48341162 Score: 91
Period size: 21 Copynumber: 2.8 Consensus size: 21
48341096 AAGGATATAC
*
48341106 AATCTTAGATATG--ATATGC
1 AATCTTAGATATGATATATGA
48341125 AATCTTAGATATGATATATGA
1 AATCTTAGATATGATATATGA
48341146 AATCTTAGATATGATAT
1 AATCTTAGATATGATAT
48341163 GCAATCTTAG
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
19 13 0.37
21 22 0.63
ACGTcount: A:0.40, C:0.07, G:0.14, T:0.39
Consensus pattern (21 bp):
AATCTTAGATATGATATATGA
Found at i:48341195 original size:23 final size:22
Alignment explanation
Indices: 48341112--48341196 Score: 81
Period size: 19 Copynumber: 4.0 Consensus size: 22
48341102 ATACAATCTT
48341112 AGATATGATATGCAATCTTAG-
1 AGATATGATATGCAATCTTAGA
* *
48341133 ATATGAT-ATATGAAATCTT---
1 AGAT-ATGATATGCAATCTTAGA
48341152 AGATATGATATGCAATCTTAGA
1 AGATATGATATGCAATCTTAGA
* *
48341174 AGATATGATTTTGTAATCTTAGA
1 AGATATGA-TATGCAATCTTAGA
48341197 GATTTAATTT
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
18 2 0.04
19 14 0.27
21 14 0.27
22 10 0.19
23 12 0.23
ACGTcount: A:0.39, C:0.07, G:0.16, T:0.38
Consensus pattern (22 bp):
AGATATGATATGCAATCTTAGA
Found at i:48341444 original size:23 final size:23
Alignment explanation
Indices: 48341400--48341445 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
48341390 TCTTATTTTG
* *
48341400 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
**
48341423 TTGATTTGTATATTGTTGATTTA
1 TTGATTTGTATATAATTGATTTA
48341446 AAATCTCTTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.24, C:0.00, G:0.15, T:0.61
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:48341799 original size:37 final size:38
Alignment explanation
Indices: 48341723--48341799 Score: 86
Period size: 37 Copynumber: 2.1 Consensus size: 38
48341713 TATACATACA
** **
48341723 TTTTATAATATATACATATACGTATACATTTTTTAATT
1 TTTTATAATATATACATATACACATACATTTAATAATT
*
48341761 TTTTATAA-ATATATATATACACATAC-TTTAATATATT
1 TTTTATAATATATACATATACACATACATTTAATA-ATT
48341798 TT
1 TT
48341800 CTATGTTTCA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
36 5 0.15
37 20 0.61
38 8 0.24
ACGTcount: A:0.39, C:0.08, G:0.01, T:0.52
Consensus pattern (38 bp):
TTTTATAATATATACATATACACATACATTTAATAATT
Found at i:48342104 original size:3 final size:3
Alignment explanation
Indices: 48342098--48342127 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
48342088 TTATCATTTC
48342098 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
48342128 GTTCTTGATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:48346666 original size:17 final size:18
Alignment explanation
Indices: 48346644--48346678 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
48346634 ATTTGGGTCA
48346644 TGTGGGCC-ACACGGGCG
1 TGTGGGCCTACACGGGCG
48346661 TGTGGGCCTACACGGGCG
1 TGTGGGCCTACACGGGCG
48346679 AACATCATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.11, C:0.29, G:0.46, T:0.14
Consensus pattern (18 bp):
TGTGGGCCTACACGGGCG
Found at i:48347640 original size:18 final size:18
Alignment explanation
Indices: 48347609--48347658 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
48347599 ATAAGAAAAC
*
48347609 ATTTTGAAATTGAATAACG
1 ATTTGGAAA-TGAATAACG
* *
48347628 ATTTGTAAATGAATAATG
1 ATTTGGAAATGAATAACG
*
48347646 TTTTGGAAATGAA
1 ATTTGGAAATGAA
48347659 CGACACGATT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
18 19 0.73
19 7 0.27
ACGTcount: A:0.42, C:0.02, G:0.18, T:0.38
Consensus pattern (18 bp):
ATTTGGAAATGAATAACG
Found at i:48349428 original size:5 final size:6
Alignment explanation
Indices: 48349403--48349432 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
48349393 ATATATTATT
48349403 AATAATA AATAAA AATAAA AATAAA AATAA
1 AATAA-A AATAAA AATAAA AATAAA AATAA
48349433 TTATTTAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 18 0.78
7 5 0.22
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (6 bp):
AATAAA
Found at i:48350425 original size:29 final size:30
Alignment explanation
Indices: 48350388--48350466 Score: 81
Period size: 29 Copynumber: 2.7 Consensus size: 30
48350378 AAATTTTAAA
* * *
48350388 TTAATAATGATAAAATTATATTTTGA-TCC
1 TTAAAAATGATAAAATTATAATTTAATTCC
*
48350417 TTAAAAATGATAAAAATT-TAATTTAATTCT
1 TTAAAAATGAT-AAAATTATAATTTAATTCC
* *
48350447 TTAAAAATTATAAAAATATA
1 TTAAAAATGATAAAATTATA
48350467 GGCTATTAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
29 21 0.51
30 20 0.49
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.42
Consensus pattern (30 bp):
TTAAAAATGATAAAATTATAATTTAATTCC
Found at i:48350433 original size:30 final size:30
Alignment explanation
Indices: 48350388--48350463 Score: 84
Period size: 30 Copynumber: 2.6 Consensus size: 30
48350378 AAATTTTAAA
* * *
48350388 TTAATAATGAT-AAAATTATATTTTGA-TCC
1 TTAAAAATGATAAAAATT-TAATTTAATTCC
*
48350417 TTAAAAATGATAAAAATTTAATTTAATTCT
1 TTAAAAATGATAAAAATTTAATTTAATTCC
*
48350447 TTAAAAATTATAAAAAT
1 TTAAAAATGATAAAAAT
48350464 ATAGGCTATT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
29 16 0.40
30 24 0.60
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (30 bp):
TTAAAAATGATAAAAATTTAATTTAATTCC
Found at i:48368162 original size:40 final size:40
Alignment explanation
Indices: 48368112--48368228 Score: 166
Period size: 40 Copynumber: 2.9 Consensus size: 40
48368102 GTTTGGATAA
*
48368112 AAAACGCCGCTAAAGATCGAGCATTAGCAGCGCTTTTTGG
1 AAAACGCCGCTAAAGATCGAGCATTAGCAGCGCTTTATGG
*
48368152 AAAACGCCGCTAAAGATCGAG-ATTTAGCGGCGCTTTATGG
1 AAAACGCCGCTAAAGATCGAGCA-TTAGCAGCGCTTTATGG
* *
48368192 AAAACGCCGCTAAAAAT-AAGCATTAGCAGCGTCTTTA
1 AAAACGCCGCTAAAGATCGAGCATTAGCAGCG-CTTTA
48368229 ATAAAGCGCC
Statistics
Matches: 69, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
39 11 0.16
40 58 0.84
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.22
Consensus pattern (40 bp):
AAAACGCCGCTAAAGATCGAGCATTAGCAGCGCTTTATGG
Found at i:48368551 original size:66 final size:66
Alignment explanation
Indices: 48368476--48368609 Score: 241
Period size: 66 Copynumber: 2.0 Consensus size: 66
48368466 ATTTATATGT
*
48368476 TAAATAATTTCTTATAAAATCATAAAAGAGATAGTGTTAATTTTAAAATATTGAATTAATTATCA
1 TAAATAATTTCTTATAAAATCATAAAAGAGATAGTATTAATTTTAAAATATTGAATTAATTATCA
48368541 C
66 C
* *
48368542 TAAATAATTTCTTATATAATCGTAAAAGAGATAGTATTAATTTTAAAATATTGAATTAATTATCA
1 TAAATAATTTCTTATAAAATCATAAAAGAGATAGTATTAATTTTAAAATATTGAATTAATTATCA
48368607 C
66 C
48368608 TA
1 TA
48368610 TAGTTTAGGG
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.46, C:0.06, G:0.07, T:0.40
Consensus pattern (66 bp):
TAAATAATTTCTTATAAAATCATAAAAGAGATAGTATTAATTTTAAAATATTGAATTAATTATCA
C
Found at i:48368769 original size:15 final size:15
Alignment explanation
Indices: 48368749--48368782 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
48368739 GCCATTTTAA
*
48368749 GGTTTATGGATTATG
1 GGTTTAGGGATTATG
*
48368764 GGTTTAGGGATTCTG
1 GGTTTAGGGATTATG
48368779 GGTT
1 GGTT
48368783 ATGATTTATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.15, C:0.03, G:0.38, T:0.44
Consensus pattern (15 bp):
GGTTTAGGGATTATG
Found at i:48373278 original size:35 final size:35
Alignment explanation
Indices: 48373212--48373278 Score: 82
Period size: 35 Copynumber: 1.9 Consensus size: 35
48373202 TAATTGTATT
*
48373212 ATTAATTTATTATTTTAAATTCTAAATTTAAATTC
1 ATTAATTTATTATTTTAAATTCTAAAGTTAAATTC
* * *
48373247 ATTAATTTTTTATATTT-AGTTTTAAAGTTAAA
1 ATTAATTTATTAT-TTTAAATTCTAAAGTTAAA
48373279 ATTTTCGTAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
35 24 0.89
36 3 0.11
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (35 bp):
ATTAATTTATTATTTTAAATTCTAAAGTTAAATTC
Found at i:48373443 original size:42 final size:43
Alignment explanation
Indices: 48373397--48373702 Score: 363
Period size: 42 Copynumber: 7.3 Consensus size: 43
48373387 GATATGTTTT
* * * * *
48373397 TAGCGGCGTTTGTGTGAAAAGCGTCGTTAAAGGT-TTGTTTTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGATCTA
** * *
48373439 TAGCGGCGTTTGTGGGAAAAGCGTTGCTAAAAGT-TTGCTCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGATCTA
* *
48373481 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGT-TTGTTTTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGATCTA
* * * *
48373523 TAGCGGCATTTGTGGGGAAAGCGCCGCTAAAGATCTTGAGCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGATCTA
* *
48373566 TAGCGGCGTTTGTGAG-AAAGCGCCGCTAAAGGTCCTGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGATCTA
* *
48373608 TAGCGGTGTTTGTGGG-GAAGCGCCGCTAAAGGTCTTGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGATCTA
* * * *
48373650 TAGCGGCGTTT-TTGGAAAAGCACCGCTAAAGGTCATGACCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGATCTA
48373692 TAGCGGCGTTT
1 TAGCGGCGTTT
48373703 ATAGAAATAA
Statistics
Matches: 230, Mismatches: 32, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
41 3 0.01
42 208 0.90
43 19 0.08
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.29
Consensus pattern (43 bp):
TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGATCTA
Found at i:48380085 original size:7 final size:7
Alignment explanation
Indices: 48380069--48380101 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
48380059 AAATTGTTTA
48380069 TTTT-CT
1 TTTTCCT
48380075 TTTTCCT
1 TTTTCCT
48380082 TTTTCCT
1 TTTTCCT
48380089 TTTTCCT
1 TTTTCCT
48380096 TTTTCC
1 TTTTCC
48380102 ATGCTTTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.15
7 22 0.85
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTTCCT
Found at i:48389660 original size:28 final size:28
Alignment explanation
Indices: 48389607--48389662 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
48389597 GGCATAAGTG
*
48389607 TATATATTATGAAATTTTAAAGTTAAAA
1 TATATATTATGAAATTATAAAGTTAAAA
48389635 TATATATTAT-AATATTATAATA-TTAAAA
1 TATATATTATGAA-ATTATAA-AGTTAAAA
48389663 CTTAAATATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
27 2 0.08
28 22 0.88
29 1 0.04
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.45
Consensus pattern (28 bp):
TATATATTATGAAATTATAAAGTTAAAA
Found at i:48389713 original size:5 final size:5
Alignment explanation
Indices: 48389703--48389738 Score: 63
Period size: 5 Copynumber: 7.2 Consensus size: 5
48389693 TTAAGTATAA
*
48389703 ATTAT ATTAT ATTAT ATCAT ATTAT ATTAT ATTAT A
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT A
48389739 ATAAAAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.56
Consensus pattern (5 bp):
ATTAT
Found at i:48390776 original size:41 final size:41
Alignment explanation
Indices: 48390713--48390851 Score: 126
Period size: 41 Copynumber: 3.5 Consensus size: 41
48390703 GACTTCGAGT
* * * *
48390713 CGATGAGACATTTGGTGTCAATTTACTACTTTGGATTAATT
1 CGATGAGACACTGGGTGCCAATTTACTACTTTGGATTAATC
* * *
48390754 CGATGAGGCACTGGGTGCCAATTTACT-C--CGGTTTAA-C
1 CGATGAGACACTGGGTGCCAATTTACTACTTTGGATTAATC
* * * * *
48390791 CGATGAGACATTGGTTGTCAATTTATTACTTTGAATT-ATC
1 CGATGAGACACTGGGTGCCAATTTACTACTTTGGATTAATC
*
48390831 CGATGAGGCACTGGGTGCCAA
1 CGATGAGACACTGGGTGCCAA
48390852 ACTGGTGTGT
Statistics
Matches: 75, Mismatches: 19, Indels: 9
0.73 0.18 0.09
Matches are distributed among these distances:
37 22 0.29
38 7 0.09
39 1 0.01
40 22 0.29
41 23 0.31
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (41 bp):
CGATGAGACACTGGGTGCCAATTTACTACTTTGGATTAATC
Found at i:48392058 original size:7 final size:7
Alignment explanation
Indices: 48392048--48392072 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
48392038 TATAAAACTT
48392048 AAATATC
1 AAATATC
48392055 AAATATC
1 AAATATC
48392062 AAATATC
1 AAATATC
48392069 AAAT
1 AAAT
48392073 TTTTTAACCA
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):
AAATATC
Found at i:48393727 original size:42 final size:42
Alignment explanation
Indices: 48393522--48393821 Score: 332
Period size: 44 Copynumber: 6.9 Consensus size: 42
48393512 GCTAACTTTT
* * * * *
48393522 GCGGCGCTTACAGAAAAAAATGCCGCTAAAGGTCATGTTTCTTTA
1 GCGGCGCTTA-A-TAAAAAACGCCGCTAAAAGTAATG-TTCTATA
* *
48393567 GCGGCGCTTAGGA-AAAAAACGCAGCTAAAAGTAATGTTCTACA
1 GCGGCGCTTA--ATAAAAAACGCCGCTAAAAGTAATGTTCTATA
*
48393610 GCGGCGCTTAATAAAAAAAATGCCGCTAAAAGTAATGTTCTATA
1 GCGGCGCTTAAT--AAAAAACGCCGCTAAAAGTAATGTTCTATA
*
48393654 GCGGCGCTTAATAAAAAAAATGCCGCTAAAAGTAATGTTCTATA
1 GCGGCGCTTAAT--AAAAAACGCCGCTAAAAGTAATGTTCTATA
*
48393698 GCGGCGCTTAATAAAAAACGCCACTAAAAGTAATGTTCTATA
1 GCGGCGCTTAATAAAAAACGCCGCTAAAAGTAATGTTCTATA
** * * *
48393740 GCGGCGCTTGGTAGAAAACGCCGTTAAAAGTAATGTTCTTTA
1 GCGGCGCTTAATAAAAAACGCCGCTAAAAGTAATGTTCTATA
* * * *
48393782 GCGGCGCTTCATCTACAAACGCCGCTAAAAGTAGTGTTCT
1 GCGGCGCTTAAT-AAAAAACGCCGCTAAAAGTAATGTTCT
48393822 TTCGTAGCGC
Statistics
Matches: 225, Mismatches: 25, Indels: 12
0.86 0.10 0.05
Matches are distributed among these distances:
41 1 0.00
42 74 0.33
43 37 0.16
44 102 0.45
45 10 0.04
46 1 0.00
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (42 bp):
GCGGCGCTTAATAAAAAACGCCGCTAAAAGTAATGTTCTATA
Found at i:48394282 original size:12 final size:12
Alignment explanation
Indices: 48394265--48394312 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
48394255 TTTTGAACCT
48394265 CTGCTTCTCTCG
1 CTGCTTCTCTCG
48394277 CTGCTTCTCTCG
1 CTGCTTCTCTCG
**
48394289 CTGCGGC-CT--
1 CTGCTTCTCTCG
48394298 CTGCTTCTCTCG
1 CTGCTTCTCTCG
48394310 CTG
1 CTG
48394313 TAACCTCTGC
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
9 5 0.17
10 2 0.07
11 2 0.07
12 20 0.69
ACGTcount: A:0.00, C:0.42, G:0.21, T:0.38
Consensus pattern (12 bp):
CTGCTTCTCTCG
Found at i:48394301 original size:21 final size:21
Alignment explanation
Indices: 48394277--48394342 Score: 87
Period size: 21 Copynumber: 3.1 Consensus size: 21
48394267 GCTTCTCTCG
*
48394277 CTGCTTCTCTCGCTGCGGCCT
1 CTGCTTCTCTCGCTGCAGCCT
* *
48394298 CTGCTTCTCTCGCTGTAACCT
1 CTGCTTCTCTCGCTGCAGCCT
* *
48394319 CTGCTTCCCTCGCTGCCGCCT
1 CTGCTTCTCTCGCTGCAGCCT
48394340 CTG
1 CTG
48394343 TTTTAAGTTG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.03, C:0.44, G:0.20, T:0.33
Consensus pattern (21 bp):
CTGCTTCTCTCGCTGCAGCCT
Found at i:48399850 original size:7 final size:7
Alignment explanation
Indices: 48399840--48399885 Score: 56
Period size: 7 Copynumber: 6.0 Consensus size: 7
48399830 TGATATATTT
48399840 TTATGTA
1 TTATGTA
48399847 TTATGTAA
1 TTATGT-A
48399855 GTTATGTAA
1 -TTATGT-A
48399864 GTTATGTA
1 -TTATGTA
48399872 TTATGTA
1 TTATGTA
48399879 TTATGTA
1 TTATGTA
48399886 AGTACTGTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
7 20 0.54
8 2 0.05
9 15 0.41
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.52
Consensus pattern (7 bp):
TTATGTA
Found at i:48400017 original size:27 final size:27
Alignment explanation
Indices: 48399984--48400688 Score: 801
Period size: 27 Copynumber: 25.4 Consensus size: 27
48399974 ATGTATAATA
*
48399984 TAAGTTATGTCAGTTATTTAATTTATG
1 TAAGTTATGTAAGTTATTTAATTTATG
*
48400011 TGAGTTATGTAAGTTATTTAATTTATG
1 TAAGTTATGTAAGTTATTTAATTTATG
48400038 TAAGTTATGTAAGTTATTTAATTTTTGTAATTTATG
1 TAAGTTATGTAAG----TT-A---TT-TAATTTATG
*
48400074 TAAGTTATGTAAGTTACTTAATTTATG
1 TAAGTTATGTAAGTTATTTAATTTATG
*
48400101 TAAGTTATGTAAGTTACTTAATTTATG
1 TAAGTTATGTAAGTTATTTAATTTATG
*
48400128 TAA-TTAATGTAAGTTACTTAATTTATG
1 TAAGTT-ATGTAAGTTATTTAATTTATG
* * * *
48400155 TAAGTTATTTAATTTATGTAAGTTATG
1 TAAGTTATGTAAGTTATTTAATTTATG
*
48400182 TAAGTTATGTAAGTTACTTAATTTATG
1 TAAGTTATGTAAGTTATTTAATTTATG
*
48400209 TAAGTTACGTAAGTTATTTAATTTATG
1 TAAGTTATGTAAGTTATTTAATTTATG
*
48400236 TAAGTTATGTAAGTTACTTAATTTATG
1 TAAGTTATGTAAGTTATTTAATTTATG
* *
48400263 TAAGTTATGTAAGTTATGTAAGTTACT-
1 TAAGTTATGTAAGTTATTTAATTTA-TG
* * * *
48400290 TAATTTATGTAAGTTATGTAAGTTATT
1 TAAGTTATGTAAGTTATTTAATTTATG
* * * *
48400317 TAATTTATGTAATTTATGTAAGTTATG
1 TAAGTTATGTAAGTTATTTAATTTATG
* * *
48400344 TAAGTTATTTAA-TTTTTGTAAGTTATG
1 TAAGTTATGTAAGTTATT-TAATTTATG
* * *
48400371 TAATTAATGTAAGTTACTTAATTTATG
1 TAAGTTATGTAAGTTATTTAATTTATG
*
48400398 TAAGTTATGTAAGTTATTTAAGTTATG
1 TAAGTTATGTAAGTTATTTAATTTATG
*
48400425 TAAGTTATGTAAGTTACTTAATTTATG
1 TAAGTTATGTAAGTTATTTAATTTATG
* *
48400452 TAA-TTAATGTAAGTTACTTAATTTATA
1 TAAGTT-ATGTAAGTTATTTAATTTATG
* *
48400479 TAAGTTATGTAAGTTATGTAAGTTATG
1 TAAGTTATGTAAGTTATTTAATTTATG
* * *
48400506 TAAGTTATTTAA-TTTTTGTAAGTTATG
1 TAAGTTATGTAAGTTATT-TAATTTATG
*
48400533 TAA-TTAATGTAAGTTACTTAATTTATG
1 TAAGTT-ATGTAAGTTATTTAATTTATG
48400560 TAAGTTATGTAAGTTATTTAATTTATG
1 TAAGTTATGTAAGTTATTTAATTTATG
48400587 TAAGTTATGTAAGTTATGTAAGGTTCTTAATTTATG
1 TAAGTTATGTAAG---T-T-A---T-TTAATTTATG
48400623 TAAGTTATGTAAGTTATTTAATTTATG
1 TAAGTTATGTAAGTTATTTAATTTATG
*
48400650 TAAGTTATGTAAGTTATTTAATTTTTG
1 TAAGTTATGTAAGTTATTTAATTTATG
48400677 TAAGTTATGTAA
1 TAAGTTATGTAA
48400689 TTAATGTAAG
Statistics
Matches: 594, Mismatches: 54, Indels: 60
0.84 0.08 0.08
Matches are distributed among these distances:
26 13 0.02
27 506 0.85
28 15 0.03
30 1 0.00
31 5 0.01
32 5 0.01
33 1 0.00
35 3 0.01
36 45 0.08
ACGTcount: A:0.33, C:0.02, G:0.15, T:0.50
Consensus pattern (27 bp):
TAAGTTATGTAAGTTATTTAATTTATG
Found at i:48400069 original size:63 final size:63
Alignment explanation
Indices: 48399997--48400709 Score: 882
Period size: 63 Copynumber: 11.0 Consensus size: 63
48399987 GTTATGTCAG
* *
48399997 TTATTTAATTTATGTGAGTTATGTAAGTTATTTAATTTATGTAAGTTATGTAAGTTATTTAAT
1 TTATGTAATTTATGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTATGTAAGTTATTTAAT
* * *
48400060 TTTTGTAATTTATGTAAGTTATGTAAGTTACTTAATTTATGTAAGTTATGTAAGTTACTTAAT
1 TTATGTAATTTATGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTATGTAAGTTATTTAAT
*
48400123 TTATGTAATTAATGTAAGTTACTTAATTTATGTAAGTTATTTAATTTATGTAAGTTATGTAAGTT
1 TTATGTAATTTATGTAAG---------TTATGTAAGTTATTTAATTTATGTAAGTTATGTAAGTT
* *
48400188 ATGTAAG
57 ATTTAAT
* *
48400195 TTACT-TAATTTATGTAAGTTACGTAAGTTATTTAATTTATGTAAGTTATGTAAGTTACTTAAT
1 TTA-TGTAATTTATGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTATGTAAGTTATTTAAT
* *
48400258 TTATGTAAGTTATGTAAGTTATGTAAGTTACTTAATTTATGTAAGTTATGTAAGTTATTTAAT
1 TTATGTAATTTATGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTATGTAAGTTATTTAAT
* * *
48400321 TTATGTAATTTATGTAAGTTATGTAAGTTATTTAATTTTTGTAAGTTATGTAA-TTAATGTAAG
1 TTATGTAATTTATGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTATGTAAGTT-ATTTAAT
* *
48400384 TTACT-TAATTTATGTAAGTTATGTAAGTTATTTAAGTTATGTAAGTTATGTAAGTTACTTAAT
1 TTA-TGTAATTTATGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTATGTAAGTTATTTAAT
* * * *
48400447 TTATGTAATTAATGTAAGTTACTTAATTTATATAAGTTATGTAAGTTATGTAAGTTATGTAAGTT
1 TTATGTAATTTATGTAAG---------TTATGTAAGTTATTTAATTTATGTAAGTTATGTAAGTT
48400512 ATTTAAT
57 ATTTAAT
* * *
48400519 TTTTGTAAGTTATGTAA-TTAATGTAAGTTACTTAATTTATGTAAGTTATGTAAGTTATTTAAT
1 TTATGTAATTTATGTAAGTT-ATGTAAGTTATTTAATTTATGTAAGTTATGTAAGTTATTTAAT
* *
48400582 TTATGTAAGTTATGTAAGTTATGTAAGGTT-CTTAATTTATGTAAGTTATGTAAGTTATTTAAT
1 TTATGTAATTTATGTAAGTTATGTAA-GTTATTTAATTTATGTAAGTTATGTAAGTTATTTAAT
* * * *
48400645 TTATGTAAGTTATGTAAGTTATTTAA-TTTTTGTAAGTTATGTAA-TTAATGTAAGTTATTTAAT
1 TTATGTAATTTATGTAAGTTATGTAAGTTATT-TAATTTATGTAAGTT-ATGTAAGTTATTTAAT
48400708 TT
1 TT
48400710 GTGATACCTA
Statistics
Matches: 575, Mismatches: 45, Indels: 60
0.85 0.07 0.09
Matches are distributed among these distances:
61 2 0.00
62 9 0.02
63 443 0.77
64 8 0.01
72 112 0.19
73 1 0.00
ACGTcount: A:0.33, C:0.02, G:0.15, T:0.50
Consensus pattern (63 bp):
TTATGTAATTTATGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTATGTAAGTTATTTAAT
Found at i:48400709 original size:36 final size:36
Alignment explanation
Indices: 48399854--48400702 Score: 777
Period size: 36 Copynumber: 23.9 Consensus size: 36
48399844 GTATTATGTA
48399854 AGTTATGTAAGTTATGT-A-TTATGT-A-TTATGTA
1 AGTTATGTAAGTTATGTAATTTATGTAAGTTATGTA
* *
48399886 AG-TACTGTAAGTTATGTAAGTAATGT-A-TTATGTA
1 AGTTA-TGTAAGTTATGTAATTTATGTAAGTTATGTA
* * * *
48399920 AGTTGTGTATA-ATAT-TAA-TTATGTGAGTTGTGT-
1 AGTTATGTA-AGTTATGTAATTTATGTAAGTTATGTA
* * * * * *
48399953 A-TAATGTCAGTTAAG-AAGGTTATGT-A-TAATATA
1 AGTTATGTAAGTTATGTAA-TTTATGTAAGTTATGTA
* * *
48399986 AGTTATGTCAGTTATTTAATTTATGTGAGTTATGTA
1 AGTTATGTAAGTTATGTAATTTATGTAAGTTATGTA
* * * *
48400022 AGTTATTTAATTTATGTAAGTTATGTAAGTTATTTA
1 AGTTATGTAAGTTATGTAATTTATGTAAGTTATGTA
* * * *
48400058 ATTTTTGTAATTTATGTAAGTTATGTAAGTTACT-TA
1 AGTTATGTAAGTTATGTAATTTATGTAAGTTA-TGTA
* * *
48400094 ATTTATGTAAGTTATGTAAGTTACT-TAATTTATGTA
1 AGTTATGTAAGTTATGTAATTTA-TGTAAGTTATGTA
*
48400130 A-TTAATGTAAGTTACT-TAATTTATGTAAGTTATTTA
1 AGTT-ATGTAAGTTA-TGTAATTTATGTAAGTTATGTA
* *
48400166 ATTTATGTAAGTTATGTAAGTTATGTAAGTTACT-TA
1 AGTTATGTAAGTTATGTAATTTATGTAAGTTA-TGTA
* * * * *
48400202 ATTTATGTAAGTTACGTAAGTTATTTAATTTATGTA
1 AGTTATGTAAGTTATGTAATTTATGTAAGTTATGTA
48400238 AGTTATGTAAGTTACT-TAATTTATGTAAGTTATGTA
1 AGTTATGTAAGTTA-TGTAATTTATGTAAGTTATGTA
48400274 AGTTATGTAAGTTACT-TAATTTATGTAAGTTATGTA
1 AGTTATGTAAGTTA-TGTAATTTATGTAAGTTATGTA
* *
48400310 AGTTATTTAATTTATGTAATTTATGTAAGTTATGTA
1 AGTTATGTAAGTTATGTAATTTATGTAAGTTATGTA
* * * *
48400346 AGTTATTTAATTTTTGTAAGTTATGTAA-TTAATGTA
1 AGTTATGTAAGTTATGTAATTTATGTAAGTT-ATGTA
* * *
48400382 AGTTACT-TAATTTATGTAAGTTATGTAAGTTATTTA
1 AGTTA-TGTAAGTTATGTAATTTATGTAAGTTATGTA
* *
48400418 AGTTATGTAAGTTATGTAAGTTACT-TAATTTATGTA
1 AGTTATGTAAGTTATGTAATTTA-TGTAAGTTATGTA
*
48400454 A-TTAATGTAAGTTACT-TAATTTATATAAGTTATGTA
1 AGTT-ATGTAAGTTA-TGTAATTTATGTAAGTTATGTA
* * * *
48400490 AGTTATGTAAGTTATGTAAGTTATTTAATTTTTGTA
1 AGTTATGTAAGTTATGTAATTTATGTAAGTTATGTA
* *
48400526 AGTTATGTAA-TTAATGTAAGTTACT-TAATTTATGTA
1 AGTTATGTAAGTT-ATGTAATTTA-TGTAAGTTATGTA
*
48400562 AGTTATGTAAGTTATTTAATTTATGTAAGTTATGTA
1 AGTTATGTAAGTTATGTAATTTATGTAAGTTATGTA
*
48400598 AGTTATGTAAGGTTCT-TAATTTATGTAAGTTATGTA
1 AGTTATGTAA-GTTATGTAATTTATGTAAGTTATGTA
* * * *
48400634 AGTTATTTAATTTATGTAAGTTATGTAAGTTATTTA
1 AGTTATGTAAGTTATGTAATTTATGTAAGTTATGTA
* * *
48400670 ATTTTTGTAAGTTATGTAATTAATGTAAGTTAT
1 AGTTATGTAAGTTATGTAATTTATGTAAGTTAT
48400703 TTAATTTGTG
Statistics
Matches: 698, Mismatches: 75, Indels: 84
0.81 0.09 0.10
Matches are distributed among these distances:
31 3 0.00
32 30 0.04
33 8 0.01
34 50 0.07
35 25 0.04
36 562 0.81
37 20 0.03
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (36 bp):
AGTTATGTAAGTTATGTAATTTATGTAAGTTATGTA
Found at i:48401305 original size:17 final size:19
Alignment explanation
Indices: 48401283--48401329 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 19
48401273 AATTAATTTT
48401283 TAATTTTTAAACAAA-A-A
1 TAATTTTTAAACAAATATA
48401300 TAATTTATTAAACAAATATA
1 TAATTT-TTAAACAAATATA
48401320 TATATTTTTA
1 TA-ATTTTTA
48401330 TTTTACTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
17 6 0.23
18 9 0.35
19 1 0.04
20 6 0.23
21 4 0.15
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (19 bp):
TAATTTTTAAACAAATATA
Found at i:48404238 original size:113 final size:114
Alignment explanation
Indices: 48404006--48404488 Score: 535
Period size: 114 Copynumber: 4.2 Consensus size: 114
48403996 TAATTTTTTT
*
48404006 GCGGCGTTTTTCA-ATAAGCGCCACTAA-GCCTAATATACCGCAAGACCAAACTCTGCATTTTGG
1 GCGGCG-TTTTCATATAAGCGCCACTAATG-CTAATATACCTCAAGACCAAACTCTGCATTTTGG
* *
48404069 TTAAGAAATCTTGCGGCGCTTTTCACTACTCGCCGCTAATACTATGATTTA
64 TTAAGAAATTTTGCGGCGCTTTTCACTACTCGCCGCTAATACTATGCTTTA
* * * * * *
48404120 GCGGCGTTTTAATATAAGCGCCACTACTGCTAGTATACATCAAGACCAAAGCGCTGCGTTTTGGT
1 GCGGCGTTTTCATATAAGCGCCACTAATGCTAATATACCTCAAGACCAAA-CTCTGCATTTTGGT
* * * **
48404185 T-A-ATATTTTGCGGCGCTTTACAATAAGCGCCGCTAATACTATGCTTTA
65 TAAGAAATTTTGCGGCGCTTTTCACTACTCGCCGCTAATACTATGCTTTA
** *
48404233 GCGGCGTTTTCCGATAAGCGCCACTAATCCTAATATACCTCAAGACCAAACTCTGCATTTTGGTT
1 GCGGCGTTTTCATATAAGCGCCACTAATGCTAATATACCTCAAGACCAAACTCTGCATTTTGGTT
* * *
48404298 AAGAAATATTGCGGCGCTTTTCACTACTCACCGCTAATACTATTCTTTA
66 AAGAAATTTTGCGGCGCTTTTCACTACTCGCCGCTAATACTATGCTTTA
* ** * * *
48404347 GCTGCGTTTTTGTATAAGCGCCACTAATGCTAGTGTACCTCAAGACCAAACTCTGCGTTTTGGTT
1 GCGGCGTTTTCATATAAGCGCCACTAATGCTAATATACCTCAAGACCAAACTCTGCATTTTGGTT
** * * ** * * * * *
48404412 AAGATGTATTGCGGCACTTTTTGCGACTTGTCGCCAATTCTATGCTTTA
66 AAGAAATTTTGCGGCGCTTTTCACTACTCGCCGCTAATACTATGCTTTA
* * *
48404461 GCGGTGATTTT-AAATAAGTGCCACTAAT
1 GCGGCG-TTTTCATATAAGCGCCACTAAT
48404489 ACTTTCTTTA
Statistics
Matches: 307, Mismatches: 56, Indels: 12
0.82 0.15 0.03
Matches are distributed among these distances:
112 13 0.04
113 88 0.29
114 188 0.61
115 18 0.06
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (114 bp):
GCGGCGTTTTCATATAAGCGCCACTAATGCTAATATACCTCAAGACCAAACTCTGCATTTTGGTT
AAGAAATTTTGCGGCGCTTTTCACTACTCGCCGCTAATACTATGCTTTA
Found at i:48421234 original size:40 final size:39
Alignment explanation
Indices: 48421184--48421318 Score: 132
Period size: 40 Copynumber: 3.5 Consensus size: 39
48421174 CGTTTGAATA
*
48421184 AAAAAT-GCCGCTAAAAATCAAGCATTAGTGGCGCTTTT
1 AAAAATCGCCGCTAAAAATCAAGCATTAGCGGCGCTTTT
* * *
48421222 CAAAAATCGCCGCTAAAGATCCAGCATTAGCGGTGCTTTT
1 -AAAAATCGCCGCTAAAAATCAAGCATTAGCGGCGCTTTT
* * * *
48421262 TAAAA-CGCCACTAAAAAT-GAGCATTAGCGGCGTTTTTT
1 AAAAATCGCCGCTAAAAATCAAGCATTAGCGGCG-CTTTT
* *
48421300 AGAAAAGCGCCGCAAAAAA
1 A-AAAATCGCCGCTAAAAA
48421319 CCTAAGCCCA
Statistics
Matches: 79, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
37 12 0.15
38 15 0.19
39 14 0.18
40 38 0.48
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (39 bp):
AAAAATCGCCGCTAAAAATCAAGCATTAGCGGCGCTTTT
Found at i:48421483 original size:41 final size:40
Alignment explanation
Indices: 48421356--48421677 Score: 313
Period size: 41 Copynumber: 7.7 Consensus size: 40
48421346 CCTTTCTAGG
* * *
48421356 CTTTAGCGGCGTTTTTGGAAATGCGCCACTAATGCGCAGAC
1 CTTTAGCGGCG-TTTTGGAAAAGCGCCGCTAATGCTCAGAC
* *
48421397 CTTTAGCAGCGTTTTTTGGAGAAGCGCCGCCCCGCT-ATGCTCAGAC
1 CTTTAGCGGCG--TTTTGGA-AA-AG-CG--CCGCTAATGCTCAGAC
* *
48421443 CTTTAGCGGCATTTATGGAAAAGTGCCGCTAATGCTCAGAC
1 CTTTAGCGGCGTTT-TGGAAAAGCGCCGCTAATGCTCAGAC
** * *
48421484 CTTTAGCGGCGTTTTAAAAAAAGCGCCGCTGATGCTCAGGC
1 CTTTAGCGGCGTTTT-GGAAAAGCGCCGCTAATGCTCAGAC
* *
48421525 TTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAGTGCTCAGAC
1 CTTTAGCGGCG-TTTTGGAAAAGCGCCGCTAATGCTCAGAC
* * *
48421566 CTTTAGCGGCGATTTTAGAAAAGCGCCACTAATGCTTAGAC
1 CTTTAGCGGCG-TTTTGGAAAAGCGCCGCTAATGCTCAGAC
* * *
48421607 CTTTAGCGTCGTTTTTGGAAAAACGACGCTAATGCTCAGAC
1 CTTTAGCGGCG-TTTTGGAAAAGCGCCGCTAATGCTCAGAC
* *
48421648 TTTTAGCGGCGTTTTTTGAAAAAGCGCCGC
1 CTTTAGCGGCG--TTTTGGAAAAGCGCCGC
48421678 AAAAACATTT
Statistics
Matches: 232, Mismatches: 38, Indels: 21
0.80 0.13 0.07
Matches are distributed among these distances:
40 6 0.03
41 161 0.69
42 28 0.12
43 3 0.01
44 6 0.03
45 6 0.03
46 18 0.08
47 4 0.02
ACGTcount: A:0.23, C:0.24, G:0.25, T:0.28
Consensus pattern (40 bp):
CTTTAGCGGCGTTTTGGAAAAGCGCCGCTAATGCTCAGAC
Found at i:48421553 original size:82 final size:83
Alignment explanation
Indices: 48421356--48421677 Score: 369
Period size: 82 Copynumber: 3.9 Consensus size: 83
48421346 CCTTTCTAGG
* * * * ** *
48421356 CTTTAGCGGCGTTTTTGGAAATGCGCCACTAATGCGCAGACCTTTAGCAGCGTTTTTTGGAGAAG
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGACCTTTAGCGGCGTTTTTTAAAAAAG
*
48421421 CGCCGCCCCGCTATGCTCAGAC
66 CGCCG--CTG--ATGCTCAGAC
* * * *
48421443 CTTTAGCGGCATTTATGGAAAAGTGCCGCTAATGCTCAGACCTTTAGCGGCG-TTTTAAAAAAAG
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGACCTTTAGCGGCGTTTTTTAAAAAAG
*
48421507 CGCCGCTGATGCTCAGGC
66 CGCCGCTGATGCTCAGAC
* * * *
48421525 TTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAGTGCTCAGACCTTTAGCGGCG-ATTTTAGAAAAG
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGACCTTTAGCGGCGTTTTTTAAAAAAG
* * *
48421589 CGCCACTAATGCTTAGAC
66 CGCCGCTGATGCTCAGAC
* * * * *
48421607 CTTTAGCGTCGTTTTTGGAAAAACGACGCTAATGCTCAGACTTTTAGCGGCGTTTTTTGAAAAAG
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGACCTTTAGCGGCGTTTTTTAAAAAAG
48421672 CGCCGC
66 CGCCGC
48421678 AAAAACATTT
Statistics
Matches: 199, Mismatches: 35, Indels: 6
0.83 0.15 0.03
Matches are distributed among these distances:
82 125 0.63
83 14 0.07
84 2 0.01
86 13 0.07
87 45 0.23
ACGTcount: A:0.23, C:0.24, G:0.25, T:0.28
Consensus pattern (83 bp):
CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGACCTTTAGCGGCGTTTTTTAAAAAAG
CGCCGCTGATGCTCAGAC
Found at i:48421607 original size:123 final size:123
Alignment explanation
Indices: 48421356--48421677 Score: 353
Period size: 123 Copynumber: 2.6 Consensus size: 123
48421346 CCTTTCTAGG
** ** * * * * * *
48421356 CTTTAGCGGCGTTTTTGGAAATGCGCCACTAATGCGCAGACCTTTAGCAGCGTTTTTTGGAGAAG
1 CTTTAGCGGCGTTTTTAAAAAAACGACGCTAATGCTCAGACTTTTAGCGGCGTTTTTT-GA-AAA
* * * *
48421421 CGCCGCCCCGCTATGCTCAGACCTTTAGCGGCATTTATGGAAAAGTGCCGCTAATGCTCAGAC
64 AG-CG--CCGCTATGCTCAGACCTTTAGCGGCATTTATAGAAAAGCGCCACTAATGCTCAGAC
* * * *
48421484 CTTTAGCGGCG-TTTTAAAAAAAGCGCCGCTGATGCTCAGGCTTTTAGCGGCG-TTTTTGGAAAA
1 CTTTAGCGGCGTTTTTAAAAAAA-CGACGCTAATGCTCAGACTTTTAGCGGCGTTTTTTGAAAAA
*
48421547 GCGCCGCTAGTGCTCAGACCTTTAGCGGCGATTT-TAGAAAAGCGCCACTAATGCTTAGAC
65 GCGCCGCTA-TGCTCAGACCTTTAGCGGC-ATTTATAGAAAAGCGCCACTAATGCTCAGAC
* **
48421607 CTTTAGCGTCGTTTTTGGAAAAACGACGCTAATGCTCAGACTTTTAGCGGCGTTTTTTGAAAAAG
1 CTTTAGCGGCGTTTTTAAAAAAACGACGCTAATGCTCAGACTTTTAGCGGCGTTTTTTGAAAAAG
48421672 CGCCGC
66 CGCCGC
48421678 AAAAACATTT
Statistics
Matches: 165, Mismatches: 24, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
122 6 0.04
123 77 0.47
124 32 0.19
125 3 0.02
126 1 0.01
127 12 0.07
128 34 0.21
ACGTcount: A:0.23, C:0.24, G:0.25, T:0.28
Consensus pattern (123 bp):
CTTTAGCGGCGTTTTTAAAAAAACGACGCTAATGCTCAGACTTTTAGCGGCGTTTTTTGAAAAAG
CGCCGCTATGCTCAGACCTTTAGCGGCATTTATAGAAAAGCGCCACTAATGCTCAGAC
Found at i:48421712 original size:20 final size:19
Alignment explanation
Indices: 48421684--48421729 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
48421674 CCGCAAAAAC
*
48421684 ATTTTATTTGTCTATTTACT
1 ATTTAATTTGTCTATTTA-T
*
48421704 ATTTAATTTGTTTATTTAT
1 ATTTAATTTGTCTATTTAT
48421723 A-TTAATT
1 ATTTAATT
48421730 AAAATTTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 6 0.25
19 2 0.08
20 16 0.67
ACGTcount: A:0.26, C:0.04, G:0.04, T:0.65
Consensus pattern (19 bp):
ATTTAATTTGTCTATTTAT
Found at i:48422269 original size:7 final size:7
Alignment explanation
Indices: 48422254--48422305 Score: 59
Period size: 7 Copynumber: 7.4 Consensus size: 7
48422244 TAAATAATGT
48422254 TTAGGGG
1 TTAGGGG
*
48422261 TTGGGGG
1 TTAGGGG
48422268 TTAGGGG
1 TTAGGGG
**
48422275 TTAGTAG
1 TTAGGGG
*
48422282 TTTGGGG
1 TTAGGGG
48422289 TTAGGGG
1 TTAGGGG
*
48422296 TTAGAGG
1 TTAGGGG
48422303 TTA
1 TTA
48422306 CGAGTTAGTG
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
7 36 1.00
ACGTcount: A:0.15, C:0.00, G:0.50, T:0.35
Consensus pattern (7 bp):
TTAGGGG
Found at i:48426906 original size:18 final size:18
Alignment explanation
Indices: 48426883--48426942 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
48426873 ATGTAATTCT
48426883 AATGTAATTCTAATATAG
1 AATGTAATTCTAATATAG
* * **
48426901 AATGTAA-AC-AATTTTCT
1 AATGTAATTCTAA-TATAG
*
48426918 TATGTAATTCTAATATAG
1 AATGTAATTCTAATATAG
48426936 AATGTAA
1 AATGTAA
48426943 CTTGTTTTAA
Statistics
Matches: 29, Mismatches: 10, Indels: 6
0.64 0.22 0.13
Matches are distributed among these distances:
16 2 0.07
17 9 0.31
18 16 0.55
19 2 0.07
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.40
Consensus pattern (18 bp):
AATGTAATTCTAATATAG
Found at i:48427369 original size:43 final size:43
Alignment explanation
Indices: 48427142--48427362 Score: 352
Period size: 43 Copynumber: 5.1 Consensus size: 43
48427132 AATTCATGTT
* * *
48427142 TTTAGCGACGTTTGTGGGAAAAGCGCCGCTAAAGGTATTAGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
48427185 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
* * * *
48427228 TTTAGCGGTGTTTGTGGGAAATGCGCCGCTAAAGTTCTTCGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
* *
48427271 TTTAGCGGCGTTTGTGGGATAAGCGCCGTTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
*
48427314 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
48427357 TTTAGC
1 TTTAGC
48427363 ACCGTTTTTA
Statistics
Matches: 162, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 162 1.00
ACGTcount: A:0.19, C:0.18, G:0.32, T:0.31
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
Found at i:48428081 original size:31 final size:32
Alignment explanation
Indices: 48428036--48428100 Score: 123
Period size: 31 Copynumber: 2.1 Consensus size: 32
48428026 ATTAAAGAAG
48428036 AATAAACAACAAGAAAAATAAAGAAAAGTCCT
1 AATAAACAACAAGAAAAATAAAGAAAAGTCCT
48428068 AATAAA-AACAAGAAAAATAAAGAAAAGTCCT
1 AATAAACAACAAGAAAAATAAAGAAAAGTCCT
48428099 AA
1 AA
48428101 GAAGCCTTGA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 27 0.82
32 6 0.18
ACGTcount: A:0.68, C:0.11, G:0.09, T:0.12
Consensus pattern (32 bp):
AATAAACAACAAGAAAAATAAAGAAAAGTCCT
Found at i:48429946 original size:20 final size:20
Alignment explanation
Indices: 48429921--48429958 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
48429911 TAACAGCTAC
*
48429921 TGGCCTTTAATTCTACTTGT
1 TGGCCTTTAATTCAACTTGT
48429941 TGGCCTTTAATTCAACTT
1 TGGCCTTTAATTCAACTT
48429959 CATAACAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.21, G:0.13, T:0.47
Consensus pattern (20 bp):
TGGCCTTTAATTCAACTTGT
Found at i:48434969 original size:20 final size:20
Alignment explanation
Indices: 48434944--48434982 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
48434934 TACTTTCTTC
48434944 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
48434964 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
48434983 ACTTGCATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:48434971 original size:12 final size:12
Alignment explanation
Indices: 48434956--48434995 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
48434946 TACTTACTCT
*
48434956 CTTACTTGTTTA
1 CTTACTTGCTTA
48434968 CTTACTTGCTTA
1 CTTACTTGCTTA
*
48434980 CTTACTTGCATA
1 CTTACTTGCTTA
48434992 CTTA
1 CTTA
48434996 AATAACTCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.20, C:0.23, G:0.07, T:0.50
Consensus pattern (12 bp):
CTTACTTGCTTA
Found at i:48435336 original size:50 final size:50
Alignment explanation
Indices: 48435268--48435393 Score: 164
Period size: 50 Copynumber: 2.5 Consensus size: 50
48435258 ACTACAAATT
* * ** * *
48435268 CCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATCGGTGCCCATG
1 CCATGTCCCAGACATGGTCTTACATGAGACCTCTCATATCGGTGCCAACG
* *
48435318 CCATGTCCCAGACATGGTCTTACGA-GGGACCTCTCATCTCGGTGCCAACG
1 CCATGTCCCAGACATGGTCTTAC-ATGAGACCTCTCATATCGGTGCCAACG
48435368 CCATGTCCCAGACATGGTCTTACATG
1 CCATGTCCCAGACATGGTCTTACATG
48435394 GGATGCCATT
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.02
50 64 0.97
51 1 0.02
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.26
Consensus pattern (50 bp):
CCATGTCCCAGACATGGTCTTACATGAGACCTCTCATATCGGTGCCAACG
Found at i:48437153 original size:14 final size:14
Alignment explanation
Indices: 48437134--48437160 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
48437124 TAATTTATAT
48437134 GTGTGAAAATTTTC
1 GTGTGAAAATTTTC
48437148 GTGTGAAAATTTT
1 GTGTGAAAATTTT
48437161 ATCGTTTGCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.04, G:0.22, T:0.44
Consensus pattern (14 bp):
GTGTGAAAATTTTC
Found at i:48437165 original size:16 final size:16
Alignment explanation
Indices: 48437125--48437165 Score: 52
Period size: 14 Copynumber: 2.7 Consensus size: 16
48437115 ACAACATGTT
48437125 AATTTATAT-GTGTGAA
1 AATTT-TATCGTGTGAA
48437141 AA-TTT-TCGTGTGAA
1 AATTTTATCGTGTGAA
48437155 AATTTTATCGT
1 AATTTTATCGT
48437166 TTGCATCCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
13 1 0.05
14 10 0.45
15 5 0.23
16 6 0.27
ACGTcount: A:0.32, C:0.05, G:0.17, T:0.46
Consensus pattern (16 bp):
AATTTTATCGTGTGAA
Found at i:48442806 original size:162 final size:162
Alignment explanation
Indices: 48442391--48442902 Score: 898
Period size: 162 Copynumber: 3.1 Consensus size: 162
48442381 ACACATAACA
48442391 ACATGTATAATTCAATTGAAAATTCAGGACCAACACCCGAATTATGTAAACCCAAATGACGTGTC
1 ACATGTATAATTCAATTGAAAATTCAGGACCAACACCCGAATTATGTAAACCCAAATGACGTGTC
*
48442456 ATTTGTATCCTATGATTTCCTAATGTTCAAAACGGGCTCGGTAATCATTGTACGTTGTTGGATAT
66 ATTTGTATCCTATGATTTCCTAAGGTTCAAAACGGGCTCGGTAATCATTGTACGTTGTTGGATAT
*
48442521 GCGGTAGGTATATATATATATATGGCAATTTCCATC
131 GCGATAGG----TATATATATATGGCAATTTCCATC
*
48442557 ACATGAATAATTCAATTGAAAATTCAGGACCAACACCCGAATTATGTAAACCCAAATGACGTGTC
1 ACATGTATAATTCAATTGAAAATTCAGGACCAACACCCGAATTATGTAAACCCAAATGACGTGTC
*
48442622 ATTTGTATCCTATGATTTCCTAAGGTTCAAAACGGGCTCAGTAATCATTGTACGTTGTTGGATAT
66 ATTTGTATCCTATGATTTCCTAAGGTTCAAAACGGGCTCGGTAATCATTGTACGTTGTTGGATAT
*
48442687 GCGATAGGTATATATATATGGCAATTTTCATC
131 GCGATAGGTATATATATATGGCAATTTCCATC
*
48442719 ACATGTATAATTCAATTGAAAATTCAGGACCAACACCAGAATTATGTAAACCCAAATGACGTGTC
1 ACATGTATAATTCAATTGAAAATTCAGGACCAACACCCGAATTATGTAAACCCAAATGACGTGTC
* * *
48442784 ATTTGTATCCTATGACTTCCTAAGGTTCAAAACAGGCTCGGTAATCATTGTATGTTGTTGGATAT
66 ATTTGTATCCTATGATTTCCTAAGGTTCAAAACGGGCTCGGTAATCATTGTACGTTGTTGGATAT
*
48442849 GCGATAGGTATATATATATGGAAATTTCCATC
131 GCGATAGGTATATATATATGGCAATTTCCATC
48442881 ACATGTATAATTCAATTGAAAA
1 ACATGTATAATTCAATTGAAAA
48442903 CATATAAATA
Statistics
Matches: 333, Mismatches: 13, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
162 199 0.60
166 134 0.40
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (162 bp):
ACATGTATAATTCAATTGAAAATTCAGGACCAACACCCGAATTATGTAAACCCAAATGACGTGTC
ATTTGTATCCTATGATTTCCTAAGGTTCAAAACGGGCTCGGTAATCATTGTACGTTGTTGGATAT
GCGATAGGTATATATATATGGCAATTTCCATC
Found at i:48444274 original size:25 final size:21
Alignment explanation
Indices: 48444232--48444276 Score: 54
Period size: 25 Copynumber: 2.0 Consensus size: 21
48444222 GATTTTAATC
48444232 ATTTTTTTATTTTTATTTATT
1 ATTTTTTTATTTTTATTTATT
48444253 ATTTATTTTAGTTATTTAATTTAT
1 ATTT-TTTTA-TT-TTT-ATTTAT
48444277 CTTCTTAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 4 0.20
22 5 0.25
23 2 0.10
24 3 0.15
25 6 0.30
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (21 bp):
ATTTTTTTATTTTTATTTATT
Found at i:48450419 original size:21 final size:21
Alignment explanation
Indices: 48450395--48450458 Score: 92
Period size: 21 Copynumber: 3.0 Consensus size: 21
48450385 TTTGGTTGGA
48450395 TCAGCTCTTTTGAGCTTCTGT
1 TCAGCTCTTTTGAGCTTCTGT
* *
48450416 TCAGCTCTTTCGAGCTTTTGT
1 TCAGCTCTTTTGAGCTTCTGT
* *
48450437 TCACCTCTTATGAGCTTCTGT
1 TCAGCTCTTTTGAGCTTCTGT
48450458 T
1 T
48450459 GTTGTGTTCA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.11, C:0.25, G:0.17, T:0.47
Consensus pattern (21 bp):
TCAGCTCTTTTGAGCTTCTGT
Found at i:48454127 original size:20 final size:21
Alignment explanation
Indices: 48454086--48454132 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
48454076 GCATCGATGA
* *
48454086 TGCATAACAGAGGCATCAAAG
1 TGCAAAACAGAGGCACCAAAG
*
48454107 T-CAAAACAGAGGCACCTAAG
1 TGCAAAACAGAGGCACCAAAG
48454127 TGCAAA
1 TGCAAA
48454133 CCCGTACAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 17 0.77
21 5 0.23
ACGTcount: A:0.45, C:0.21, G:0.21, T:0.13
Consensus pattern (21 bp):
TGCAAAACAGAGGCACCAAAG
Found at i:48456625 original size:31 final size:30
Alignment explanation
Indices: 48456548--48456662 Score: 90
Period size: 31 Copynumber: 3.8 Consensus size: 30
48456538 TCCACCACTA
* *
48456548 GTACATAGTACTTGATAAATGTAAACATTG
1 GTACATAGTACTTGATAAATATAAACATCG
* * * *
48456578 GGACATAGTGCCTGATATAATATGAACATCG
1 GTACATAGTACTTGATA-AATATAAACATCG
* ** *
48456609 GTACAAAGTACTTGAT-AATA-AAGTTATTG
1 GTACATAGTACTTGATAAATATAA-ACATCG
*
48456638 GTACATAGTACCTGATAAAATATAA
1 GTACATAGTACTTGAT-AAATATAA
48456663 CGTTGACACA
Statistics
Matches: 64, Mismatches: 16, Indels: 8
0.73 0.18 0.09
Matches are distributed among these distances:
28 1 0.02
29 21 0.33
30 14 0.22
31 26 0.41
32 2 0.03
ACGTcount: A:0.41, C:0.11, G:0.17, T:0.30
Consensus pattern (30 bp):
GTACATAGTACTTGATAAATATAAACATCG
Found at i:48467463 original size:13 final size:13
Alignment explanation
Indices: 48467442--48467475 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
48467432 TCTTTGATTT
48467442 ATTATTTTATTTTA
1 ATTA-TTTATTTTA
*
48467456 GTTATTTATTTTA
1 ATTATTTATTTTA
48467469 ATTATTT
1 ATTATTT
48467476 TTATCTGACA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 15 0.83
14 3 0.17
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (13 bp):
ATTATTTATTTTA
Found at i:48468167 original size:15 final size:16
Alignment explanation
Indices: 48468137--48468167 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
48468127 AAAAAAATAT
48468137 ATAAATAAACATGAAA
1 ATAAATAAACATGAAA
48468153 ATAAATAAA-ATGAAA
1 ATAAATAAACATGAAA
48468168 TAAGAATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.71, C:0.03, G:0.06, T:0.19
Consensus pattern (16 bp):
ATAAATAAACATGAAA
Found at i:48469028 original size:20 final size:20
Alignment explanation
Indices: 48468990--48469031 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
48468980 AGTTGAAAAC
**
48468990 AAATTAAAACTTTGTTTTAA
1 AAATTAAAACTTTCCTTTAA
*
48469010 AAATTTAAACTTTCCTTTAA
1 AAATTAAAACTTTCCTTTAA
48469030 AA
1 AA
48469032 TAACTAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.45, C:0.10, G:0.02, T:0.43
Consensus pattern (20 bp):
AAATTAAAACTTTCCTTTAA
Found at i:48469100 original size:151 final size:147
Alignment explanation
Indices: 48468673--48469118 Score: 522
Period size: 152 Copynumber: 3.0 Consensus size: 147
48468663 ACCTTATTTC
* * * *
48468673 GAAATAGTTAAAAGAATCAAAACTTTATTTTAAAAATTTCAACTTTCTTTTAAAATGACTTAAAA
1 GAAATAGTTAAAAAAATCAAAACTTTATTTTAAAAATTTAAACTTTCCTTTAAAATAAC-TAAAA
*
48468738 AAACAGATTTTTATTTTTCAAAATCTAAACTTTCTCCTTTTTTGAAAAAAAAATATTATTTTTCT
65 AAACAGATTTTTATTTTTCAAAATCTAAACTTTCTCC--TTTT--AAAAAAAATACTATTTTTCT
** *
48468803 TAAAGATTAAAGTTTTTATTTT
126 TAAAGATTAAAACTTTTACTTT
* * * * * *
48468825 GGAGTAATTAAAAAAAATCAAAATTTTATTTTAAAAA-TTAAAATTTCCTTTAAAATAAATAAAA
1 GAAATAGTT-AAAAAAATCAAAACTTTATTTTAAAAATTTAAACTTTCCTTTAAAATAACTAAAA
* * *
48468889 AATATATATTTTTATTTTTCAAAATCTAAACTTTCTCCTTTTTTTAAAAAAATACTATTTTTCTT
65 AA-ACAGATTTTTATTTTTCAAAATCTAAACTTTCTCC--TTTTAAAAAAAATACTATTTTTCTT
48468954 AAAGATTAAAACTTTTACTTT
127 AAAGATTAAAACTTTTACTTT
* *
48468975 GAAATAGTTGAAAACAAATTAAAACTTTGTTTTAAAAATTTAAACTTTCCTTTAAAATAACTAAA
1 GAAATAGTT-AAAA-AAATCAAAACTTTATTTTAAAAATTTAAACTTTCCTTTAAAATAACTAAA
* * * *
48469040 AAAACAGATTTTTAGTTTTTTTCAAAATCTAAACTTTATCC-ATTAAAAAAAACACTATTTTTCC
64 AAAACAGATTTTTA---TTTTTCAAAATCTAAACTTTCTCCTTTTAAAAAAAATACTATTTTTCT
*
48469104 CAAA-ATT-AAACTTTT
126 TAAAGATTAAAACTTTT
48469119 TTTTATTAAA
Statistics
Matches: 253, Mismatches: 34, Indels: 17
0.83 0.11 0.06
Matches are distributed among these distances:
149 8 0.03
150 50 0.20
151 58 0.23
152 89 0.35
153 25 0.10
154 23 0.09
ACGTcount: A:0.44, C:0.10, G:0.04, T:0.42
Consensus pattern (147 bp):
GAAATAGTTAAAAAAATCAAAACTTTATTTTAAAAATTTAAACTTTCCTTTAAAATAACTAAAAA
AACAGATTTTTATTTTTCAAAATCTAAACTTTCTCCTTTTAAAAAAAATACTATTTTTCTTAAAG
ATTAAAACTTTTACTTT
Found at i:48472558 original size:40 final size:39
Alignment explanation
Indices: 48472489--48472580 Score: 114
Period size: 40 Copynumber: 2.3 Consensus size: 39
48472479 AAATAGGCCT
* * *
48472489 TTAGCGGCGTTTGGATAAAAAACGTCGCTAAAGATCGAGCA
1 TTAGCGGCGTTT-GATAAAAAACGCCGCTAAA-AACAAGCA
*
48472530 TTAGCGGCGCTTT-ATAGAAAACGCCGCTAAAAACAAGCA
1 TTAGCGGCG-TTTGATAAAAAACGCCGCTAAAAACAAGCA
48472569 TTAGCGGCGTTT
1 TTAGCGGCGTTT
48472581 CTCGAAAAGC
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
38 3 0.07
39 15 0.33
40 16 0.35
41 9 0.20
42 3 0.07
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.23
Consensus pattern (39 bp):
TTAGCGGCGTTTGATAAAAAACGCCGCTAAAAACAAGCA
Found at i:48472601 original size:39 final size:39
Alignment explanation
Indices: 48472526--48472602 Score: 102
Period size: 39 Copynumber: 2.0 Consensus size: 39
48472516 CTAAAGATCG
* *
48472526 AGCATTAGCGGCGCTTTATAGAAAACGCCGCTAAAAACA
1 AGCATTAGCGGCGCTTTATAGAAAACGCAGCAAAAAACA
* *
48472565 AGCATTAGCGGCG-TTTCTCGAAAAGCGCAGCAAAAAAC
1 AGCATTAGCGGCGCTTTATAGAAAA-CGCAGCAAAAAAC
48472603 CTAAGCCCGA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
38 9 0.27
39 24 0.73
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.17
Consensus pattern (39 bp):
AGCATTAGCGGCGCTTTATAGAAAACGCAGCAAAAAACA
Done.