Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007845.1 Hibiscus syriacus cultivar Beakdansim tig00110201_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2731752
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
File 7 of 13
Found at i:1380005 original size:30 final size:30
Alignment explanation
Indices: 1379966--1380024 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
1379956 ACTATCACAA
1379966 AGACATCAGACGTGCTAAATCATCATTTAT
1 AGACATCAGACGTGCTAAATCATCATTTAT
*
1379996 AGACGTCAGACGTGCTAAATCATCATTTA
1 AGACATCAGACGTGCTAAATCATCATTTA
1380025 CAGTAACACC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.29
Consensus pattern (30 bp):
AGACATCAGACGTGCTAAATCATCATTTAT
Found at i:1380048 original size:79 final size:79
Alignment explanation
Indices: 1379917--1380064 Score: 251
Period size: 79 Copynumber: 1.9 Consensus size: 79
1379907 ATCGTCACAA
* * *
1379917 AGACGTCAGACGTGCTAAATCATCATTAATAGTAGCACCACTATCACAAAGACATCAGACGTGCT
1 AGACGTCAGACGTGCTAAATCATCATTAACAGTAACACCACCATCACAAAGACATCAGACGTGCT
1379982 AAATCATCATTTAT
66 AAATCATCATTTAT
* *
1379996 AGACGTCAGACGTGCTAAATCATCATTTACAGTAACACCACCATCACAAAGACTTCAGACGTGCT
1 AGACGTCAGACGTGCTAAATCATCATTAACAGTAACACCACCATCACAAAGACATCAGACGTGCT
1380061 AAAT
66 AAAT
1380065 GCTCCACCTC
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
79 64 1.00
ACGTcount: A:0.38, C:0.24, G:0.14, T:0.24
Consensus pattern (79 bp):
AGACGTCAGACGTGCTAAATCATCATTAACAGTAACACCACCATCACAAAGACATCAGACGTGCT
AAATCATCATTTAT
Found at i:1388865 original size:20 final size:21
Alignment explanation
Indices: 1388840--1388880 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
1388830 GATGTGGTTG
1388840 TTTCTAGCC-GTTGGGGATGA
1 TTTCTAGCCAGTTGGGGATGA
*
1388860 TTTCTAGCCATTTGGGGATGA
1 TTTCTAGCCAGTTGGGGATGA
1388881 AATCTCTGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.17, C:0.15, G:0.32, T:0.37
Consensus pattern (21 bp):
TTTCTAGCCAGTTGGGGATGA
Found at i:1389052 original size:24 final size:23
Alignment explanation
Indices: 1389006--1389053 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
1388996 ATGGTATCGA
* * *
1389006 TACTATACATATGGTATCGATAC
1 TACTATACAAATAGTATCAATAC
1389029 TACTATACAAAGTAGTATCAATAC
1 TACTATACAAA-TAGTATCAATAC
1389053 T
1 T
1389054 CCTTTGGGCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 10 0.48
24 11 0.52
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (23 bp):
TACTATACAAATAGTATCAATAC
Found at i:1392743 original size:17 final size:17
Alignment explanation
Indices: 1392723--1392764 Score: 84
Period size: 17 Copynumber: 2.5 Consensus size: 17
1392713 TTTCTCTATC
1392723 TTTCTCTCCTTGTTCCT
1 TTTCTCTCCTTGTTCCT
1392740 TTTCTCTCCTTGTTCCT
1 TTTCTCTCCTTGTTCCT
1392757 TTTCTCTC
1 TTTCTCTC
1392765 TATTTTTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.00, C:0.36, G:0.05, T:0.60
Consensus pattern (17 bp):
TTTCTCTCCTTGTTCCT
Found at i:1393523 original size:2 final size:2
Alignment explanation
Indices: 1393512--1393540 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
1393502 TAACGAAATG
1393512 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1393541 GTATTATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:1394469 original size:2 final size:2
Alignment explanation
Indices: 1394462--1394498 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
1394452 AAACAAAATA
1394462 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1394499 GTTTCACATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1394613 original size:2 final size:2
Alignment explanation
Indices: 1394602--1394644 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
1394592 AAACAAAATA
1394602 AT AT -T AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1394642 AT A
1 AT A
1394645 GTTTCACATA
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 2 0.05
2 37 0.95
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1397502 original size:3 final size:3
Alignment explanation
Indices: 1397490--1397545 Score: 78
Period size: 3 Copynumber: 19.0 Consensus size: 3
1397480 AATTAATTGT
* * *
1397490 TAA T-A TAA TAA TAC TAA TAC TAA TAA TAA TAA TAA CAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1397537 TAA TAA TAA
1 TAA TAA TAA
1397546 ACGTAAGTAA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
2 2 0.04
3 44 0.96
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:1397935 original size:25 final size:25
Alignment explanation
Indices: 1397903--1397960 Score: 116
Period size: 25 Copynumber: 2.3 Consensus size: 25
1397893 ATTGATTATC
1397903 TAATTTTATACCCCTTGAAATTTTA
1 TAATTTTATACCCCTTGAAATTTTA
1397928 TAATTTTATACCCCTTGAAATTTTA
1 TAATTTTATACCCCTTGAAATTTTA
1397953 TAATTTTA
1 TAATTTTA
1397961 CACTCCTATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.33, C:0.14, G:0.03, T:0.50
Consensus pattern (25 bp):
TAATTTTATACCCCTTGAAATTTTA
Found at i:1411647 original size:181 final size:181
Alignment explanation
Indices: 1411343--1411705 Score: 717
Period size: 181 Copynumber: 2.0 Consensus size: 181
1411333 GAGATAAAGC
1411343 TCCAAAGCTCTAGGTGCTGCTTTTTGTAAGTTTAGCAGATTGTACTCTCTGAGATTTATGGTTGG
1 TCCAAAGCTCTAGGTGCTGCTTTTTGTAAGTTTAGCAGATTGTACTCTCTGAGATTTATGGTTGG
*
1411408 TTTATTTGGGTTTTTTCGTGTTATAAGAAGTTTTGATGAAGTTGCCGTACCTAGTTTACAAATGA
66 TTTAATTGGGTTTTTTCGTGTTATAAGAAGTTTTGATGAAGTTGCCGTACCTAGTTTACAAATGA
1411473 TCTGTCAGCCACATTAGTAATCTAAACTTCCTTGAGTCAGAAGCATAATGT
131 TCTGTCAGCCACATTAGTAATCTAAACTTCCTTGAGTCAGAAGCATAATGT
1411524 TCCAAAGCTCTAGGTGCTGCTTTTTGTAAGTTTAGCAGATTGTACTCTCTGAGATTTATGGTTGG
1 TCCAAAGCTCTAGGTGCTGCTTTTTGTAAGTTTAGCAGATTGTACTCTCTGAGATTTATGGTTGG
1411589 TTTAATTGGGTTTTTTCGTGTTATAAGAAGTTTTGATGAAGTTGCCGTACCTAGTTTACAAATGA
66 TTTAATTGGGTTTTTTCGTGTTATAAGAAGTTTTGATGAAGTTGCCGTACCTAGTTTACAAATGA
1411654 TCTGTCAGCCACATTAGTAATCTAAACTTCCTTGAGTCAGAAGCATAATGT
131 TCTGTCAGCCACATTAGTAATCTAAACTTCCTTGAGTCAGAAGCATAATGT
1411705 T
1 T
1411706 TTTCTATGTA
Statistics
Matches: 181, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
181 181 1.00
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.39
Consensus pattern (181 bp):
TCCAAAGCTCTAGGTGCTGCTTTTTGTAAGTTTAGCAGATTGTACTCTCTGAGATTTATGGTTGG
TTTAATTGGGTTTTTTCGTGTTATAAGAAGTTTTGATGAAGTTGCCGTACCTAGTTTACAAATGA
TCTGTCAGCCACATTAGTAATCTAAACTTCCTTGAGTCAGAAGCATAATGT
Found at i:1419370 original size:26 final size:26
Alignment explanation
Indices: 1419336--1419385 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
1419326 AGAAAAATTT
1419336 TATAATTTTAAAAATTATAAATTTCA
1 TATAATTTTAAAAATTATAAATTTCA
* * *
1419362 TATATTTTTAAAATTTATTAATTT
1 TATAATTTTAAAAATTATAAATTT
1419386 TTAAAATTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (26 bp):
TATAATTTTAAAAATTATAAATTTCA
Found at i:1421296 original size:2 final size:2
Alignment explanation
Indices: 1421280--1421315 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
1421270 TTAATTTGTG
*
1421280 TA TA AA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1421316 TTATTTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1424944 original size:32 final size:32
Alignment explanation
Indices: 1424903--1424963 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
1424893 TAGCCAATAT
1424903 TCATGGGAAGTATGCACTTAAAAGGCTAAAAG
1 TCATGGGAAGTATGCACTTAAAAGGCTAAAAG
* *
1424935 TCATGGGAAGTTTGTACTTAAAAGGCTAA
1 TCATGGGAAGTATGCACTTAAAAGGCTAA
1424964 CATTCAGCGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.38, C:0.11, G:0.25, T:0.26
Consensus pattern (32 bp):
TCATGGGAAGTATGCACTTAAAAGGCTAAAAG
Found at i:1433905 original size:94 final size:92
Alignment explanation
Indices: 1433748--1433940 Score: 282
Period size: 94 Copynumber: 2.1 Consensus size: 92
1433738 TCCATTGCAG
* *
1433748 CAGAAACATCCCTTACGTTATAAAACTTGCAGCTGAGATTAATGAAGTATTCAGAAGGAGCATTT
1 CAGAAACATCCCTTACGTTAAAAAAATTGCAGCTGAGATTAATGAAGTATTCAGAAGGAGCATTT
*
1433813 TA-TT-TCAAGACTAACAATATTAGCA
66 TACTTATCAAGACTAACAATACTAGCA
1433838 CAGAAACATCCCTTACGTTTTAAAAAAAAATTGCAGCTGAGATTAATGAAGTATTCAGAAGGAGC
1 CAGAAACATCCCTTACG--TT--AAAAAAATTGCAGCTGAGATTAATGAAGTATTCAGAAGGAGC
*
1433903 ATTTTACTTCAATGAAGACTAACAATACTAGCA
62 ATTTTACTT--ATCAAGACTAACAATACTAGCA
1433936 CAGAA
1 CAGAA
1433941 GGAGTTTTGC
Statistics
Matches: 91, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
90 17 0.19
92 2 0.02
94 46 0.51
95 2 0.02
98 24 0.26
ACGTcount: A:0.41, C:0.17, G:0.16, T:0.27
Consensus pattern (92 bp):
CAGAAACATCCCTTACGTTAAAAAAATTGCAGCTGAGATTAATGAAGTATTCAGAAGGAGCATTT
TACTTATCAAGACTAACAATACTAGCA
Found at i:1442174 original size:33 final size:33
Alignment explanation
Indices: 1442131--1442195 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
1442121 ATTGTATACA
*
1442131 ATATACATATATATTTTTTCATATTTAATATAT
1 ATATACATATATATTTCTTCATATTTAATATAT
*
1442164 ATATATATATATATTTCTTCATATTTAATATA
1 ATATACATATATATTTCTTCATATTTAATATA
1442196 CACATATAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (33 bp):
ATATACATATATATTTCTTCATATTTAATATAT
Found at i:1442203 original size:33 final size:33
Alignment explanation
Indices: 1442137--1442203 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
1442127 TACAATATAC
* * *
1442137 ATATATATTTTTTCATATTTAATATATATATAT
1 ATATATATTTCTTCATATTTAATATACACATAT
1442170 ATATATATTTCTTCATATTTAATATACACATAT
1 ATATATATTTCTTCATATTTAATATACACATAT
1442203 A
1 A
1442204 AAATTATTCA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.52
Consensus pattern (33 bp):
ATATATATTTCTTCATATTTAATATACACATAT
Found at i:1443084 original size:20 final size:20
Alignment explanation
Indices: 1443061--1443112 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
1443051 AACGCGATCC
1443061 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
1443081 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
*
1443101 CCAAAATCGCAA
1 CCAGAATCGCAA
1443113 CGCGATTCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.38, C:0.27, G:0.13, T:0.21
Consensus pattern (20 bp):
CCAGAATCGCAAATCAGTTT
Found at i:1443129 original size:21 final size:20
Alignment explanation
Indices: 1443102--1443200 Score: 72
Period size: 21 Copynumber: 4.8 Consensus size: 20
1443092 AATCAGTTTC
1443102 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * * *
1443123 GAAAATCGCGATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
1443144 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
1443164 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
1443185 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
1443201 ACACATAAAT
Statistics
Matches: 59, Mismatches: 17, Indels: 5
0.73 0.21 0.06
Matches are distributed among these distances:
20 16 0.27
21 43 0.73
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.21
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:1443229 original size:20 final size:20
Alignment explanation
Indices: 1443167--1443360 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
1443157 CGATTTTCCA
* ** *
1443167 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
1443187 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
1443207 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
1443227 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
1443247 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
1443267 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
1443287 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
1443307 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
1443327 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
1443348 AAATCGCAACGCG
1 AAATCGCAACGCG
1443361 ATATTTAAAG
Statistics
Matches: 146, Mismatches: 23, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 126 0.86
21 17 0.12
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:1443251 original size:60 final size:60
Alignment explanation
Indices: 1443167--1443360 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
1443157 CGATTTTCCA
* ** * *
1443167 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* * *** *
1443227 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* **
1443287 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGT
1443348 AAATCGCAACGCG
1 AAATCGCAACGCG
1443361 ATATTTAAAG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 81 0.72
61 31 0.28
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
Found at i:1443781 original size:33 final size:33
Alignment explanation
Indices: 1443742--1443812 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
1443732 TTCACTTAGA
*
1443742 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
1443775 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
1443808 TTTCA
1 TTTCA
1443813 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:1443952 original size:14 final size:14
Alignment explanation
Indices: 1443933--1443987 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
1443923 AGAATGACTG
1443933 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
*
1443947 TCGCAACGCGAAATGGAAA
1 TCGCAA--CGAGA--G-AA
1443966 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
1443980 TCGCAACG
1 TCGCAACG
1443988 CGAAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 16 0.47
15 1 0.03
16 4 0.12
17 4 0.12
18 1 0.03
19 8 0.24
ACGTcount: A:0.40, C:0.24, G:0.27, T:0.09
Consensus pattern (14 bp):
TCGCAACGAGAGAA
Found at i:1444000 original size:33 final size:33
Alignment explanation
Indices: 1443933--1444003 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
1443923 AGAATGACTG
***
1443933 TCGCAACGAGAGAATCGCAACGCGAAATGGAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
1443966 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
1443999 TCGCA
1 TCGCA
1444004 TTGCGATTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.42, C:0.25, G:0.24, T:0.08
Consensus pattern (33 bp):
TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
Found at i:1444021 original size:19 final size:19
Alignment explanation
Indices: 1443999--1444096 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
1443989 GAAACCAAAA
*
1443999 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
1444018 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
1444032 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
1444051 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * *
1444065 TCTCGTTGCGATTGTCATC
1 TCGCGTTGCGATTTTCATT
1444084 TCGCGTTGCGATT
1 TCGCGTTGCGATT
1444097 CTCTCGTTGC
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
14 20 0.32
16 5 0.08
17 6 0.10
19 32 0.51
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:1444040 original size:14 final size:14
Alignment explanation
Indices: 1444021--1444110 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
1444011 TTTCATTTCG
1444021 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
1444035 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
1444054 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
1444068 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
1444085 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
1444101 CGTTGCGATT
1 CGTTGCGATT
1444111 TTCATTTCAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.09, C:0.26, G:0.23, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:1444046 original size:33 final size:33
Alignment explanation
Indices: 1444004--1444118 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
1443994 CAAAATCGCA
1444004 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1444037 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
1444070 TTGCGATTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1444103 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
1444119 AACCAAAAGA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.10, C:0.24, G:0.21, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:1445633 original size:38 final size:38
Alignment explanation
Indices: 1445590--1445662 Score: 137
Period size: 38 Copynumber: 1.9 Consensus size: 38
1445580 AATTGATTGT
*
1445590 TTTTTGATTGTTTAATTGATTTGTAAAAGTTGATTCAA
1 TTTTTGATTGTTTAATTGATTTGTAAAAGATGATTCAA
1445628 TTTTTGATTGTTTAATTGATTTGTAAAAGATGATT
1 TTTTTGATTGTTTAATTGATTTGTAAAAGATGATT
1445663 TGTAAAAGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.29, C:0.01, G:0.16, T:0.53
Consensus pattern (38 bp):
TTTTTGATTGTTTAATTGATTTGTAAAAGATGATTCAA
Found at i:1445649 original size:19 final size:19
Alignment explanation
Indices: 1445585--1445649 Score: 51
Period size: 19 Copynumber: 3.4 Consensus size: 19
1445575 AGTTTAATTG
*
1445585 ATTGTTTTTTGATTGTTTA
1 ATTGATTTTTGATTGTTTA
* * ** *
1445604 ATTGATTTGTAAAAG-TTG
1 ATTGATTTTTGATTGTTTA
*
1445622 ATTCAATTTTTGATTGTTTA
1 ATT-GATTTTTGATTGTTTA
1445642 ATTGATTT
1 ATTGATTT
1445650 GTAAAAGATG
Statistics
Matches: 31, Mismatches: 13, Indels: 4
0.65 0.27 0.08
Matches are distributed among these distances:
18 5 0.16
19 21 0.68
20 5 0.16
ACGTcount: A:0.25, C:0.02, G:0.15, T:0.58
Consensus pattern (19 bp):
ATTGATTTTTGATTGTTTA
Found at i:1445663 original size:14 final size:14
Alignment explanation
Indices: 1445644--1445679 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
1445634 ATTGTTTAAT
1445644 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
1445658 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
1445672 TGATTTGT
1 TGATTTGT
1445680 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:1445860 original size:20 final size:19
Alignment explanation
Indices: 1445792--1445874 Score: 113
Period size: 19 Copynumber: 4.6 Consensus size: 19
1445782 AAAAATGACT
1445792 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
1445811 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
1445825 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
1445844 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
1445864 ATCGCAATGCG
1 ATCGCAATGCG
1445875 TTTATAATTT
Statistics
Matches: 56, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
14 10 0.18
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 21 0.38
20 19 0.34
ACGTcount: A:0.43, C:0.18, G:0.24, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:1445927 original size:19 final size:19
Alignment explanation
Indices: 1445903--1446261 Score: 411
Period size: 19 Copynumber: 20.4 Consensus size: 19
1445893 GATTATCTCG
1445903 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
1445922 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
1445941 TTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCA
1445955 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
1445974 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
1445993 TTGCGATTTTCATTTCGTA
1 TTGCGATTTTCATTTCGCA
*
1446012 TTGCGATTTTAATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
1446031 TTGCGA--TT-ATGTCTG--
1 TTGCGATTTTCATTTC-GCA
1446046 TT-CGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
1446064 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
1446083 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
1446097 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
1446116 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
1446135 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
1446149 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
1446168 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
1446187 TTGCGATTCTCA---CG--
1 TTGCGATTTTCATTTCGCA
1446201 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
1446221 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
* *
1446235 TTGGGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
1446254 TTGCGATT
1 TTGCGATT
1446262 GTATTTTCCG
Statistics
Matches: 294, Mismatches: 13, Indels: 66
0.79 0.03 0.18
Matches are distributed among these distances:
14 43 0.15
15 2 0.01
16 33 0.11
17 30 0.10
18 5 0.02
19 169 0.57
20 12 0.04
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:1445943 original size:52 final size:52
Alignment explanation
Indices: 1445903--1446233 Score: 355
Period size: 52 Copynumber: 6.2 Consensus size: 52
1445893 GATTATCTCG
** *
1445903 TTGCGATTTTCATTTCGCATTGCGATT-T-TCATTTCGCA-TTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCATTTCG-ATTTGC-ATT-TCGCA
* * * *
1445955 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGTA
1 TTGCGATTTTCATTTCGCATTGCGA--TTC---TCTCATTTCGATTTGCATTTCGCA
* * * *
1446012 TTGCGATTTTAATTTCGCATTGCGATTATGTC-TGTTCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCAT-TTCGATTTGCATTTCGCA
* * *
1446064 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCATTTCGATTTGCATTTCGCA
* * *
1446116 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCATTTCGATTTGCATTTCGCA
* * * *
1446168 TTGCGATTTTCATTTCGCATTGCGATTCTCACGTTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCATTTCGATTTGCATTT-CGCA
1446221 TTGCGATTTTCAT
1 TTGCGATTTTCAT
1446234 GTTGGGATTT
Statistics
Matches: 250, Mismatches: 18, Indels: 21
0.87 0.06 0.07
Matches are distributed among these distances:
51 1 0.00
52 188 0.75
53 18 0.07
54 2 0.01
55 2 0.01
57 25 0.10
58 5 0.02
59 9 0.04
ACGTcount: A:0.15, C:0.21, G:0.17, T:0.47
Consensus pattern (52 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCATTTCGATTTGCATTTCGCA
Found at i:1445978 original size:71 final size:71
Alignment explanation
Indices: 1445903--1446261 Score: 394
Period size: 71 Copynumber: 5.1 Consensus size: 71
1445893 GATTATCTCG
1445903 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCAT
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCAT
1445968 TTCGCA
66 TTCGCA
* *
1445974 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGTATTGCGATTTTAATTTCGCATTGCGA--
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TT-CTTTCG--TTGCGATT
*
1446037 TT-ATGTCTG--
61 TTCATTTC-GCA
*
1446046 TT-CGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCAT
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCAT
1446110 TTCGCA
66 TTCGCA
*
1446116 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCGCATTGCGATT
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TTTCG--TTGCGATT
1446176 TTCATTTCGCA
61 TTCATTTCGCA
* *
1446187 TTGCGATTCTCA---CG--TTGCGATTTTCATTTCCGCATTGCGA-T-TTTCATGTTGGGATTTT
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTT-CGCATTGCGATTCTTTC--GTTGCGATTTT
*
1446245 CATTTCGCG
63 CATTTCGCA
1446254 TTGCGATT
1 TTGCGATT
1446262 GTATTTTCCG
Statistics
Matches: 250, Mismatches: 13, Indels: 54
0.79 0.04 0.17
Matches are distributed among these distances:
66 18 0.07
67 29 0.12
68 19 0.08
69 17 0.07
70 4 0.02
71 135 0.54
72 8 0.03
73 6 0.02
74 8 0.03
76 6 0.02
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (71 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCAT
TTCGCA
Found at i:1446205 original size:33 final size:33
Alignment explanation
Indices: 1445922--1446261 Score: 264
Period size: 33 Copynumber: 9.8 Consensus size: 33
1445912 TCATTTCGCA
*
1445922 TTGCGATTTTCATTTCGCATTGCGATTCTT-TCG
1 TTGCGATTTTCATTTCGCATTGCGATT-TTCACG
1445955 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTCA---CG
* *
1445991 CATTGCGATTTTCATTTCGTATTGCGATTTTAATTTCG
1 --TTGCGATTTTCATTTCGCATTGCGATTTTCA---CG
* * *
1446029 CATTGCGATTATGTC-TGTTCG-ATTTTC-A-TTTCGCA
1 --TTGCGATT-T-TCAT-TTCGCA-TTGCGATTTTCACG
* *
1446064 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTCACG
1446097 TTGCGATTTTCATTTCGCATTGCGATTTTCA--
1 TTGCGATTTTCATTTCGCATTGCGATTTTCACG
* * * *
1446128 TTTCGCA-TTGCGATTCTCTCGTTGCGATTTTCATTTCG
1 TTGCG-ATTTTC-ATT-TCGCATTGCGATTTTCA---CG
*
1446166 CATTGCGATTTTCATTTCGCATTGCGATTCTCACG
1 --TTGCGATTTTCATTTCGCATTGCGATTTTCACG
*
1446201 TTGCGATTTTCATTTCCGCATTGCGATTTTCATG
1 TTGCGATTTTCATTT-CGCATTGCGATTTTCACG
* *
1446235 TTGGGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCATTGCGATT
1446262 GTATTTTCCG
Statistics
Matches: 255, Mismatches: 26, Indels: 52
0.77 0.08 0.16
Matches are distributed among these distances:
31 16 0.06
32 10 0.04
33 109 0.43
34 30 0.12
35 3 0.01
36 2 0.01
38 61 0.24
39 8 0.03
40 16 0.06
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTCACG
Found at i:1448583 original size:12 final size:12
Alignment explanation
Indices: 1448566--1448590 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1448556 TCTTCGGGGA
1448566 CTTTTTCTTCTT
1 CTTTTTCTTCTT
1448578 CTTTTTCTTCTT
1 CTTTTTCTTCTT
1448590 C
1 C
1448591 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:1448799 original size:24 final size:24
Alignment explanation
Indices: 1448765--1448811 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
1448755 CTGAAACATC
1448765 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
1448789 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
1448812 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:1449512 original size:20 final size:20
Alignment explanation
Indices: 1449484--1449852 Score: 458
Period size: 20 Copynumber: 18.4 Consensus size: 20
1449474 AAATTTCAGT
* * * *
1449484 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
1449504 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
* * *
1449524 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
1449544 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
1449564 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
1449584 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
1449604 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
1449624 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
1449644 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
1449664 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
*
1449684 GTTGCGGTTTACGGATACGC
1 GTTGCGATTTACGGATACGC
1449704 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
1449724 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
* **
1449744 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATACGC
*
1449764 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
1449784 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
1449804 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATACGC
* ** *
1449824 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATACGC
1449844 GTTGCGATT
1 GTTGCGATT
1449853 ATGGAAAATC
Statistics
Matches: 309, Mismatches: 32, Indels: 16
0.87 0.09 0.04
Matches are distributed among these distances:
19 5 0.02
20 299 0.97
21 5 0.02
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:1455449 original size:21 final size:21
Alignment explanation
Indices: 1455423--1455480 Score: 58
Period size: 21 Copynumber: 3.1 Consensus size: 21
1455413 TAAACCCCAA
1455423 ATTCTAAAATACTTCAATTAC
1 ATTCTAAAATACTTCAATTAC
*
1455444 ATTCT--AA-ACCTC-A--A-
1 ATTCTAAAATACTTCAATTAC
1455458 ATTCTAAAATACTTCAATTAC
1 ATTCTAAAATACTTCAATTAC
1455479 AT
1 AT
1455481 GCCCAACCCC
Statistics
Matches: 28, Mismatches: 2, Indels: 14
0.64 0.05 0.32
Matches are distributed among these distances:
14 5 0.18
15 1 0.04
16 2 0.07
17 5 0.18
18 5 0.18
19 2 0.07
20 1 0.04
21 7 0.25
ACGTcount: A:0.43, C:0.21, G:0.00, T:0.36
Consensus pattern (21 bp):
ATTCTAAAATACTTCAATTAC
Found at i:1455452 original size:35 final size:35
Alignment explanation
Indices: 1455401--1455496 Score: 147
Period size: 35 Copynumber: 2.7 Consensus size: 35
1455391 AACACATTCA
*
1455401 TCAATTACATTATAAACCCCAAATTCTAAAATACT
1 TCAATTACATTCTAAACCCCAAATTCTAAAATACT
*
1455436 TCAATTACATTCTAAACCTCAAATTCTAAAATACT
1 TCAATTACATTCTAAACCCCAAATTCTAAAATACT
* **
1455471 TCAATTACATGCCCAACCCCAAATTC
1 TCAATTACATTCTAAACCCCAAATTC
1455497 ATAATCCATT
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 55 1.00
ACGTcount: A:0.42, C:0.27, G:0.01, T:0.30
Consensus pattern (35 bp):
TCAATTACATTCTAAACCCCAAATTCTAAAATACT
Found at i:1456339 original size:35 final size:35
Alignment explanation
Indices: 1456300--1456376 Score: 127
Period size: 35 Copynumber: 2.2 Consensus size: 35
1456290 GTTGGGCATG
*
1456300 TAATTGAAGTATTTTGGAATTTGAGGTTTAGAATA
1 TAATTGAAGCATTTTGGAATTTGAGGTTTAGAATA
* *
1456335 TAATTGAAGCATTTTGGAATTTGGGGTTTATAATA
1 TAATTGAAGCATTTTGGAATTTGAGGTTTAGAATA
1456370 TAATTGA
1 TAATTGA
1456377 TGACAATGTT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.34, C:0.01, G:0.22, T:0.43
Consensus pattern (35 bp):
TAATTGAAGCATTTTGGAATTTGAGGTTTAGAATA
Found at i:1456611 original size:18 final size:18
Alignment explanation
Indices: 1456585--1456628 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
1456575 TATTACCCAC
* *
1456585 TTTAATTTTCTTTTTACT
1 TTTACTTTTCCTTTTACT
*
1456603 TTTACTTTTCCTTTTCCT
1 TTTACTTTTCCTTTTACT
*
1456621 TTTTCTTT
1 TTTACTTT
1456629 CATTTCATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.09, C:0.18, G:0.00, T:0.73
Consensus pattern (18 bp):
TTTACTTTTCCTTTTACT
Found at i:1461763 original size:16 final size:17
Alignment explanation
Indices: 1461724--1461780 Score: 50
Period size: 16 Copynumber: 3.6 Consensus size: 17
1461714 CACGCATGAC
*
1461724 TAATAA-TAAT-ATTAT
1 TAATAAGTAATAATAAT
* *
1461739 T-ATATGTAATCATAAT
1 TAATAAGTAATAATAAT
*
1461755 TAAT-AGTAATAATTAT
1 TAATAAGTAATAATAAT
1461771 TAATAAGTAA
1 TAATAAGTAA
1461781 CCCATATATA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
14 3 0.09
15 5 0.15
16 18 0.55
17 7 0.21
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.42
Consensus pattern (17 bp):
TAATAAGTAATAATAAT
Found at i:1462154 original size:14 final size:15
Alignment explanation
Indices: 1462128--1462167 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
1462118 GATCAAGTAG
1462128 TTTTT-AAATATATAT
1 TTTTTAAAATATA-AT
1462143 TTTTTAAAATATAAT
1 TTTTTAAAATATAAT
*
1462158 TGTTTAAAAT
1 TTTTTAAAAT
1462168 GTTTAAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 16 0.70
16 7 0.30
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (15 bp):
TTTTTAAAATATAAT
Found at i:1463241 original size:15 final size:15
Alignment explanation
Indices: 1463221--1463253 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
1463211 CGTAGGACCC
1463221 CTACATCCCGAAGGA
1 CTACATCCCGAAGGA
1463236 CTACATCCCGAAGGA
1 CTACATCCCGAAGGA
1463251 CTA
1 CTA
1463254 TTATACCCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.33, C:0.33, G:0.18, T:0.15
Consensus pattern (15 bp):
CTACATCCCGAAGGA
Found at i:1463819 original size:64 final size:64
Alignment explanation
Indices: 1463742--1463962 Score: 232
Period size: 64 Copynumber: 3.5 Consensus size: 64
1463732 TAATGAAGGT
* * * **
1463742 ATGCATCGATGCACTACTGATGCATCGATGCATAAAAGGTATTTGATGTATT-ATTATTGCTGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCATAAAAGGCATTCGATGT-TTCATTATTAATGGG
* ** **
1463806 ATGCATCGATGCACTCCTTATGCATCGATGCACCAATTGCATTCGATGTTTCATTATTAATGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCATAAAAGGCATTCGATGTTTCATTATTAATGGG
* ** * **
1463870 ATGCATCGATGCACTACTTATGCATCGATGCATGAATTGCATTCGATGTTTTTATT-TTAA-AAG
1 ATGCATCGATGCACTACTTATGCATCGATGCATAAAAGGCATTCGATG-TTTCATTATTAATGGG
**
1463933 AGTGCATCGATGCACTACCAATGCATCGAT
1 A-TGCATCGATGCACTACTTATGCATCGAT
1463963 ACACCTTCAA
Statistics
Matches: 136, Mismatches: 18, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
63 4 0.03
64 126 0.93
65 6 0.04
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.34
Consensus pattern (64 bp):
ATGCATCGATGCACTACTTATGCATCGATGCATAAAAGGCATTCGATGTTTCATTATTAATGGG
Found at i:1466499 original size:15 final size:15
Alignment explanation
Indices: 1466479--1466508 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1466469 CGTAGGACCC
*
1466479 CTACATCCCGAAGGA
1 CTACATCCCAAAGGA
1466494 CTACATCCCAAAGGA
1 CTACATCCCAAAGGA
1466509 ATATTATACC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.33, G:0.17, T:0.13
Consensus pattern (15 bp):
CTACATCCCAAAGGA
Found at i:1476443 original size:94 final size:93
Alignment explanation
Indices: 1476276--1476445 Score: 286
Period size: 93 Copynumber: 1.8 Consensus size: 93
1476266 ATTACCTACA
*
1476276 CTCAAAACTCTGCTTTGGTTAATCTGCAAAAGAAAAAAACAAGTCTCCTTACGAATGAAAAAAAG
1 CTCAAAACTCTGCTTTAGTTAATCTGCAAAAGAAAAAAACAAGTCTCCTTACGAATGAAAAAAAG
1476341 AAGACGAAGACGTATTTCTTTAGAGTTT
66 AAGACGAAGACGTATTTCTTTAGAGTTT
* * *
1476369 CTCAAAACTGTGCTTTAGTTAATCTGCAAAAGGAAAAAACAAAGTCTCCTTACGAATGAAGAAAA
1 CTCAAAACTCTGCTTTAGTTAATCTGCAAAAGAAAAAAAC-AAGTCTCCTTACGAATGAAAAAAA
*
1476434 GAATACGAAGAC
65 GAAGACGAAGAC
1476446 ATATGTCTGC
Statistics
Matches: 71, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
93 37 0.52
94 34 0.48
ACGTcount: A:0.43, C:0.16, G:0.16, T:0.24
Consensus pattern (93 bp):
CTCAAAACTCTGCTTTAGTTAATCTGCAAAAGAAAAAAACAAGTCTCCTTACGAATGAAAAAAAG
AAGACGAAGACGTATTTCTTTAGAGTTT
Found at i:1477204 original size:16 final size:17
Alignment explanation
Indices: 1477169--1477218 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 17
1477159 AAAAAATTAA
*
1477169 AATAAAGATA-AAATAC
1 AATAAATATATAAATAC
* *
1477185 AATACATGTATAAATA-
1 AATAAATATATAAATAC
1477201 AATAAATATATAAATAC
1 AATAAATATATAAATAC
1477218 A
1 A
1477219 TAGTTGAACA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
16 21 0.78
17 6 0.22
ACGTcount: A:0.64, C:0.06, G:0.04, T:0.26
Consensus pattern (17 bp):
AATAAATATATAAATAC
Found at i:1481396 original size:24 final size:24
Alignment explanation
Indices: 1481364--1481414 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
1481354 TGCGAGAGAA
*
1481364 GAAGGGTAATCGAAGAAAATAGAG
1 GAAGAGTAATCGAAGAAAATAGAG
*
1481388 GAAGAGTAATTGAAGAAAATAGAG
1 GAAGAGTAATCGAAGAAAATAGAG
1481412 GAA
1 GAA
1481415 ACTTTTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.53, C:0.02, G:0.31, T:0.14
Consensus pattern (24 bp):
GAAGAGTAATCGAAGAAAATAGAG
Found at i:1486027 original size:18 final size:18
Alignment explanation
Indices: 1486002--1486048 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 18
1485992 ATTAGATCGC
1486002 AAAAATAAAAAT-AAATA
1 AAAAATAAAAATGAAATA
*
1486019 AATAAATAAATATGAAATA
1 AA-AAATAAAAATGAAATA
1486038 AAAAATAAAAA
1 AAAAATAAAAA
1486049 AAAGGTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 2 0.08
18 17 0.65
19 7 0.27
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (18 bp):
AAAAATAAAAATGAAATA
Found at i:1486029 original size:22 final size:22
Alignment explanation
Indices: 1486004--1486046 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
1485994 TAGATCGCAA
1486004 AAATA-AAAATAAATAAATAAAT
1 AAATATAAAATAAA-AAATAAAT
*
1486026 AAATATGAAATAAAAAATAAA
1 AAATATAAAATAAAAAATAAA
1486047 AAAAAGGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (22 bp):
AAATATAAAATAAAAAATAAAT
Found at i:1486043 original size:7 final size:7
Alignment explanation
Indices: 1486002--1486049 Score: 53
Period size: 7 Copynumber: 6.7 Consensus size: 7
1485992 ATTAGATCGC
1486002 AAAAAT-
1 AAAAATA
1486008 AAAAATA
1 AAAAATA
1486015 AATAAATA
1 AA-AAATA
1486023 AATAAATA
1 AA-AAATA
**
1486031 TGAAATA
1 AAAAATA
1486038 AAAAATA
1 AAAAATA
1486045 AAAAA
1 AAAAA
1486050 AAGGTTTTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
6 6 0.17
7 17 0.47
8 13 0.36
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (7 bp):
AAAAATA
Found at i:1487808 original size:3 final size:3
Alignment explanation
Indices: 1487795--1487838 Score: 63
Period size: 3 Copynumber: 14.7 Consensus size: 3
1487785 TTAATAGTAT
*
1487795 TAA TAA T-A TAA TAA TAA TAA TAA TTAA TAT TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TA
1487839 TATTATATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
2 2 0.05
3 32 0.86
4 3 0.08
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:1487831 original size:22 final size:23
Alignment explanation
Indices: 1487786--1487848 Score: 74
Period size: 24 Copynumber: 2.6 Consensus size: 23
1487776 AAAACAAAAT
*
1487786 TAATAGTATTAATAAT-ATAATAA
1 TAATA-TATTAATATTAATAATAA
1487809 TAATAATAATTAATATTAATAATAA
1 TAAT-AT-ATTAATATTAATAATAA
1487834 TAATATATTATATAT
1 TAATATATTA-ATAT
1487849 AAAAAATCAT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
23 9 0.26
24 15 0.43
25 11 0.31
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.43
Consensus pattern (23 bp):
TAATATATTAATATTAATAATAA
Found at i:1488552 original size:80 final size:81
Alignment explanation
Indices: 1488456--1488695 Score: 320
Period size: 80 Copynumber: 3.0 Consensus size: 81
1488446 TCCTTATTGG
* * *
1488456 CAGATAACTCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTCGAAGCTAAGTGTAATTGA
1 CAGATAGCCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTCGAAGCTAAGTGTAATCGA
* **
1488521 ACTCGAGGTTCTTTGG
66 ACTCGAGGGTCTTTCA
* * * * *
1488537 CAG-TAGCCCTTCTAGCCTTGAGCTATACCGCAAATGATGTGCCATCGAAGCTGAGTGTAATCGA
1 CAGATAGCCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTCGAAGCTAAGTGTAATCGA
1488601 ACTCGAGGGTCTTTCA
66 ACTCGAGGGTCTTTCA
* * * * *
1488617 CAGATAGCCCTTTTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTTGAAGCTTAGTGTAGTCAA
1 CAGATAGCCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTCGAAGCTAAGTGTAATCGA
*
1488682 ACTCGAAGGTCTTT
66 ACTCGAGGGTCTTT
1488696 GTGTTTTAAG
Statistics
Matches: 137, Mismatches: 21, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
80 69 0.50
81 68 0.50
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (81 bp):
CAGATAGCCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTCGAAGCTAAGTGTAATCGA
ACTCGAGGGTCTTTCA
Found at i:1488773 original size:33 final size:33
Alignment explanation
Indices: 1488693--1488811 Score: 166
Period size: 33 Copynumber: 3.6 Consensus size: 33
1488683 CTCGAAGGTC
* * *
1488693 TTTGTGTTTTAAGAGGAACATTTTCAAAGGTTTT
1 TTTGTGTTTCAAGAGAAACAATTTCAAAGG-TTT
* *
1488727 TTTTTGTTCCAAGAGAAACAATTTCAAAGGTTT
1 TTTGTGTTTCAAGAGAAACAATTTCAAAGGTTT
*
1488760 TTTGTGTTTCAAGAGAAACGATTTCAAAGGTTT
1 TTTGTGTTTCAAGAGAAACAATTTCAAAGGTTT
*
1488793 TCTGTGTTTCAAGAGAAAC
1 TTTGTGTTTCAAGAGAAAC
1488812 TGTCTCCATA
Statistics
Matches: 76, Mismatches: 9, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
33 51 0.67
34 25 0.33
ACGTcount: A:0.30, C:0.10, G:0.19, T:0.40
Consensus pattern (33 bp):
TTTGTGTTTCAAGAGAAACAATTTCAAAGGTTT
Found at i:1488903 original size:67 final size:69
Alignment explanation
Indices: 1488764--1488915 Score: 184
Period size: 67 Copynumber: 2.2 Consensus size: 69
1488754 AGGTTTTTTG
* * * * *
1488764 TGTTTCAAGAGAAACGATTTCAAAGGTTTTCTGTGTTTCAAGAGAAACTGTCTCCATAGAGGCAA
1 TGTTTCAAGAGAAACGATTTCAAAGG-TTTCGGTGTTTCAAGAGAAACTGTCTCAAGAAAGACAA
*
1488829 AATTT
65 AACTT
* *
1488834 TGTTTCAATAGAAAC-ATATTCAAAGG-TT-GGTGTTTCAAGAGAAACTGTCTCAAGAAAGATAA
1 TGTTTCAAGAGAAACGAT-TTCAAAGGTTTCGGTGTTTCAAGAGAAACTGTCTCAAGAAAGACAA
1488896 AACTT
65 AACTT
*
1488901 TGTTTCAAGGGAAAC
1 TGTTTCAAGAGAAAC
1488916 TGTCTCAAGA
Statistics
Matches: 71, Mismatches: 10, Indels: 5
0.83 0.12 0.06
Matches are distributed among these distances:
67 45 0.63
68 2 0.03
69 2 0.03
70 22 0.31
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (69 bp):
TGTTTCAAGAGAAACGATTTCAAAGGTTTCGGTGTTTCAAGAGAAACTGTCTCAAGAAAGACAAA
ACTT
Found at i:1489013 original size:36 final size:36
Alignment explanation
Indices: 1488864--1489193 Score: 277
Period size: 37 Copynumber: 9.1 Consensus size: 36
1488854 CAAAGGTTGG
* *
1488864 TGTTTCAAGAGAAACTGTCTCAAGAAAGATAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* * *
1488901 TGTTTCAAGGGAAACTGTCTCAAGAGAGCCATAATTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACA-AAATT
*
1488938 TTTTTCAAGAGAAACTGTCTCAAGAGAGATAAAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTC-A-AGAG----AGACAAAATT
* *
1488980 TATTTCAAGAGAAACTATCTCAAGAGAGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* * * * *
1489017 AGTTCCAAAAGAAATTGTCTCAAGGGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* *
1489053 TGTTT-AATGTA-AAACATAT-TC-A-A-AG----ATTT
1 TGTTTCAA-G-AGAAAC-TGTCTCAAGAGAGACAAAATT
* *
1489082 TGTTTCAAGGGAAACTGTCTAAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* * *
1489118 TGTTTCAAGGGAAATTGTC-CAAGAAAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
*
1489153 TGTTTCAAGAGAAACTGTTTCAAGAGAGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
1489190 TGTT
1 TGTT
1489194 ATGAGTAAAT
Statistics
Matches: 234, Mismatches: 36, Indels: 46
0.74 0.11 0.15
Matches are distributed among these distances:
28 2 0.01
29 14 0.06
30 3 0.01
31 1 0.00
32 2 0.01
33 2 0.01
35 33 0.14
36 52 0.22
37 86 0.37
38 3 0.01
39 4 0.02
40 4 0.02
41 1 0.00
42 23 0.10
43 4 0.02
ACGTcount: A:0.42, C:0.13, G:0.18, T:0.28
Consensus pattern (36 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
Found at i:1489036 original size:79 final size:80
Alignment explanation
Indices: 1488888--1489045 Score: 192
Period size: 79 Copynumber: 2.0 Consensus size: 80
1488878 CTGTCTCAAG
* * * * * * * ** * *
1488888 AAAGATAAAACTTTGTTTCAAGGGAAACTGTCTCAAGAGAGCCATAATTTTTTTTCAAGAGAAAC
1 AAAGACAAAACTTTATTTCAAGAGAAACTATCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAAC
1488953 TGTCTCAAGAGAGAT
66 TGTCTCAAGAGAGAT
*
1488968 AAAGACAAAA-TTTATTTCAAGAGAAACTATCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAAT
1 AAAGACAAAACTTTATTTCAAGAGAAACTATCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAAC
*
1489032 TGTCTCAAGGGAGA
66 TGTCTCAAGAGAGA
1489046 CAAAATTTGT
Statistics
Matches: 65, Mismatches: 13, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
79 56 0.86
80 9 0.14
ACGTcount: A:0.43, C:0.14, G:0.18, T:0.25
Consensus pattern (80 bp):
AAAGACAAAACTTTATTTCAAGAGAAACTATCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAAC
TGTCTCAAGAGAGAT
Found at i:1489154 original size:35 final size:35
Alignment explanation
Indices: 1489080--1489193 Score: 156
Period size: 36 Copynumber: 3.2 Consensus size: 35
1489070 ATTCAAAGAT
*
1489080 TTTGTTTCAAGGGAAACTGTCTAAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTC-CAAGAGAGACAAAA
* *
1489116 TTTGTTTCAAGGGAAATTGTCCAAGAAAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCCAAGAGAGACAAAA
* *
1489151 TTTGTTTCAAGAGAAACTGTTTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTG-TCCAAGAGAGACAAAA
1489187 CTTTGTT
1 -TTTGTT
1489194 ATGAGTAAAT
Statistics
Matches: 69, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
35 29 0.42
36 34 0.49
37 6 0.09
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.29
Consensus pattern (35 bp):
TTTGTTTCAAGGGAAACTGTCCAAGAGAGACAAAA
Found at i:1489212 original size:173 final size:177
Alignment explanation
Indices: 1488899--1489219 Score: 429
Period size: 173 Copynumber: 1.8 Consensus size: 177
1488889 AAGATAAAAC
* * * *
1488899 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGCCATAATTTTTTTTCAAGAGAAACTGTCTCAAGAG
1 TTTGTTTCAAGGGAAACTGTCTAAAGAGAGACATAAATTTGTTTCAAGAGAAACTGTCTC-A-AG
1488964 AGATAAAGACAAAATTTATTTCAAGAGAAACTATCTCAAGAGAGACAAAACTTAGTTCCAAAAGA
64 AGA-AAAGACAAAATTTATTTCAAGAGAAACTATCTCAAGAGAGACAAAACTTAGTT-CAAAAGA
*
1489029 AATTGTCTCAAGGGAGACAAAATTTGTTTAATGTAAAACATATTCAAAGAT
127 AATTGTCTCAAGCGAGACAAAATTTGTTTAATGTAAAACATATTCAAAGAT
* *
1489080 TTTGTTTCAAGGGAAACTGTCTAAAGAGAGACA-AAATTTGTTTCAAGGGAAATTGTC-C-A-AG
1 TTTGTTTCAAGGGAAACTGTCTAAAGAGAGACATAAATTTGTTTCAAGAGAAACTGTCTCAAGAG
* * * * **
1489141 -AAAGACAAAATTTGTTTCAAGAGAAACTGTTTCAAGAGAGACAAAACTTTGTT-ATGAGTAAAT
66 AAAAGACAAAATTTATTTCAAGAGAAACTATCTCAAGAGAGACAAAACTTAGTTCAAAAG-AAAT
1489204 TAGTCTCAAGCGAGAC
130 T-GTCTCAAGCGAGAC
1489220 GATCCCTTAT
Statistics
Matches: 125, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
171 3 0.02
172 5 0.04
173 62 0.50
175 2 0.02
176 1 0.01
179 1 0.01
180 20 0.16
181 31 0.25
ACGTcount: A:0.41, C:0.13, G:0.18, T:0.28
Consensus pattern (177 bp):
TTTGTTTCAAGGGAAACTGTCTAAAGAGAGACATAAATTTGTTTCAAGAGAAACTGTCTCAAGAG
AAAAGACAAAATTTATTTCAAGAGAAACTATCTCAAGAGAGACAAAACTTAGTTCAAAAGAAATT
GTCTCAAGCGAGACAAAATTTGTTTAATGTAAAACATATTCAAAGAT
Found at i:1489213 original size:37 final size:34
Alignment explanation
Indices: 1489092--1489219 Score: 105
Period size: 35 Copynumber: 3.6 Consensus size: 34
1489082 TGTTTCAAGG
* * * *
1489092 GAAACTGTCTAAAGAGAGACAAAATTTGTTTCAAGG
1 GAAATTGTCTCAAGAGAGACAAAATTTG-TT-ATGA
* *
1489128 GAAATTGTC-CAAGAAAGACAAAATTTGTTTCAAGA
1 GAAATTGTCTCAAGAGAGACAAAATTTG-TT-ATGA
* *
1489163 GAAACTGTTTCAAGAGAGACAAAACTTTGTTATGA
1 GAAATTGTCTCAAGAGAGACAAAA-TTTGTTATGA
*
1489198 GTAAATTAGTCTCAAGCGAGAC
1 G-AAATT-GTCTCAAGAGAGAC
1489220 GATCCCTTAT
Statistics
Matches: 77, Mismatches: 11, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
35 34 0.44
36 27 0.35
37 16 0.21
ACGTcount: A:0.41, C:0.12, G:0.20, T:0.26
Consensus pattern (34 bp):
GAAATTGTCTCAAGAGAGACAAAATTTGTTATGA
Found at i:1489528 original size:21 final size:21
Alignment explanation
Indices: 1489504--1489572 Score: 50
Period size: 21 Copynumber: 3.1 Consensus size: 21
1489494 TGAATTGGAT
1489504 ATCCTTCGTCGTGAAGTTGAA
1 ATCCTTCGTCGTGAAGTTGAA
* * * * *
1489525 ATCCAATC-TAGAGATGAGTACGAT
1 ATCC-TTCGTCGTGA--AGT-TGAA
1489549 ATCCTTCGTCGTGAAGTTGAA
1 ATCCTTCGTCGTGAAGTTGAA
1489570 ATC
1 ATC
1489573 GTGGATGTGT
Statistics
Matches: 33, Mismatches: 10, Indels: 10
0.62 0.19 0.19
Matches are distributed among these distances:
21 13 0.39
22 5 0.15
23 5 0.15
24 10 0.30
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (21 bp):
ATCCTTCGTCGTGAAGTTGAA
Found at i:1489719 original size:53 final size:54
Alignment explanation
Indices: 1489647--1489789 Score: 166
Period size: 53 Copynumber: 2.6 Consensus size: 54
1489637 AAGTTGAGCC
* * * * * *
1489647 TTGACTTGAATATCCTTCGTCGTGAAGTTGAAATCCAAGTAT-TGTATG-TTGCT
1 TTGAGTTGGATATCCTTCGTCGTGAAGTTGAAATCCAA-TATCAGAAAGATGGCT
*
1489700 TTGAGTTGGATATCCTTCGTCGTGAAGTTGAAATCCAATATCGAGAAAGATGGTT
1 TTGAGTTGGATATCCTTCGTCGTGAAGTTGAAATCCAATATC-AGAAAGATGGCT
*
1489755 TTGAGTTGGATATCC-TCTGTCGTGGAGTTGAAATC
1 TTGAGTTGGATATCCTTC-GTCGTGAAGTTGAAATC
1489790 TAATTTCAAA
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
52 3 0.04
53 36 0.46
54 5 0.06
55 34 0.44
ACGTcount: A:0.25, C:0.14, G:0.24, T:0.36
Consensus pattern (54 bp):
TTGAGTTGGATATCCTTCGTCGTGAAGTTGAAATCCAATATCAGAAAGATGGCT
Found at i:1492024 original size:46 final size:46
Alignment explanation
Indices: 1491972--1492083 Score: 144
Period size: 45 Copynumber: 2.5 Consensus size: 46
1491962 TGCATATACT
*
1491972 ATGCATCGATGCA-TTTGTAGT-TTTATGAAAACATCGAATGCATTTG
1 ATGCATCGATGCACTTTGTAGTATTT-TGAAAA-ATCGAATGCATTTC
*
1492018 ATGCATCGATGCACTCTG--GCTATTTTGAAAAATCGAATGCATTTC
1 ATGCATCGATGCACTTTGTAG-TATTTTGAAAAATCGAATGCATTTC
1492063 ATGCATCGATGCACTTT-TAGT
1 ATGCATCGATGCACTTTGTAGT
1492084 GCACCAACCG
Statistics
Matches: 58, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
45 31 0.53
46 21 0.36
47 6 0.10
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.36
Consensus pattern (46 bp):
ATGCATCGATGCACTTTGTAGTATTTTGAAAAATCGAATGCATTTC
Found at i:1492114 original size:19 final size:19
Alignment explanation
Indices: 1492064--1492138 Score: 96
Period size: 19 Copynumber: 3.7 Consensus size: 19
1492054 ATGCATTTCA
*
1492064 TGCATCGATGCACTTTTAG
1 TGCACCGATGCACTTTTAG
1492083 TGCACCAACCGATGCACTTTTAG
1 TG---C-ACCGATGCACTTTTAG
*
1492106 TGCACCGATGCAGTTTTAG
1 TGCACCGATGCACTTTTAG
1492125 TGCACCGATGCACT
1 TGCACCGATGCACT
1492139 AAGGGTCTAA
Statistics
Matches: 49, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
19 30 0.61
20 1 0.02
22 1 0.02
23 17 0.35
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (19 bp):
TGCACCGATGCACTTTTAG
Found at i:1496652 original size:3 final size:3
Alignment explanation
Indices: 1496644--1496677 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
1496634 TTAATAGTAT
1496644 TAA TAA TAA TAA TAA T-A TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1496678 TATATGTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:1496665 original size:14 final size:14
Alignment explanation
Indices: 1496646--1496674 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
1496636 AATAGTATTA
1496646 ATAATAATAATAAT
1 ATAATAATAATAAT
1496660 ATAATAATAATAAT
1 ATAATAATAATAAT
1496674 A
1 A
1496675 ATATATATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
ATAATAATAATAAT
Found at i:1496666 original size:17 final size:17
Alignment explanation
Indices: 1496644--1496679 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
1496634 TTAATAGTAT
1496644 TAATAATAATAATAATA
1 TAATAATAATAATAATA
1496661 TAATAATAATAATAATA
1 TAATAATAATAATAATA
1496678 TA
1 TA
1496680 TATGTAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
TAATAATAATAATAATA
Found at i:1496736 original size:22 final size:23
Alignment explanation
Indices: 1496698--1496745 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
1496688 AAAACATTTT
*
1496698 TAAAAAATTATATTATAT-TACTA
1 TAAAAAATAATATTATATATA-TA
1496721 TAAAAAATAATA-TATATATATA
1 TAAAAAATAATATTATATATATA
1496743 TAA
1 TAA
1496746 TAGTAAATCT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 10 0.43
23 13 0.57
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (23 bp):
TAAAAAATAATATTATATATATA
Found at i:1497598 original size:20 final size:20
Alignment explanation
Indices: 1497539--1497642 Score: 75
Period size: 20 Copynumber: 5.0 Consensus size: 20
1497529 GTGATTTTCC
*
1497539 TAAATCGCAATGCGATTAC-G
1 TAAATCGCAATGAGATT-CTG
* *
1497559 TAAATCGCAATGTGAATCTG
1 TAAATCGCAATGAGATTCTG
*
1497579 TAAATCGCAACGAGATTCTG
1 TAAATCGCAATGAGATTCTG
** * *
1497599 ACTATCGCTCGCAATGTGAATCTG
1 --TA--AATCGCAATGAGATTCTG
*
1497623 TAAATCGCAACGAGATTCTG
1 TAAATCGCAATGAGATTCTG
1497643 ACTATCGCAA
Statistics
Matches: 64, Mismatches: 15, Indels: 10
0.72 0.17 0.11
Matches are distributed among these distances:
19 1 0.02
20 46 0.72
22 4 0.06
24 13 0.20
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (20 bp):
TAAATCGCAATGAGATTCTG
Found at i:1497621 original size:44 final size:44
Alignment explanation
Indices: 1497563--1497650 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
1497553 ATTACGTAAA
1497563 TCGCAATGTGAATCTGTAAATCGCAACGAGATTCTGACTATCGC
1 TCGCAATGTGAATCTGTAAATCGCAACGAGATTCTGACTATCGC
1497607 TCGCAATGTGAATCTGTAAATCGCAACGAGATTCTGACTATCGC
1 TCGCAATGTGAATCTGTAAATCGCAACGAGATTCTGACTATCGC
1497651 AATACTGAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (44 bp):
TCGCAATGTGAATCTGTAAATCGCAACGAGATTCTGACTATCGC
Found at i:1498546 original size:24 final size:24
Alignment explanation
Indices: 1498488--1498534 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
1498478 AGTCAGTATT
*
1498488 CGAAATTTGATCTTGGTCAATACC
1 CGAACTTTGATCTTGGTCAATACC
1498512 CGAACTTTGATCTTGGTCAATAC
1 CGAACTTTGATCTTGGTCAATAC
1498535 TCGGATTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (24 bp):
CGAACTTTGATCTTGGTCAATACC
Found at i:1501039 original size:20 final size:19
Alignment explanation
Indices: 1500960--1501041 Score: 66
Period size: 20 Copynumber: 4.5 Consensus size: 19
1500950 CGCAACGCGG
*
1500960 AAATCGCAACGCGAATATGA
1 AAATCGCAATGCGAA-ATGA
** *
1500980 CTATCGCAATACGAAATGA
1 AAATCGCAATGCGAAATGA
*
1500999 AAATCGCAA--CG-AGTG-
1 AAATCGCAATGCGAAATGA
1501014 -AATCGCAATGCGAAAATGA
1 AAATCGCAATGCG-AAATGA
1501033 AAATCGCAA
1 AAATCGCAA
1501042 CACGAAATTA
Statistics
Matches: 48, Mismatches: 8, Indels: 12
0.71 0.12 0.18
Matches are distributed among these distances:
14 8 0.17
16 5 0.10
17 2 0.04
18 3 0.06
19 11 0.23
20 19 0.40
ACGTcount: A:0.45, C:0.20, G:0.20, T:0.16
Consensus pattern (19 bp):
AAATCGCAATGCGAAATGA
Found at i:1501039 original size:53 final size:53
Alignment explanation
Indices: 1500948--1501049 Score: 134
Period size: 53 Copynumber: 1.9 Consensus size: 53
1500938 TCATTTGACT
* * ** *
1500948 ATCGCAACGCGGAAATCGCAACGCGAATATGACTATCGCAATACGAAATGAAA
1 ATCGCAACGAGGAAATCGCAACGCGAAAATGAAAATCGCAACACGAAATGAAA
*
1501001 ATCGCAACGAGTG-AATCGCAATGCGAAAATGAAAATCGCAACACGAAAT
1 ATCGCAACGAG-GAAATCGCAACGCGAAAATGAAAATCGCAACACGAAAT
1501050 TATTTTCGCG
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
53 41 0.98
54 1 0.02
ACGTcount: A:0.43, C:0.22, G:0.21, T:0.15
Consensus pattern (53 bp):
ATCGCAACGAGGAAATCGCAACGCGAAAATGAAAATCGCAACACGAAATGAAA
Found at i:1501126 original size:33 final size:34
Alignment explanation
Indices: 1501088--1501159 Score: 110
Period size: 33 Copynumber: 2.1 Consensus size: 34
1501078 CATTGCGAAA
**
1501088 GCGATTCACTCGTTGCGATTTTCATTT-CGCATT
1 GCGATTCACTCGTTGCGATAGTCATTTCCGCATT
*
1501121 GCGATTCTCTCGTTGCGATAGTCATTTCCGCATT
1 GCGATTCACTCGTTGCGATAGTCATTTCCGCATT
1501155 GCGAT
1 GCGAT
1501160 AGTCTGTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
33 24 0.69
34 11 0.31
ACGTcount: A:0.15, C:0.25, G:0.21, T:0.39
Consensus pattern (34 bp):
GCGATTCACTCGTTGCGATAGTCATTTCCGCATT
Found at i:1501344 original size:34 final size:34
Alignment explanation
Indices: 1501301--1501396 Score: 140
Period size: 33 Copynumber: 2.9 Consensus size: 34
1501291 ATTAGTTTCG
1501301 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
*
1501335 CGTTGCGATTTTCA-TTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
** * *
1501368 CGTTGCGATAGTCATTTCCGCGTTGCGAT
1 CGTTGCGATTTTCATTTTCGCATTGCGAT
1501397 AGTCTGTTTT
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
33 30 0.54
34 26 0.46
ACGTcount: A:0.14, C:0.24, G:0.21, T:0.42
Consensus pattern (34 bp):
CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
Found at i:1501445 original size:237 final size:238
Alignment explanation
Indices: 1501024--1501506 Score: 860
Period size: 237 Copynumber: 2.0 Consensus size: 238
1501014 AATCGCAATG
* *
1501024 CGAAAATGAAAATCGCAACACGAAATTATTTTCGCGTTGCGATTTTTATTTTCGCATTGCGAAAG
1 CGAAAATGAAAATCGCAACACGAAATTAGTTTCGCGTTGCGATTTTCATTTTCGCATT-----AG
1501089 CGATTCACTCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATAGTCATTTCCGCAT
61 CGATTCACTCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATAGTCATTTCCGCAT
*
1501154 TGCGATAGTCTGTTTTGCATTCAACATAATGCAGATTGAAATCAACAAATCAACTATTGCATTTC
126 TGCGATAGTCTGTTTTGCATTCAACATAATGCAGATTGAAATCAACAAATCAACTATTACATTTC
1501219 AATCAATTAAACAAGCACAAATATTATGTACACATCAATTAAACAAAT
191 AATCAATTAAACAAGCACAAATATTATGTACACATCAATTAAACAAAT
*
1501267 CGAAAATGAAAATCGCAACGCGAAATTAGTTTCGCGTTGCGATTTTCATTTTCGCATT-GCGATT
1 CGAAAATGAAAATCGCAACACGAAATTAGTTTCGCGTTGCGATTTTCATTTTCGCATTAGCGATT
*
1501331 CACTCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATAGTCATTTCCGCGTTGCGA
66 CACTCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATAGTCATTTCCGCATTGCGA
1501396 TAGTCTGTTTTGCATTCAACATAATGCAGATTGAAATCAACAAATCAACTATTACATTTCAATCA
131 TAGTCTGTTTTGCATTCAACATAATGCAGATTGAAATCAACAAATCAACTATTACATTTCAATCA
*
1501461 ATTAAACAAGCACAAATATTATGTACATATCAATTAAACAAAT
196 ATTAAACAAGCACAAATATTATGTACACATCAATTAAACAAAT
1501504 CGA
1 CGA
1501507 CATTTACAAA
Statistics
Matches: 234, Mismatches: 6, Indels: 6
0.95 0.02 0.02
Matches are distributed among these distances:
237 179 0.76
243 55 0.24
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.33
Consensus pattern (238 bp):
CGAAAATGAAAATCGCAACACGAAATTAGTTTCGCGTTGCGATTTTCATTTTCGCATTAGCGATT
CACTCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATAGTCATTTCCGCATTGCGA
TAGTCTGTTTTGCATTCAACATAATGCAGATTGAAATCAACAAATCAACTATTACATTTCAATCA
ATTAAACAAGCACAAATATTATGTACACATCAATTAAACAAAT
Found at i:1502995 original size:42 final size:42
Alignment explanation
Indices: 1502889--1502999 Score: 116
Period size: 42 Copynumber: 2.6 Consensus size: 42
1502879 CTAGAATGTT
* * *
1502889 GGAAGGGACCTCTTCAACGATGACAGTGGCCTCTTGAACGGTG
1 GGAAGGG-CCTCTTGAACGATGACAGGGGCCTCTTGAACGATG
* ** * *
1502932 GGAAGGGACTCTTGAGGGATGATAGGGGCCTCTTGAATGATAG
1 GGAAGGGCCTCTTGAACGATGACAGGGGCCTCTTGAACGAT-G
*
1502975 GGGA-GGCCTCTTGAACGATGACAGG
1 GGAAGGGCCTCTTGAACGATGACAGG
1503000 TGAGTCGGGC
Statistics
Matches: 54, Mismatches: 13, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
42 43 0.80
43 11 0.20
ACGTcount: A:0.24, C:0.18, G:0.37, T:0.21
Consensus pattern (42 bp):
GGAAGGGCCTCTTGAACGATGACAGGGGCCTCTTGAACGATG
Found at i:1503502 original size:20 final size:20
Alignment explanation
Indices: 1503479--1503565 Score: 138
Period size: 20 Copynumber: 4.3 Consensus size: 20
1503469 GAAACTTAAA
*
1503479 ATCGCAACGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
*
1503499 ATCGCAATGTGAAAATGACT
1 ATCGCAATGCGAAAATGACT
1503519 ATCGCAATGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
**
1503539 ATCGCAATGCGAATTTGACT
1 ATCGCAATGCGAAAATGACT
1503559 ATCGCAA
1 ATCGCAA
1503566 CGAGAGAATC
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 62 1.00
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.22
Consensus pattern (20 bp):
ATCGCAATGCGAAAATGACT
Found at i:1503656 original size:54 final size:54
Alignment explanation
Indices: 1503591--1503695 Score: 174
Period size: 54 Copynumber: 1.9 Consensus size: 54
1503581 GCAATTTTCA
*
1503591 TTTCGCATTGCGATTCTTTCGTTGCGATAGTCAAATTCGCATTGCGATAGTCAT
1 TTTCGCATTGCGATTCTCTCGTTGCGATAGTCAAATTCGCATTGCGATAGTCAT
** *
1503645 TTTCGCATTGCGATTCTCTCGTTGCGATAGTCATTTTCGCGTTGCGATAGT
1 TTTCGCATTGCGATTCTCTCGTTGCGATAGTCAAATTCGCATTGCGATAGT
1503696 AAATTATTCT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.17, C:0.21, G:0.22, T:0.40
Consensus pattern (54 bp):
TTTCGCATTGCGATTCTCTCGTTGCGATAGTCAAATTCGCATTGCGATAGTCAT
Found at i:1503689 original size:20 final size:20
Alignment explanation
Indices: 1503610--1503695 Score: 85
Period size: 20 Copynumber: 4.6 Consensus size: 20
1503600 GCGATTCTTT
**
1503610 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
*
1503630 CATTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
* *
1503650 CATTGCGAT--TC----TCT
1 CGTTGCGATAGTCATTTTCG
1503664 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
1503684 CGTTGCGATAGT
1 CGTTGCGATAGT
1503696 AAATTATTCT
Statistics
Matches: 54, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
14 10 0.19
16 2 0.04
18 2 0.04
20 40 0.74
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.37
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:1505631 original size:19 final size:20
Alignment explanation
Indices: 1505567--1505633 Score: 91
Period size: 20 Copynumber: 3.4 Consensus size: 20
1505557 CTGAAACTTT
*
1505567 AAATCACAACACGAAAATGA
1 AAATCGCAACACGAAAATGA
1505587 AAATCGCAACACGAAAATGA
1 AAATCGCAACACGAAAATGA
** *
1505607 CTATCGCAACGCG-AAATGA
1 AAATCGCAACACGAAAATGA
1505626 AAATCGCA
1 AAATCGCA
1505634 TTGCGATTCT
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
19 12 0.29
20 29 0.71
ACGTcount: A:0.51, C:0.22, G:0.15, T:0.12
Consensus pattern (20 bp):
AAATCGCAACACGAAAATGA
Found at i:1505694 original size:20 final size:20
Alignment explanation
Indices: 1505646--1505694 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
1505636 GCGATTCTCT
1505646 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
* * **
1505666 CATTACGATAGTCATTTTCG
1 CGTTGCGATAGTCAAATTCG
1505686 CGTTGCGAT
1 CGTTGCGAT
1505695 TCACTCGTTG
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:1506282 original size:20 final size:20
Alignment explanation
Indices: 1506257--1506308 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
1506247 GCTATGTAAA
1506257 TCGCATTGCGATAGTCAGAT
1 TCGCATTGCGATAGTCAGAT
1506277 TCGCATTGCGATAGTCAGAT
1 TCGCATTGCGATAGTCAGAT
1506297 TCGCATTGCGAT
1 TCGCATTGCGAT
1506309 TTACGTAATC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (20 bp):
TCGCATTGCGATAGTCAGAT
Found at i:1506320 original size:20 final size:21
Alignment explanation
Indices: 1506297--1506342 Score: 85
Period size: 20 Copynumber: 2.2 Consensus size: 21
1506287 ATAGTCAGAT
1506297 TCGCATTGCGATTTACGT-AA
1 TCGCATTGCGATTTACGTAAA
1506317 TCGCATTGCGATTTACGTAAA
1 TCGCATTGCGATTTACGTAAA
1506338 TCGCA
1 TCGCA
1506343 ACGCGAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 18 0.72
21 7 0.28
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.33
Consensus pattern (21 bp):
TCGCATTGCGATTTACGTAAA
Found at i:1506348 original size:21 final size:20
Alignment explanation
Indices: 1506304--1506348 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
1506294 GATTCGCATT
**
1506304 GCGATTTACGTAATCGCATT
1 GCGATTTACGTAATCGCAAC
1506324 GCGATTTACGTAAATCGCAAC
1 GCGATTTACGT-AATCGCAAC
1506345 GCGA
1 GCGA
1506349 ATTTGGAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (20 bp):
GCGATTTACGTAATCGCAAC
Found at i:1507206 original size:12 final size:11
Alignment explanation
Indices: 1507178--1507205 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
1507168 TATGAAGAAT
1507178 ATTTTTATTTA
1 ATTTTTATTTA
1507189 ATTTTTATTTA
1 ATTTTTATTTA
1507200 ATTTTT
1 ATTTTT
1507206 TTAAATAGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (11 bp):
ATTTTTATTTA
Found at i:1507619 original size:29 final size:29
Alignment explanation
Indices: 1507577--1507661 Score: 170
Period size: 29 Copynumber: 2.9 Consensus size: 29
1507567 GACAACTAGC
1507577 ATAGGTCGCCATGCACGCCCGGCGTCCTT
1 ATAGGTCGCCATGCACGCCCGGCGTCCTT
1507606 ATAGGTCGCCATGCACGCCCGGCGTCCTT
1 ATAGGTCGCCATGCACGCCCGGCGTCCTT
1507635 ATAGGTCGCCATGCACGCCCGGCGTCC
1 ATAGGTCGCCATGCACGCCCGGCGTCC
1507662 AACGTTCTTT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 56 1.00
ACGTcount: A:0.14, C:0.39, G:0.28, T:0.19
Consensus pattern (29 bp):
ATAGGTCGCCATGCACGCCCGGCGTCCTT
Found at i:1507713 original size:13 final size:13
Alignment explanation
Indices: 1507697--1507724 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1507687 TTGATGCTCT
1507697 GCTTTGGTGCTAG
1 GCTTTGGTGCTAG
1507710 GCTTTGGTGCTAG
1 GCTTTGGTGCTAG
1507723 GC
1 GC
1507725 ATGGGCCATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.07, C:0.18, G:0.39, T:0.36
Consensus pattern (13 bp):
GCTTTGGTGCTAG
Found at i:1512031 original size:65 final size:65
Alignment explanation
Indices: 1511901--1512032 Score: 158
Period size: 65 Copynumber: 2.0 Consensus size: 65
1511891 AAAAAAGATG
* * * * * *
1511901 AAAAATGAAAAGTCTGCAAAGTATTAATATTTTTTTCATAAATATCGATACTTTTAAATCTAAAA
1 AAAAATGAAAAGGCTGCAAAATATTAATATTTTTCTCACAAATATCAATACTTTCAAATCTAAAA
* * * * *
1511966 AAAAATGAGAAGGCTGCAAAATTTTAATATTTTTCT-ACAAGTATCAATACTTTCGAATTTAAAA
1 AAAAATGAAAAGGCTGCAAAATATTAATATTTTTCTCACAAATATCAATACTTTCAAATCTAAAA
1512030 AAA
1 AAA
1512033 TAGAAAATGA
Statistics
Matches: 56, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
64 25 0.45
65 31 0.55
ACGTcount: A:0.46, C:0.10, G:0.09, T:0.35
Consensus pattern (65 bp):
AAAAATGAAAAGGCTGCAAAATATTAATATTTTTCTCACAAATATCAATACTTTCAAATCTAAAA
Found at i:1512712 original size:237 final size:245
Alignment explanation
Indices: 1512377--1513062 Score: 752
Period size: 253 Copynumber: 2.8 Consensus size: 245
1512367 TTTAAAAATG
* * ** * *
1512377 TAAACAATAAAATATTTACAATTTAGTCGGTTAAAATAAAATAGGCGCAACATATTACGTTAAAC
1 TAAACAGTAAAATATTTACAA-CTAACCGGTTAAAATAAAATATGAGCAACATATTACGTTAAAC
* *
1512442 TAGCGATCGGTTTGTTTAAAGGTATACTAATAATGTAAACGATAAAATAAAATAGGTGCAA-C-T
65 TAGCTATCGGTTTGTTTAAAGGTATAATAATAATGTAAACGATAAAATAAAATAGGTGCAACCTT
*
1512505 A-G-CTA-CTACT-G-TGTTTAAAGGTATAATAATAATGTAAAC-GTTAAAATAAAATAAGTGAT
130 ACGACTAGCTACTGGTTGTTTAAAGGTATAATAATAATGTAAACGGTTAAAATAAAATAAGCGAT
1512564 ACCTA-TACCGTTAAACTAACTAAC-GATTTGTTTAAAGGTATTGAA-A-TAATA
195 ACCTATTA-CGTTAAACTAACT-ACTGATTTGTTTAAAGGTA-T-AATATTAATA
* *
1512615 TAAACAGTAAAATATTTACAACTAACCGGTTAATATAAAATATGTGCAACATATTACGTTAAACT
1 TAAACAGTAAAATATTTACAACTAACCGGTTAAAATAAAATATGAGCAACATATTACGTTAAACT
* **
1512680 AGCTATCGGTTTGTTTAAAGGTATAATAATAATATAAAC-AGTAAAATAAAATAGGCACAACCTA
66 AGCTATCGGTTTGTTTAAAGGTATAATAATAATGTAAACGA-TAAAATAAAATAGGTGCAACC--
* *
1512744 TTACGTTAAACTAGCTATTGGTTTGTTTAAAGGTATAATAATAATGTAACCGGTTAAAATAAAAT
128 TTACG----ACTAGCTACTGG-TTGTTTAAAGGTATAATAATAATGTAAACGGTTAAAATAAAAT
* * * *
1512809 AGGCGTTACCTATTACGTTAAACTACCTACTGATTTGTTTAAAGGTATAATATTAATG
188 AAGCGATACCTATTACGTTAAACTAACTACTGATTTGTTTAAAGGTATAATATTAATA
* *
1512867 TAAATAGTAAAATATTTACAACTTAACCGGTTAAAATAAAATATGAGCTATC-TATTACGTTAAA
1 TAAACAGTAAAATATTTACAAC-TAACCGGTTAAAATAAAATATGAGC-AACATATTACGTTAAA
* ** * * * * *
1512931 TTATTTACCGCTTTGTTTAAAGGTATAATAACAATGTAAACGGTAAAATAAAATAGGTGCTACCT
64 CTAGCTATCGGTTTGTTTAAAGGTATAATAATAATGTAAACGATAAAATAAAATAGGTGCAACC-
* * ** * *
1512996 ATTACGTTAAACTACCTACCGGTGTGTTTAAATATATAATAATAATGTAACCGATTAAAATAAAA
128 -TTACG----ACTAGCTACTGGT-TGTTTAAAGGTATAATAATAATGTAAACGGTTAAAATAAAA
1513061 TA
187 TA
1513063 TACCGATTTG
Statistics
Matches: 384, Mismatches: 40, Indels: 33
0.84 0.09 0.07
Matches are distributed among these distances:
236 1 0.00
237 91 0.24
238 21 0.05
241 2 0.01
242 1 0.00
247 3 0.01
248 4 0.01
249 1 0.00
250 2 0.01
251 31 0.08
252 76 0.20
253 149 0.39
254 2 0.01
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.33
Consensus pattern (245 bp):
TAAACAGTAAAATATTTACAACTAACCGGTTAAAATAAAATATGAGCAACATATTACGTTAAACT
AGCTATCGGTTTGTTTAAAGGTATAATAATAATGTAAACGATAAAATAAAATAGGTGCAACCTTA
CGACTAGCTACTGGTTGTTTAAAGGTATAATAATAATGTAAACGGTTAAAATAAAATAAGCGATA
CCTATTACGTTAAACTAACTACTGATTTGTTTAAAGGTATAATATTAATA
Found at i:1512846 original size:77 final size:76
Alignment explanation
Indices: 1512637--1512869 Score: 315
Period size: 77 Copynumber: 3.0 Consensus size: 76
1512627 TATTTACAAC
* * * *
1512637 TAACCGGTTAATATAAAATATGTGCAACATATTACGTTAAACTAGCTATCGGTTTGTTTAAAGGT
1 TAACCGGTTAAAATAAAATAGGCGCAACCTATTACGTTAAACTAGCTAT-GGTTTGTTTAAAGGT
*
1512702 ATAATAATAATA
65 ATAATAATAATG
* * *
1512714 TAAACAG-TAAAATAAAATAGGCACAACCTATTACGTTAAACTAGCTATTGGTTTGTTTAAAGGT
1 TAACCGGTTAAAATAAAATAGGCGCAACCTATTACGTTAAACTAGCTA-TGGTTTGTTTAAAGGT
1512778 ATAATAATAATG
65 ATAATAATAATG
** * *
1512790 TAACCGGTTAAAATAAAATAGGCGTTACCTATTACGTTAAACTACCTACTGATTTGTTTAAAGGT
1 TAACCGGTTAAAATAAAATAGGCGCAACCTATTACGTTAAACTAGCTA-TGGTTTGTTTAAAGGT
*
1512855 ATAATATTAATG
65 ATAATAATAATG
1512867 TAA
1 TAA
1512870 ATAGTAAAAT
Statistics
Matches: 137, Mismatches: 17, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
76 66 0.48
77 71 0.52
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.34
Consensus pattern (76 bp):
TAACCGGTTAAAATAAAATAGGCGCAACCTATTACGTTAAACTAGCTATGGTTTGTTTAAAGGTA
TAATAATAATG
Found at i:1512967 original size:100 final size:100
Alignment explanation
Indices: 1512790--1512980 Score: 265
Period size: 100 Copynumber: 1.9 Consensus size: 100
1512780 AATAATAATG
* * *
1512790 TAACCGGTTAAAATAAAATAGGCGTTACCTATTACGTTAAACTACCTACTGATTTGTTTAAAGGT
1 TAACCGGTTAAAATAAAATAGGAGCTACCTATTACGTTAAACTACCTACCGATTTGTTTAAAGGT
** *
1512855 ATAATATTAATGTAAATAGTAAAATATTTACAACT
66 ATAATAACAATGTAAACAGTAAAATATTTACAACT
* * * ** *
1512890 TAACCGGTTAAAATAAAATATGAGCTATCTATTACGTTAAATTATTTACCGCTTTGTTTAAAGGT
1 TAACCGGTTAAAATAAAATAGGAGCTACCTATTACGTTAAACTACCTACCGATTTGTTTAAAGGT
*
1512955 ATAATAACAATGTAAACGGTAAAATA
66 ATAATAACAATGTAAACAGTAAAATA
1512981 AAATAGGTGC
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
100 78 1.00
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.35
Consensus pattern (100 bp):
TAACCGGTTAAAATAAAATAGGAGCTACCTATTACGTTAAACTACCTACCGATTTGTTTAAAGGT
ATAATAACAATGTAAACAGTAAAATATTTACAACT
Found at i:1513212 original size:77 final size:77
Alignment explanation
Indices: 1513122--1513273 Score: 218
Period size: 77 Copynumber: 2.0 Consensus size: 77
1513112 CAACATAGCT
* * * *
1513122 GGTTAAAATAAAATAGGTGTTACATATTACGTTAAACTACTTACATG-TTTGTTTAAA-GTTATA
1 GGTTAAAATAAAATAGGCGCTACATATTACGTTAAACTACCTAC-CGATTTGTTTAAATG-TATA
1513185 ATAATAATGTAATC
64 ATAATAATGTAATC
*
1513199 GGTTAAAATAAAATAGGCGCTACCTATTACGTTAAACTACCTACCGATTTGTTTAAATGTATAAT
1 GGTTAAAATAAAATAGGCGCTACATATTACGTTAAACTACCTACCGATTTGTTTAAATGTATAAT
*
1513264 ATTAATGTAA
66 AATAATGTAA
1513274 ACGATAAAAT
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
76 1 0.01
77 65 0.97
78 1 0.01
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (77 bp):
GGTTAAAATAAAATAGGCGCTACATATTACGTTAAACTACCTACCGATTTGTTTAAATGTATAAT
AATAATGTAATC
Found at i:1513284 original size:227 final size:227
Alignment explanation
Indices: 1512840--1513284 Score: 644
Period size: 227 Copynumber: 2.0 Consensus size: 227
1512830 ACTACCTACT
* * *
1512840 GATTTGTTTAAAGGTATAATATTAATGTAAATAGTAAAATATTTACAACTTAACCGGTTAAAATA
1 GATTTGTTAAAAGGTATAATATTAATGTAAACAGTAAAATATTTACAACATAACCGGTTAAAATA
* * *
1512905 AAATATGAGCTATCTATTACGTTAAATTATTTACCGCTTTGTTTAAAGGTATAATAACAATGTAA
66 AAATAGGAGCTATCTATTACGTTAAACTACTTACCGCTTTGTTTAAAGGTATAATAACAATGTAA
* *
1512970 ACGGTAAAATAAAATAGGTGCTACCTATTACGTTAAACTACCTACCGGTGTGTTTAAATATATAA
131 ACGGTAAAATAAAATAGGCGCTACCTATTACGTTAAACTACCTACCGATGTGTTTAAATATATAA
*
1513035 TAATAATGTAACCGATTAAAATAAAATATACC
196 TAATAATGTAAACGATTAAAATAAAATATACC
* * * *
1513067 GATTTGTTAAAATGTATAATATTAATGTAAACGGTAAAATATTTACAACATAGCTGGTTAAAATA
1 GATTTGTTAAAAGGTATAATATTAATGTAAACAGTAAAATATTTACAACATAACCGGTTAAAATA
* * * * *
1513132 AAATAGGTGTTA-CATATTACGTTAAACTACTTACATG-TTTGTTTAAAGTTATAATAATAATGT
66 AAATAGGAGCTATC-TATTACGTTAAACTACTTAC-CGCTTTGTTTAAAGGTATAATAACAATGT
* * *
1513195 AATCGGTTAAAATAAAATAGGCGCTACCTATTACGTTAAACTACCTACCGATTTGTTTAAATGTA
129 AAACGG-TAAAATAAAATAGGCGCTACCTATTACGTTAAACTACCTACCGATGTGTTTAAATATA
*
1513260 TAATATTAATGTAAACGA-TAAAATA
193 TAATAATAATGTAAACGATTAAAATA
1513285 TTTACAACCT
Statistics
Matches: 193, Mismatches: 22, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
226 1 0.01
227 121 0.63
228 71 0.37
ACGTcount: A:0.42, C:0.10, G:0.13, T:0.35
Consensus pattern (227 bp):
GATTTGTTAAAAGGTATAATATTAATGTAAACAGTAAAATATTTACAACATAACCGGTTAAAATA
AAATAGGAGCTATCTATTACGTTAAACTACTTACCGCTTTGTTTAAAGGTATAATAACAATGTAA
ACGGTAAAATAAAATAGGCGCTACCTATTACGTTAAACTACCTACCGATGTGTTTAAATATATAA
TAATAATGTAAACGATTAAAATAAAATATACC
Found at i:1513375 original size:100 final size:100
Alignment explanation
Indices: 1513198--1513391 Score: 266
Period size: 100 Copynumber: 1.9 Consensus size: 100
1513188 ATAATGTAAT
*
1513198 CGGTTAAAATAAAATAGGCGCTACCTATTACGTTAAACTACCTACCGATTTGTTTAAATGTATAA
1 CGGTTAAAATAAAATAGGCGCTACCTATTACGTTAAACTACCTACAGATTTGTTTAAATGTATAA
* *
1513263 TATTAATGTAAAC-GATAAAATATTTACAACCTAAC
66 TAATAATATAAACAG-TAAAATATTTACAACCTAAC
* * * * **
1513298 CGGTTAAGATAAAATAGGTGCTGCCTATTACGTTAAATTATGTACTAG-TTTGTTTAAATGTATA
1 CGGTTAAAATAAAATAGGCGCTACCTATTACGTTAAACTACCTAC-AGATTTGTTTAAATGTATA
*
1513362 ATAATAATATAAACAGTAAAGTATTTACAA
65 ATAATAATATAAACAGTAAAATATTTACAA
1513392 TTTAACTATT
Statistics
Matches: 82, Mismatches: 10, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
100 80 0.98
101 2 0.02
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.34
Consensus pattern (100 bp):
CGGTTAAAATAAAATAGGCGCTACCTATTACGTTAAACTACCTACAGATTTGTTTAAATGTATAA
TAATAATATAAACAGTAAAATATTTACAACCTAAC
Found at i:1520227 original size:20 final size:20
Alignment explanation
Indices: 1520202--1520239 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1520192 TTTTGGTGCA
*
1520202 GAGGGAATTGATACCCCCAT
1 GAGGGAATCGATACCCCCAT
*
1520222 GAGGGAATCGATTCCCCC
1 GAGGGAATCGATACCCCC
1520240 TTTGAAAGGG
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:0.26, C:0.29, G:0.26, T:0.18
Consensus pattern (20 bp):
GAGGGAATCGATACCCCCAT
Found at i:1524247 original size:89 final size:89
Alignment explanation
Indices: 1524135--1524298 Score: 265
Period size: 89 Copynumber: 1.8 Consensus size: 89
1524125 ATAGTGTAAT
**
1524135 AATAATTACAACTTAACCGGTTAAAATAAAATAGGCGCAACCTATTACGTTAAACTAGCTACCGA
1 AATAATTACAACTTAACCGGTTAAAATAAAATAGGCGCAAAATATTACGTTAAACTAGCTACCGA
1524200 TTTATTTAAAAATGTAAACAATAA
66 TTTATTTAAAAATGTAAACAATAA
* * * *
1524224 AATATTTACAATTTAATCGGTTAAAATAAAATAGGCGCAAAATATTACGTTAAACTAGCTACCGG
1 AATAATTACAACTTAACCGGTTAAAATAAAATAGGCGCAAAATATTACGTTAAACTAGCTACCGA
*
1524289 TTTGTTTAAA
66 TTTATTTAAA
1524299 GGTATAATAA
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
89 68 1.00
ACGTcount: A:0.44, C:0.14, G:0.12, T:0.30
Consensus pattern (89 bp):
AATAATTACAACTTAACCGGTTAAAATAAAATAGGCGCAAAATATTACGTTAAACTAGCTACCGA
TTTATTTAAAAATGTAAACAATAA
Found at i:1524371 original size:76 final size:75
Alignment explanation
Indices: 1524245--1524479 Score: 276
Period size: 76 Copynumber: 3.1 Consensus size: 75
1524235 TTTAATCGGT
* ** *
1524245 TAAAATAAAATAGGCGCAAAATATTACGTTAAACTAGCTACCGGTTTGTTTAAAGGTATAATAAT
1 TAAAATAAAATAGGTGCAACCTATTACGTTAAACTAGCTACC-ATTTGTTTAAAGGTATAATAAT
1524310 AATGTAAACGA
65 AATGTAAACGA
* *
1524321 TAAAATAAAATAGGTGCAACCTATTACGTTAAACTAGCTACTACTGTGTTTAAAGGTATAATAAT
1 TAAAATAAAATAGGTGCAACCTATTACGTTAAACTAGCTACCA-TTTGTTTAAAGGTATAATAAT
* *
1524386 AATGTAAATGT
65 AATGTAAACGA
* * * * * *
1524397 TAAAATAAAATAAGTGCTACCTA-TACCGTTAAACTAACTATCGATTTGTTTTAAGGTATAAAAA
1 TAAAATAAAATAGGTGCAACCTATTA-CGTTAAACTAGCTA-CCATTTGTTTAAAGGTATAATAA
*
1524461 TAATATAAAC-A
64 TAATGTAAACGA
1524472 GTAAAATA
1 -TAAAATA
1524480 TTTACAACTT
Statistics
Matches: 137, Mismatches: 18, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
75 2 0.01
76 133 0.97
77 2 0.01
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.31
Consensus pattern (75 bp):
TAAAATAAAATAGGTGCAACCTATTACGTTAAACTAGCTACCATTTGTTTAAAGGTATAATAATA
ATGTAAACGA
Found at i:1524568 original size:100 final size:100
Alignment explanation
Indices: 1524395--1524579 Score: 273
Period size: 100 Copynumber: 1.9 Consensus size: 100
1524385 TAATGTAAAT
* * * *
1524395 GTTAAAATAAAATAAGTGCTACCTATACCGTTAAACTAACTATCGATTTGTTTTAAGGTATAAAA
1 GTTAAAATAAAATAAGTGCAACATATACCGTTAAACTAACTATCGATTTGTTTAAAGGAATAAAA
1524460 ATAATATAAACAGTAAAATATTTACAACTTAACCG
66 ATAATATAAACAGTAAAATATTTACAACTTAACCG
* * * * *
1524495 GTTAATATAAAATATGTGCAACATATTA-CGTTAAACTAGCTATCGGTTTGTTTAAAGGAATAAT
1 GTTAAAATAAAATAAGTGCAACATA-TACCGTTAAACTAACTATCGATTTGTTTAAAGGAATAAA
1524559 AATAATATAAACAGTAAAATA
65 AATAATATAAACAGTAAAATA
1524580 AAATAGGCTC
Statistics
Matches: 75, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
100 73 0.97
101 2 0.03
ACGTcount: A:0.45, C:0.11, G:0.11, T:0.32
Consensus pattern (100 bp):
GTTAAAATAAAATAAGTGCAACATATACCGTTAAACTAACTATCGATTTGTTTAAAGGAATAAAA
ATAATATAAACAGTAAAATATTTACAACTTAACCG
Found at i:1524627 original size:76 final size:76
Alignment explanation
Indices: 1524501--1524732 Score: 315
Period size: 76 Copynumber: 3.0 Consensus size: 76
1524491 ACCGGTTAAT
* * *
1524501 ATAAAATATGTGCAACATATTACGTTAAACTAGCTA-TCGGTTTGTTTAAAGGAATAATAATAAT
1 ATAAAATAGGTGCAACCTATTACGTTAAACTAGCTACT-GGTTTGTTTAAAGGTATAATAATAAT
*
1524565 ATAAACAGTAAA
65 ATAAACGGTAAA
1524577 ATAAAATAGGCT-CAACCTATTACGTTAAACTAGCTACTGGTTTGTTTAAAGGTATAATAATAAT
1 ATAAAATAGG-TGCAACCTATTACGTTAAACTAGCTACTGGTTTGTTTAAAGGTATAATAATAAT
* *
1524641 GTAACCGGTTAAA
65 ATAAACGG-TAAA
** * * *
1524654 ATAAAATAGGTGTTACCTATTACGTTAAACTACCTACTGATTTGTTTAAAGGTATAATATTAATA
1 ATAAAATAGGTGCAACCTATTACGTTAAACTAGCTACTGGTTTGTTTAAAGGTATAATAATAATA
*
1524719 TAAATGGTAAA
66 TAAACGGTAAA
1524730 ATA
1 ATA
1524733 TTTACAACTT
Statistics
Matches: 138, Mismatches: 14, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
76 70 0.51
77 68 0.49
ACGTcount: A:0.42, C:0.10, G:0.14, T:0.34
Consensus pattern (76 bp):
ATAAAATAGGTGCAACCTATTACGTTAAACTAGCTACTGGTTTGTTTAAAGGTATAATAATAATA
TAAACGGTAAA
Found at i:1524691 original size:77 final size:77
Alignment explanation
Indices: 1524489--1524721 Score: 319
Period size: 77 Copynumber: 3.0 Consensus size: 77
1524479 ATTTACAACT
* * *
1524489 TAACCGGTTAATATAAAATATGTGCAACATATTACGTTAAACTAGCTA-TCGGTTTGTTTAAAGG
1 TAACCGGTTAAAATAAAATAGGTGCAACCTATTACGTTAAACTAGCTACT-GGTTTGTTTAAAGG
*
1524553 AATAATAATAATA
65 TATAATAATAATA
* *
1524566 TAAACAG-TAAAATAAAATAGGCT-CAACCTATTACGTTAAACTAGCTACTGGTTTGTTTAAAGG
1 TAACCGGTTAAAATAAAATAGG-TGCAACCTATTACGTTAAACTAGCTACTGGTTTGTTTAAAGG
*
1524629 TATAATAATAATG
65 TATAATAATAATA
** * *
1524642 TAACCGGTTAAAATAAAATAGGTGTTACCTATTACGTTAAACTACCTACTGATTTGTTTAAAGGT
1 TAACCGGTTAAAATAAAATAGGTGCAACCTATTACGTTAAACTAGCTACTGGTTTGTTTAAAGGT
*
1524707 ATAATATTAATA
66 ATAATAATAATA
1524719 TAA
1 TAA
1524722 ATGGTAAAAT
Statistics
Matches: 137, Mismatches: 15, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
76 66 0.48
77 71 0.52
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.34
Consensus pattern (77 bp):
TAACCGGTTAAAATAAAATAGGTGCAACCTATTACGTTAAACTAGCTACTGGTTTGTTTAAAGGT
ATAATAATAATA
Found at i:1524800 original size:253 final size:255
Alignment explanation
Indices: 1524221--1525162 Score: 1199
Period size: 253 Copynumber: 3.7 Consensus size: 255
1524211 ATGTAAACAA
* * * *
1524221 TAAAATATTTACAATTTAATCGGTTAAAATAAAATAGGCGC-AAAATATTACGTTAAACTAGCTA
1 TAAAATATTTACAACTTAACCGGTTAAAATAAAATAGGTGCTAACATATTACGTTAAACTAGCTA
1524285 CCGGTTTGTTTAAAGGTATAATAATAATGTAAAC-GATAAAATAAAATAGGTGCAACCTATTACG
66 CCGGTTTGTTTAAAGGTATAATAATAATGTAAACAGATAAAATAAAATAGGTGCAACCTATTACG
*** **
1524349 TTAAACTAGCTACTACTGTGTTTAAAGGTATAATAATAATGTAA-ATGTTAAAATAAAATAAGTG
131 TTAAACTAGCTACCGGTGTGTTTAAAGGTATAATAATAATGTAACCGGTTAAAATAAAATAAGTG
* * * * * *
1524413 CTACCTA-TACCGTTAAACTAACTA-TCGATTTGTTTTAAGGTATAAAAATAATATAAACAG
196 ATACCTATTA-CGTTAAACTACCTACT-GATTTGTTTAAAGGTATAATATTAATATAAACGG
* *
1524473 TAAAATATTTACAACTTAACCGGTTAATATAAAATATGTGC-AACATATTACGTTAAACTAGCTA
1 TAAAATATTTACAACTTAACCGGTTAAAATAAAATAGGTGCTAACATATTACGTTAAACTAGCTA
* * *
1524537 TCGGTTTGTTTAAAGGAATAATAATAATATAAACAG-TAAAATAAAATAGGCT-CAACCTATTAC
66 CCGGTTTGTTTAAAGGTATAATAATAATGTAAACAGATAAAATAAAATAGG-TGCAACCTATTAC
* * *
1524600 GTTAAACTAGCTACTGGTTTGTTTAAAGGTATAATAATAATGTAACCGGTTAAAATAAAATAGGT
130 GTTAAACTAGCTACCGGTGTGTTTAAAGGTATAATAATAATGTAACCGGTTAAAATAAAATAAGT
* *
1524665 GTTACCTATTACGTTAAACTACCTACTGATTTGTTTAAAGGTATAATATTAATATAAATGG
195 GATACCTATTACGTTAAACTACCTACTGATTTGTTTAAAGGTATAATATTAATATAAACGG
*** * * **
1524726 TAAAATATTTACAACTTAACCGGTTAAAATAAAATATAAGCTATC-TATTACGTTAAATTATTTA
1 TAAAATATTTACAACTTAACCGGTTAAAATAAAATAGGTGCTAACATATTACGTTAAACTAGCTA
* * * * *
1524790 CCGCTTTGTTTAAAAGTATAATAACAATGTAAACAG-TAAAATAAAATAGGTGCTACCTATTATG
66 CCGGTTTGTTTAAAGGTATAATAATAATGTAAACAGATAAAATAAAATAGGTGCAACCTATTACG
* ** *
1524854 TTAAACTATCTACCGGTGTGTTTAAATATATAATAATAATATAACCGGTTAAAATAAAATAAGTG
131 TTAAACTAGCTACCGGTGTGTTTAAAGGTATAATAATAATGTAACCGGTTAAAATAAAATAAGTG
* * * *
1524919 ATATCTATTACGTTAAACTACCTACCGATTTGTTGAAAGGTATAATATTAATGTAAACGG
196 ATACCTATTACGTTAAACTACCTACTGATTTGTTTAAAGGTATAATATTAATATAAACGG
* * * *
1524979 TAAAATATTTACAACATAACTGATTAAAATAAAATAGGTG-TTACATATTACGTTAAACTA-CTT
1 TAAAATATTTACAACTTAACCGGTTAAAATAAAATAGGTGCTAACATATTACGTTAAACTAGC-T
* * * * * * *
1525042 ACCTGTTTGTTTAAAGTTATAATAATAATGTAATCGGTTAAAATAAAATAGGCGCTACCTATTAC
65 ACCGGTTTGTTTAAAGGTATAATAATAATGTAAACAGATAAAATAAAATAGGTGCAACCTATTAC
* * * * * *
1525107 GTTAAACTACCTACCGATTTGTTTAAATGTATAATATTAATGTAAACGG-TAAAATA
130 GTTAAACTAGCTACCGGTGTGTTTAAAGGTATAATAATAATGTAACCGGTTAAAATA
1525163 TTTACAACCT
Statistics
Matches: 604, Mismatches: 76, Indels: 19
0.86 0.11 0.03
Matches are distributed among these distances:
252 159 0.26
253 373 0.62
254 72 0.12
ACGTcount: A:0.42, C:0.11, G:0.13, T:0.34
Consensus pattern (255 bp):
TAAAATATTTACAACTTAACCGGTTAAAATAAAATAGGTGCTAACATATTACGTTAAACTAGCTA
CCGGTTTGTTTAAAGGTATAATAATAATGTAAACAGATAAAATAAAATAGGTGCAACCTATTACG
TTAAACTAGCTACCGGTGTGTTTAAAGGTATAATAATAATGTAACCGGTTAAAATAAAATAAGTG
ATACCTATTACGTTAAACTACCTACTGATTTGTTTAAAGGTATAATATTAATATAAACGG
Found at i:1524829 original size:100 final size:100
Alignment explanation
Indices: 1524642--1524832 Score: 238
Period size: 100 Copynumber: 1.9 Consensus size: 100
1524632 AATAATAATG
** * * *
1524642 TAACCGGTTAAAATAAAATAGGTGTTACCTATTACGTTAAACTACCTACTGATTTGTTTAAAGGT
1 TAACCGGTTAAAATAAAATAGAAGCTACCTATTACGTTAAACTACCTACCGATTTGTTTAAAAGT
** **
1524707 ATAATATTAATATAAATGGTAAAATATTTACAACT
66 ATAATAACAATATAAACAGTAAAATATTTACAACT
* * * ** *
1524742 TAACCGGTTAAAATAAAATATAAGCTATCTATTACGTTAAATTATTTACCGCTTTGTTTAAAAGT
1 TAACCGGTTAAAATAAAATAGAAGCTACCTATTACGTTAAACTACCTACCGATTTGTTTAAAAGT
*
1524807 ATAATAACAATGTAAACAGTAAAATA
66 ATAATAACAATATAAACAGTAAAATA
1524833 AAATAGGTGC
Statistics
Matches: 75, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
100 75 1.00
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.35
Consensus pattern (100 bp):
TAACCGGTTAAAATAAAATAGAAGCTACCTATTACGTTAAACTACCTACCGATTTGTTTAAAAGT
ATAATAACAATATAAACAGTAAAATATTTACAACT
Found at i:1524850 original size:76 final size:76
Alignment explanation
Indices: 1524750--1524985 Score: 269
Period size: 76 Copynumber: 3.1 Consensus size: 76
1524740 CTTAACCGGT
* * * *
1524750 TAAAATAAAATATA-AGCTATCTATTACGTTAAATTATTTACCGCTTTGTTTAAAAGTATAATAA
1 TAAAATAAAATA-AGTGCTATCTATTACGTTAAACTATCTACCGATTTGTTTAAAAGTATAATAA
* *
1524814 CAATGTAAACAG
65 TAATGTAAACGG
* * * * *
1524826 TAAAATAAAATAGGTGCTACCTATTATGTTAAACTATCTACCGGTGTGTTTAAATA-TATAATAA
1 TAAAATAAAATAAGTGCTATCTATTACGTTAAACTATCTACCGATTTGTTTAAA-AGTATAATAA
* *
1524890 TAATATAACCGG
65 TAATGTAAACGG
* * * * *
1524902 TTAAAATAAAATAAGTGATATCTATTACGTTAAACTACCTACCGATTTGTTGAAAGGTATAATAT
1 -TAAAATAAAATAAGTGCTATCTATTACGTTAAACTATCTACCGATTTGTTTAAAAGTATAATAA
1524967 TAATGTAAACGG
65 TAATGTAAACGG
1524979 TAAAATA
1 TAAAATA
1524986 TTTACAACAT
Statistics
Matches: 132, Mismatches: 24, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
76 68 0.52
77 64 0.48
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.34
Consensus pattern (76 bp):
TAAAATAAAATAAGTGCTATCTATTACGTTAAACTATCTACCGATTTGTTTAAAAGTATAATAAT
AATGTAAACGG
Found at i:1525037 original size:177 final size:176
Alignment explanation
Indices: 1524826--1525251 Score: 620
Period size: 177 Copynumber: 2.4 Consensus size: 176
1524816 ATGTAAACAG
* * *
1524826 TAAAATAAAATAGGTGCTACCTATTATGTTAAACTATCTACCGGTGTGTTTAAATATATAATAAT
1 TAAAATAAAATAGGTGCTACCTATTACGTTAAACTATCTACCAGTTTGTTTAAAT-TATAATAAT
* *
1524891 AATATAACCGGTTAAAATAAAATAAGTGATATCTATTACGTTAAACTACCTACCGATTTGTTGAA
65 AATATAACCGGTTAAAATAAAATAAGCGATACCTATTACGTTAAACTACCTACCGATTTGTTGAA
*
1524956 AGGTATAATATTAATGTAAACGGTAAAATATTTACAACATAACTGAT
130 AGGTATAATATTAATGTAAACGGTAAAATATTTACAACATAACCGAT
* * *
1525003 TAAAATAAAATAGGTGTTACATATTACGTTAAACTA-CTTACCTGTTTGTTTAAAGTTATAATAA
1 TAAAATAAAATAGGTGCTACCTATTACGTTAAACTATC-TACCAGTTTGTTTAAA-TTATAATAA
* * * * *
1525067 TAATGTAATCGGTTAAAATAAAATAGGCGCTACCTATTACGTTAAACTACCTACCGATTTGTTTA
64 TAATATAACCGGTTAAAATAAAATAAGCGATACCTATTACGTTAAACTACCTACCGATTTGTTGA
* *
1525132 AATGTATAATATTAATGTAAACGGTAAAATATTTACAACCTAACCGAT
129 AAGGTATAATATTAATGTAAACGGTAAAATATTTACAACATAACCGAT
* * * * *
1525180 TAAGATAAAATAGGTGCTACCTATTACGTTAAATTATGTACCAATTTGTTTAAAGGTATAATAAT
1 TAAAATAAAATAGGTGCTACCTATTACGTTAAACTATCTACCAGTTTGTTTAAA-TTATAATAAT
1525245 AATATAA
65 AATATAA
1525252 ACAGTAAAGT
Statistics
Matches: 222, Mismatches: 24, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
176 1 0.00
177 220 0.99
178 1 0.00
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.35
Consensus pattern (176 bp):
TAAAATAAAATAGGTGCTACCTATTACGTTAAACTATCTACCAGTTTGTTTAAATTATAATAATA
ATATAACCGGTTAAAATAAAATAAGCGATACCTATTACGTTAAACTACCTACCGATTTGTTGAAA
GGTATAATATTAATGTAAACGGTAAAATATTTACAACATAACCGAT
Found at i:1525071 original size:100 final size:101
Alignment explanation
Indices: 1524902--1525086 Score: 268
Period size: 100 Copynumber: 1.8 Consensus size: 101
1524892 ATATAACCGG
*
1524902 TTAAAATAAAATAAGTGATATCTATTACGTTAAACTACCTACCGATTTGTTGAAAGGTATAATAT
1 TTAAAATAAAATAAGTGATATCTATTACGTTAAACTACCTACCGATTTGTTGAAAGGTATAATAA
1524967 TAATGTAAACGG-TAAAATATTTACAACATAACTGA
66 TAATGTAAACGGTTAAAATATTTACAACATAACTGA
* * * * *
1525002 TTAAAATAAAATAGGTGTTA-CATATTACGTTAAACTACTTACCTG-TTTGTTTAAAGTTATAAT
1 TTAAAATAAAATAAGTGATATC-TATTACGTTAAACTACCTACC-GATTTGTTGAAAGGTATAAT
*
1525065 AATAATGTAATCGGTTAAAATA
64 AATAATGTAAACGGTTAAAATA
1525087 AAATAGGCGC
Statistics
Matches: 75, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
99 1 0.01
100 66 0.88
101 8 0.11
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.36
Consensus pattern (101 bp):
TTAAAATAAAATAAGTGATATCTATTACGTTAAACTACCTACCGATTTGTTGAAAGGTATAATAA
TAATGTAAACGGTTAAAATATTTACAACATAACTGA
Found at i:1525129 original size:77 final size:77
Alignment explanation
Indices: 1525002--1525162 Score: 229
Period size: 77 Copynumber: 2.1 Consensus size: 77
1524992 ACATAACTGA
* * *
1525002 TTAAAATAAAATAGGTGTTACATATTACGTTAAACTACTTACCTGTTTGTTTAAA-GTTATAATA
1 TTAAAATAAAATAGGCGCTACATATTACGTTAAACTACCTACCTGTTTGTTTAAATG-TATAATA
*
1525066 ATAATGTAATCGG
65 ATAATGTAAACGG
*
1525079 TTAAAATAAAATAGGCGCTACCTATTACGTTAAACTACCTACC-GATTTGTTTAAATGTATAATA
1 TTAAAATAAAATAGGCGCTACATATTACGTTAAACTACCTACCTG-TTTGTTTAAATGTATAATA
*
1525143 TTAATGTAAACGG
65 ATAATGTAAACGG
1525156 -TAAAATA
1 TTAAAATA
1525163 TTTACAACCT
Statistics
Matches: 76, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
76 8 0.11
77 67 0.88
78 1 0.01
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.36
Consensus pattern (77 bp):
TTAAAATAAAATAGGCGCTACATATTACGTTAAACTACCTACCTGTTTGTTTAAATGTATAATAA
TAATGTAAACGG
Found at i:1525259 original size:100 final size:100
Alignment explanation
Indices: 1525079--1525275 Score: 286
Period size: 100 Copynumber: 2.0 Consensus size: 100
1525069 ATGTAATCGG
* * *
1525079 TTAAAATAAAATAGGCGCTACCTATTACGTTAAACTACCTACCGATTTGTTTAAATGTATAATAT
1 TTAAAATAAAATAGGCGCTACCTATTACGTTAAACTACCTACCAATTTGTTTAAAGGTATAATAA
* *
1525144 TAATGTAAACGGTAAAATATTTACAACCTAACCGA
66 TAATATAAACAGTAAAATATTTACAACCTAACCGA
* * * **
1525179 TTAAGATAAAATAGGTGCTACCTATTACGTTAAATTATGTACCAATTTGTTTAAAGGTATAATAA
1 TTAAAATAAAATAGGCGCTACCTATTACGTTAAACTACCTACCAATTTGTTTAAAGGTATAATAA
* *
1525244 TAATATAAACAGTAAAGTATTTACAACTTAAC
66 TAATATAAACAGTAAAATATTTACAACCTAAC
1525276 TATTTGAAAT
Statistics
Matches: 85, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
100 85 1.00
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.34
Consensus pattern (100 bp):
TTAAAATAAAATAGGCGCTACCTATTACGTTAAACTACCTACCAATTTGTTTAAAGGTATAATAA
TAATATAAACAGTAAAATATTTACAACCTAACCGA
Found at i:1527631 original size:98 final size:97
Alignment explanation
Indices: 1527462--1527656 Score: 345
Period size: 98 Copynumber: 2.0 Consensus size: 97
1527452 TTACCGTAAG
1527462 CATTCCCAAGTCGGCCTTAATTATTAAGGTGGAGTTTCTATATTAATCATTTATATATAAATTCA
1 CATTCCCAAGTCGGCCTTAATTATTAAGGTGGAGTTTCTATATTAATCATTTATATATAAATTCA
1527527 TGTTTGGTTGTTGCCCTTAGAAATTTCGAATTC
66 TGTTTGGTTGTTG-CCTTAGAAATTTCGAATTC
* *
1527560 CATTCCCAAGTCGGTCTTAATTATTAAGGTGGAGTTTCTATATTAATCATTTATATGTAAATTCA
1 CATTCCCAAGTCGGCCTTAATTATTAAGGTGGAGTTTCTATATTAATCATTTATATATAAATTCA
* *
1527625 TTTTTGGTTGTTGCCTTAGAAGTTTCGAATTC
66 TGTTTGGTTGTTGCCTTAGAAATTTCGAATTC
1527657 GAATACCAAT
Statistics
Matches: 93, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
97 18 0.19
98 75 0.81
ACGTcount: A:0.27, C:0.14, G:0.16, T:0.43
Consensus pattern (97 bp):
CATTCCCAAGTCGGCCTTAATTATTAAGGTGGAGTTTCTATATTAATCATTTATATATAAATTCA
TGTTTGGTTGTTGCCTTAGAAATTTCGAATTC
Found at i:1536587 original size:14 final size:15
Alignment explanation
Indices: 1536570--1536601 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
1536560 TTTTGGTGGG
1536570 TTTTTTTTTTA-ATT
1 TTTTTTTTTTACATT
1536584 TTTTTTTTTTACATT
1 TTTTTTTTTTACATT
1536599 TTT
1 TTT
1536602 CACTTCATAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.12, C:0.03, G:0.00, T:0.84
Consensus pattern (15 bp):
TTTTTTTTTTACATT
Found at i:1545242 original size:39 final size:39
Alignment explanation
Indices: 1545199--1545273 Score: 134
Period size: 39 Copynumber: 1.9 Consensus size: 39
1545189 TTCGGCTACC
1545199 GATCGAACCGAA-TTTCTATTAATCGAATTAATCGAAACT
1 GATCGAACCGAATTTTC-ATTAATCGAATTAATCGAAACT
1545238 GATCGAACCGAATTTTCATTAATCGAATTAATCGAA
1 GATCGAACCGAATTTTCATTAATCGAATTAATCGAA
1545274 TTTTTTTTCT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
39 31 0.89
40 4 0.11
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.31
Consensus pattern (39 bp):
GATCGAACCGAATTTTCATTAATCGAATTAATCGAAACT
Found at i:1547177 original size:14 final size:14
Alignment explanation
Indices: 1547160--1547195 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
1547150 AAAAAATAGA
1547160 AAATTAAAGTAA-TG
1 AAATTAAAG-AATTG
1547174 AAATTAAAGAATTG
1 AAATTAAAGAATTG
1547188 AAATTAAA
1 AAATTAAA
1547196 TAAATAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 2 0.10
14 19 0.90
ACGTcount: A:0.61, C:0.00, G:0.11, T:0.28
Consensus pattern (14 bp):
AAATTAAAGAATTG
Found at i:1547233 original size:26 final size:25
Alignment explanation
Indices: 1547193--1547250 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 25
1547183 AATTGAAATT
*
1547193 AAAT-AAATAAAAAGTAAATGACATA
1 AAATAAAATAAAAAGTAAAGGAC-TA
* *
1547218 AATTAAAATATAAAGTAAAGGACTA
1 AAATAAAATAAAAAGTAAAGGACTA
1547243 AAATAAAA
1 AAATAAAA
1547251 AATTGAAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 12 0.43
26 16 0.57
ACGTcount: A:0.67, C:0.03, G:0.09, T:0.21
Consensus pattern (25 bp):
AAATAAAATAAAAAGTAAAGGACTA
Found at i:1547260 original size:33 final size:33
Alignment explanation
Indices: 1547217--1547283 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
1547207 TAAATGACAT
*
1547217 AAATTAAAATATAAAGTAAAGGACTAAAATAAA
1 AAATTAAAATATAAAGTAAAGAACTAAAATAAA
*
1547250 AAATTGAAATATAAAGTAAAGAACTAAAATAAA
1 AAATTAAAATATAAAGTAAAGAACTAAAATAAA
1547283 A
1 A
1547284 GATATCATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.67, C:0.03, G:0.09, T:0.21
Consensus pattern (33 bp):
AAATTAAAATATAAAGTAAAGAACTAAAATAAA
Found at i:1548806 original size:73 final size:73
Alignment explanation
Indices: 1548686--1549306 Score: 1013
Period size: 73 Copynumber: 8.6 Consensus size: 73
1548676 ATTCTGGAAA
**
1548686 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGTTATTTTGAGTGAAACTTTCTCAAGCGAG
1 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGTTATTTCAAGTGAAACTTTCTCAAGCGAG
1548751 AAACAGTT
66 AAACAGTT
* *
1548759 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAACTTTCTCAAGCGAG
1 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGTTATTTCAAGTGAAACTTTCTCAAGCGAG
1548824 -AACAGTT
66 AAACAGTT
* *
1548831 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGTTATTTCGAGTGAAACTTTCTCAAGCGAA
1 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGTTATTTCAAGTGAAACTTTCTCAAGCGAG
*
1548896 AAAAAGTT
66 AAACAGTT
*
1548904 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGTTATTTCGAGTGAAACTTTCTCAAGCGAG
1 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGTTATTTCAAGTGAAACTTTCTCAAGCGAG
1548969 AAA-AGGTT
66 AAACA-GTT
1548977 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGTTATTTCAAGTGAAACTTTCTCAAGCGAG
1 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGTTATTTCAAGTGAAACTTTCTCAAGCGAG
*
1549042 AAACAATT
66 AAACAGTT
1549050 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGTTATTTCAAGTGAAACTTTCTCAAGCGAG
1 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGTTATTTCAAGTGAAACTTTCTCAAGCGAG
*
1549115 -AACATTT
66 AAACAGTT
* *
1549122 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTTTCTCAAGTGAG
1 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGTTATTTCAAGTGAAACTTTCTCAAGCGAG
*
1549187 AAACAATT
66 AAACAGTT
* * *
1549195 TGTTTTAAGGAAAAA-TATCTCAAGTGAGATAAATTGCTATTTCAAGTG--A-TTTCTCCAGCGA
1 TGTTTTAA-GAAAAACAATCTCAAGTGAGATAAATTGTTATTTCAAGTGAAACTTTCTCAAGCGA
*
1549256 GAAACATTT
65 GAAACAGTT
*
1549265 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTT
1 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGTTATTT
1549307 GAAAACATCT
Statistics
Matches: 525, Mismatches: 17, Indels: 15
0.94 0.03 0.03
Matches are distributed among these distances:
69 6 0.01
70 52 0.10
71 1 0.00
72 140 0.27
73 319 0.61
74 7 0.01
ACGTcount: A:0.39, C:0.12, G:0.17, T:0.32
Consensus pattern (73 bp):
TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGTTATTTCAAGTGAAACTTTCTCAAGCGAG
AAACAGTT
Found at i:1548949 original size:145 final size:145
Alignment explanation
Indices: 1548686--1549306 Score: 1000
Period size: 145 Copynumber: 4.3 Consensus size: 145
1548676 ATTCTGGAAA
**
1548686 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGTTATTTTGAGTGAAACTTTCTCAAGCGAG
1 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGTTATTTCAAGTGAAACTTTCTCAAGCGAG
* * *
1548751 AAACAGTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAACTTTCT
66 AAAAAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTTTCT
1548816 CAAGCGAGAACAGTT
131 CAAGCGAGAACAGTT
*
1548831 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGTTATTTCGAGTGAAACTTTCTCAAGCGA-
1 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGTTATTTCAAGTGAAACTTTCTCAAGCGAG
* *
1548895 AAAAAAGTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGTTATTTCGAGTGAAACTTTC
66 AAAAAA-TTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTTTC
*
1548960 TCAAGCGAGAAAAGGTT
130 TCAAGCGAGAACA-GTT
1548977 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGTTATTTCAAGTGAAACTTTCTCAAGCGAG
1 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGTTATTTCAAGTGAAACTTTCTCAAGCGAG
* *
1549042 AAACAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGTTATTTCAAGTGAAACTTTCT
66 AAAAAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTTTCT
*
1549107 CAAGCGAGAACATTT
131 CAAGCGAGAACAGTT
* *
1549122 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTTTCTCAAGTGAG
1 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGTTATTTCAAGTGAAACTTTCTCAAGCGAG
* *
1549187 AAACAATTTGTTTTAAGGAAAAA-TATCTCAAGTGAGATAAATTGCTATTTCAAGTG--A-TTTC
66 AAAAAATTTGTTTTAA-GAAAAACAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTTTC
* *
1549248 TCCAGCGAGAAACATTT
130 TCAAGCGAG-AACAGTT
*
1549265 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTT
1 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGTTATTT
1549307 GAAAACATCT
Statistics
Matches: 456, Mismatches: 15, Indels: 12
0.94 0.03 0.02
Matches are distributed among these distances:
142 12 0.03
143 50 0.11
144 4 0.01
145 244 0.54
146 141 0.31
147 5 0.01
ACGTcount: A:0.39, C:0.12, G:0.17, T:0.32
Consensus pattern (145 bp):
TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGTTATTTCAAGTGAAACTTTCTCAAGCGAG
AAAAAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTTTCT
CAAGCGAGAACAGTT
Found at i:1549126 original size:218 final size:219
Alignment explanation
Indices: 1548686--1549306 Score: 1031
Period size: 218 Copynumber: 2.9 Consensus size: 219
1548676 ATTCTGGAAA
*
1548686 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGTTATTTTGAGTGAAACTTTCTCAAGCGAG
1 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGTTATTTCGAGTGAAACTTTCTCAAGCGAG
*
1548751 AAACAGTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCGAGTGAAACTTTCT
66 AAACAGTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTTTCT
* *
1548816 CAAGCGAG-AACAGTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGTTATTTCGAGTGA
131 CAAGCGAGAAACAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGTTATTTCAAGTGA
1548880 AACTTTCTCAAGCGAAAAAAAGTT
196 AACTTTCTCAAGCGAAAAAAAGTT
1548904 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGTTATTTCGAGTGAAACTTTCTCAAGCGAG
1 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGTTATTTCGAGTGAAACTTTCTCAAGCGAG
*
1548969 AAA-AGGTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGTTATTTCAAGTGAAACTTTC
66 AAACA-GTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTTTC
1549033 TCAAGCGAGAAACAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGTTATTTCAAGTG
130 TCAAGCGAGAAACAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGTTATTTCAAGTG
* * *
1549098 AAACTTTCTCAAGCG-AGAACATTT
195 AAACTTTCTCAAGCGAAAAAAAGTT
* * *
1549122 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTTTCTCAAGTGAG
1 TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGTTATTTCGAGTGAAACTTTCTCAAGCGAG
* *
1549187 AAACAATTTGTTTTAAGGAAAAA-TATCTCAAGTGAGATAAATTGCTATTTCAAGTG--A-TTTC
66 AAACAGTTTGTTTTAA-GAAAAACAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTTTC
* * *
1549248 TCCAGCGAGAAACATTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTT
130 TCAAGCGAGAAACAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGTTATTT
1549307 GAAAACATCT
Statistics
Matches: 382, Mismatches: 17, Indels: 11
0.93 0.04 0.03
Matches are distributed among these distances:
215 60 0.16
216 1 0.00
217 1 0.00
218 245 0.64
219 75 0.20
ACGTcount: A:0.39, C:0.12, G:0.17, T:0.32
Consensus pattern (219 bp):
TGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGTTATTTCGAGTGAAACTTTCTCAAGCGAG
AAACAGTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGCTATTTCAAGTGAAACTTTCT
CAAGCGAGAAACAATTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTGTTATTTCAAGTGA
AACTTTCTCAAGCGAAAAAAAGTT
Done.