Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold323
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: 1512004
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 9
Found at i:1227564 original size:96 final size:96
Alignment explanation
Indices: 1227305--1227567 Score: 341
Period size: 96 Copynumber: 2.8 Consensus size: 96
1227295 AAGTCTGATA
* * * * * * * *
1227305 TCGCTAGCATTGAATCAACACATTGTCCTCCTTT--ATTAGGTCAATGTCACTGGCCTTGAATCA
1 TCGCTGGCCTTGAATCAACACATTATCCACTTTTCCCTTAGCTCAATGTCGCTGGCCTTGAATCA
*
1227368 GCACATTATCCACTTTTCCCTTAGCTCAATG
66 GCACATTGTCCACTTTTCCCTTAGCTCAATG
* *
1227399 TCGCTGGCCTTGAATCAACACATTGTCCACTTTTCCCTTAGCTCAATGTCGCTGGCCTTAAATCA
1 TCGCTGGCCTTGAATCAACACATTATCCACTTTTCCCTTAGCTCAATGTCGCTGGCCTTGAATCA
1227464 GCACATTGTCCACTTTTCCCTTAGCTCAATG
66 GCACATTGTCCACTTTTCCCTTAGCTCAATG
* * * ** * **
1227495 TCGCTGGCCTTGAATGAGCACATTATCCATTTTTCCCTTAGCTTGATGTCGTTGGCCTTGAATTG
1 TCGCTGGCCTTGAATCAACACATTATCCACTTTTCCCTTAGCTCAATGTCGCTGGCCTTGAATCA
1227560 GCACATTG
66 GCACATTG
1227568 GCACTCCTCT
Statistics
Matches: 148, Mismatches: 19, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
94 30 0.20
96 118 0.80
ACGTcount: A:0.21, C:0.28, G:0.16, T:0.35
Consensus pattern (96 bp):
TCGCTGGCCTTGAATCAACACATTATCCACTTTTCCCTTAGCTCAATGTCGCTGGCCTTGAATCA
GCACATTGTCCACTTTTCCCTTAGCTCAATG
Found at i:1228598 original size:13 final size:13
Alignment explanation
Indices: 1228577--1228607 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1228567 CGATACATGG
*
1228577 TACAATGTATCGA
1 TACATTGTATCGA
1228590 TACATTGTATCGA
1 TACATTGTATCGA
1228603 TACAT
1 TACAT
1228608 ACTGAAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:1228598 original size:33 final size:33
Alignment explanation
Indices: 1228561--1228627 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 33
1228551 CTATCACTAT
**
1228561 TTGTATCGATACATGGT-ACAATGTATCGATACA
1 TTGTATCGATACATACTGA-AATGTATCGATACA
1228594 TTGTATCGATACATACTGAAATGTATCGATACA
1 TTGTATCGATACATACTGAAATGTATCGATACA
1228627 T
1 T
1228628 AACTTGTAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 30 0.97
34 1 0.03
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.34
Consensus pattern (33 bp):
TTGTATCGATACATACTGAAATGTATCGATACA
Found at i:1236622 original size:22 final size:22
Alignment explanation
Indices: 1236597--1236638 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
1236587 TTTTCTATTA
1236597 TTTGATGAAGGGGGAGAATTGC
1 TTTGATGAAGGGGGAGAATTGC
*
1236619 TTTGATTAAGGGGGAGAATT
1 TTTGATGAAGGGGGAGAATT
1236639 TTTTAAAGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.29, C:0.02, G:0.38, T:0.31
Consensus pattern (22 bp):
TTTGATGAAGGGGGAGAATTGC
Found at i:1236901 original size:13 final size:13
Alignment explanation
Indices: 1236883--1236911 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
1236873 ATACATATTG
1236883 CATTGTATCGATA
1 CATTGTATCGATA
1236896 CATTGTATCGATA
1 CATTGTATCGATA
1236909 CAT
1 CAT
1236912 GCTCATTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:1236924 original size:32 final size:33
Alignment explanation
Indices: 1236866--1236930 Score: 105
Period size: 32 Copynumber: 2.0 Consensus size: 33
1236856 CACACCCAGA
*
1236866 TGTATCGATACATATTGCATTGTATCGATACAT
1 TGTATCGATACATACTGCATTGTATCGATACAT
*
1236899 TGTATCGATACATGCT-CATTGTATCGATACAT
1 TGTATCGATACATACTGCATTGTATCGATACAT
1236931 GGACAATTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 16 0.53
33 14 0.47
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.38
Consensus pattern (33 bp):
TGTATCGATACATACTGCATTGTATCGATACAT
Found at i:1236941 original size:20 final size:19
Alignment explanation
Indices: 1236895--1236951 Score: 87
Period size: 19 Copynumber: 2.9 Consensus size: 19
1236885 TTGTATCGAT
1236895 ACATTGTATCGATACATGC
1 ACATTGTATCGATACATGC
* *
1236914 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGC
1236933 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
1236952 AGATTGGCAG
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 18 0.53
20 16 0.47
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Consensus pattern (19 bp):
ACATTGTATCGATACATGC
Found at i:1237017 original size:13 final size:13
Alignment explanation
Indices: 1236996--1237026 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1236986 CGATACATGG
*
1236996 TACAATGTATCGA
1 TACATTGTATCGA
1237009 TACATTGTATCGA
1 TACATTGTATCGA
1237022 TACAT
1 TACAT
1237027 GCTAAAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:1237022 original size:33 final size:33
Alignment explanation
Indices: 1236980--1237046 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
1236970 CTATCACTAT
* *
1236980 TTGTATCGATACATGGTACAATGTATCGATACA
1 TTGTATCGATACATGCTAAAATGTATCGATACA
1237013 TTGTATCGATACATGCTAAAATGTATCGATACA
1 TTGTATCGATACATGCTAAAATGTATCGATACA
1237046 T
1 T
1237047 AGCTTGTAAC
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:0.34, C:0.15, G:0.16, T:0.34
Consensus pattern (33 bp):
TTGTATCGATACATGCTAAAATGTATCGATACA
Found at i:1239875 original size:31 final size:31
Alignment explanation
Indices: 1239837--1239909 Score: 137
Period size: 31 Copynumber: 2.4 Consensus size: 31
1239827 TACATTATTC
*
1239837 AATGTATCGATACATCTGGGTAAAAAGATAG
1 AATGTATCGATACATCTGGGTAAAAAGACAG
1239868 AATGTATCGATACATCTGGGTAAAAAGACAG
1 AATGTATCGATACATCTGGGTAAAAAGACAG
1239899 AATGTATCGAT
1 AATGTATCGAT
1239910 GCATTGAAGA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.41, C:0.11, G:0.22, T:0.26
Consensus pattern (31 bp):
AATGTATCGATACATCTGGGTAAAAAGACAG
Found at i:1239922 original size:20 final size:20
Alignment explanation
Indices: 1239897--1239973 Score: 93
Period size: 20 Copynumber: 3.9 Consensus size: 20
1239887 GTAAAAAGAC
*
1239897 AGAATGTATCGATGCATTGA
1 AGAATGTATCGATACATTGA
*
1239917 AGAATGTATCGATACATTCA
1 AGAATGTATCGATACATTGA
*
1239937 TA-CATGTATCGATACATTGA
1 -AGAATGTATCGATACATTGA
* *
1239957 AAAATATATCGATACAT
1 AGAATGTATCGATACAT
1239974 CTGGGTAAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
19 1 0.02
20 47 0.96
21 1 0.02
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.31
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:1239992 original size:71 final size:71
Alignment explanation
Indices: 1239917--1240127 Score: 305
Period size: 71 Copynumber: 3.0 Consensus size: 71
1239907 GATGCATTGA
*
1239917 AGAATGTATCGATACATTCATACATGTATCGATACATTGAAAAATATATCGATACATCTGGGTAA
1 AGAATGTATCGATACATTCATACATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAA
*
1239982 AAAGAT
66 AAAGAC
* * * ** * *
1239988 AGAATGTATCAATACATTCATACATGTATTGATACATTGAAAAATGTATCAATATGTATGGATAA
1 AGAATGTATCGATACATTCATACATGTATCGATACATTGAAAAATGTATCGATACATCTGGGT-A
1240053 AAAAGAC
65 AAAAGAC
* * *
1240060 AGAATGTATCGATATATTCATACATGTATCGATATATTAAAAAATGTATCGATACATCTGGGTAA
1 AGAATGTATCGATACATTCATACATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAA
1240125 AAA
66 AAA
1240128 TATGACTTTT
Statistics
Matches: 120, Mismatches: 19, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
71 60 0.50
72 60 0.50
ACGTcount: A:0.44, C:0.11, G:0.15, T:0.31
Consensus pattern (71 bp):
AGAATGTATCGATACATTCATACATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAA
AAAGAC
Found at i:1240016 original size:20 final size:20
Alignment explanation
Indices: 1239990--1240041 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
1239980 AAAAAGATAG
*
1239990 AATGTATCAATACATTCATA
1 AATGTATCAATACATTCAAA
* ** *
1240010 CATGTATTGATACATTGAAA
1 AATGTATCAATACATTCAAA
1240030 AATGTATCAATA
1 AATGTATCAATA
1240042 TGTATGGATA
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.44, C:0.12, G:0.10, T:0.35
Consensus pattern (20 bp):
AATGTATCAATACATTCAAA
Found at i:1240035 original size:91 final size:91
Alignment explanation
Indices: 1239872--1240037 Score: 235
Period size: 91 Copynumber: 1.8 Consensus size: 91
1239862 AGATAGAATG
* * *
1239872 TATCGATACATCTGGGTAAAAAGACAGAATGTATCGATGCATTGAAGAATGTATCGATACATTCA
1 TATCGATACATCTGGGTAAAAAGACAGAATGTATCAATACATTCAAGAATGTATCGATACATTCA
* *
1239937 TACATGTATCGATACATTGAAAAATA
66 AAAATGTATCGATACATTGAAAAATA
* * * *
1239963 TATCGATACATCTGGGTAAAAAGATAGAATGTATCAATACATTCATA-CATGTATTGATACATTG
1 TATCGATACATCTGGGTAAAAAGACAGAATGTATCAATACATTCA-AGAATGTATCGATACATTC
1240027 AAAAATGTATC
65 AAAAATGTATC
1240038 AATATGTATG
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
91 64 0.98
92 1 0.02
ACGTcount: A:0.41, C:0.13, G:0.16, T:0.30
Consensus pattern (91 bp):
TATCGATACATCTGGGTAAAAAGACAGAATGTATCAATACATTCAAGAATGTATCGATACATTCA
AAAATGTATCGATACATTGAAAAATA
Found at i:1240088 original size:20 final size:20
Alignment explanation
Indices: 1240062--1240113 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
1240052 AAAAAGACAG
* *
1240062 AATGTATCGATATATTCATA
1 AATGTATCGATATATTAAAA
*
1240082 CATGTATCGATATATTAAAA
1 AATGTATCGATATATTAAAA
1240102 AATGTATCGATA
1 AATGTATCGATA
1240114 CATCTGGGTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.42, C:0.10, G:0.12, T:0.37
Consensus pattern (20 bp):
AATGTATCGATATATTAAAA
Found at i:1240959 original size:20 final size:20
Alignment explanation
Indices: 1240913--1240967 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
1240903 GTATCGATAC
* **
1240913 ATTGTATCAATAAATGTTCA
1 ATTGTATCAATACATGGACA
1240933 A-TGTATCAATACATGGACA
1 ATTGTATCAATACATGGACA
*
1240952 ATTGTATCGATACATG
1 ATTGTATCAATACATG
1240968 AAACTGCCAG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.35
Consensus pattern (20 bp):
ATTGTATCAATACATGGACA
Found at i:1244778 original size:167 final size:166
Alignment explanation
Indices: 1244539--1245019 Score: 594
Period size: 167 Copynumber: 2.9 Consensus size: 166
1244529 TTCTTCTCTG
*
1244539 TAAAT-TTTTTCAAGAGGATTTTTCTTAGTTTTTAATTTTTAAAATTCATCAAATATTATAATTT
1 TAAATATTTTTGAAG-GGATTTTTCTTAGTTTTTAATTTTTAAAATTCATCAAATATTATAATTT
* * *
1244603 AATTCATATTAAATTATTTTTGAAAAACTAATTCATTTTCATAAGTTTTCAAATTTTTTCTTTGA
65 AATTCATATTAAATCAGTTTTGAAAAATTAATTCATTTTCATAAGTTTTC-AATTTTTTCTTTGA
** * *
1244668 AATTCCTTTTTTTTTGAATTACGAAG-TTTCTACTTCG
129 AATTCCTTTTTTTTCAAATTACGAAGTTTTCTACTCCA
* * * *
1244705 TAAATATTTTTGAGGGGATTTTTCTTGGTTTTTAATTTTTTTAAATTCATCAAATATTATATTTT
1 TAAATATTTTTGAAGGGATTTTTCTTAGTTTTTAA-TTTTTAAAATTCATCAAATATTATAATTT
* ** ** * *
1244770 AGTTCATATTAAATCAGTTTTGAATTATTTTTTCATTTTCATAACTTTTTCAATTTTTTCTTGGA
65 AATTCATATTAAATCAGTTTTGAAAAATTAATTCATTTTCATAA-GTTTTCAATTTTTTCTTTGA
*
1244835 AATTTCC-TTTTTTTCAAATTACGGAGTTTTCTACTCCA
129 AA-TTCCTTTTTTTTCAAATTACGAAGTTTTCTACTCCA
* * * *
1244873 TAAATATTTTTGAATGAATTTTTCTTAGTTATTAATTTTTAAAATTCATGAAATATTATAATTTA
1 TAAATATTTTTGAAGGGATTTTTCTTAGTTTTTAATTTTTAAAATTCATCAAATATTATAATTTA
* * * * *
1244938 ATTCATATTAAATCAGATTTGAAAAATTAATTCATCTTCATGAGTTTTTGAATTTTGTT-TCTTA
66 ATTCATATTAAATCAGTTTTGAAAAATTAATTCATTTTCATAAG-TTTTCAATTTT-TTCT-TTG
1245002 AAATT-CTTTTTTTTCAAA
128 AAATTCCTTTTTTTTCAAA
1245020 AAATCGAGTT
Statistics
Matches: 266, Mismatches: 40, Indels: 17
0.82 0.12 0.05
Matches are distributed among these distances:
166 25 0.09
167 187 0.70
168 54 0.20
ACGTcount: A:0.31, C:0.09, G:0.07, T:0.52
Consensus pattern (166 bp):
TAAATATTTTTGAAGGGATTTTTCTTAGTTTTTAATTTTTAAAATTCATCAAATATTATAATTTA
ATTCATATTAAATCAGTTTTGAAAAATTAATTCATTTTCATAAGTTTTCAATTTTTTCTTTGAAA
TTCCTTTTTTTTCAAATTACGAAGTTTTCTACTCCA
Found at i:1245613 original size:11 final size:11
Alignment explanation
Indices: 1245597--1245630 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
1245587 CAGCAAGGGG
1245597 GAAGAAAAAAA
1 GAAGAAAAAAA
1245608 GAAGAAAAAAA
1 GAAGAAAAAAA
*
1245619 AAAGAGAAAAAA
1 GAAGA-AAAAAA
1245631 AGGAAAAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 15 0.71
12 6 0.29
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (11 bp):
GAAGAAAAAAA
Found at i:1245620 original size:14 final size:13
Alignment explanation
Indices: 1245601--1245631 Score: 53
Period size: 13 Copynumber: 2.3 Consensus size: 13
1245591 AAGGGGGAAG
1245601 AAAAAAAGAAGAAA
1 AAAAAAAG-AGAAA
1245615 AAAAAAAGAGAAA
1 AAAAAAAGAGAAA
1245628 AAAA
1 AAAA
1245632 GGAAAAATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.53
14 8 0.47
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (13 bp):
AAAAAAAGAGAAA
Found at i:1245623 original size:22 final size:21
Alignment explanation
Indices: 1245598--1245638 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
1245588 AGCAAGGGGG
1245598 AAGAAAAAAAGAAGAAAAAAAA
1 AAGAAAAAAA-AAGAAAAAAAA
* *
1245620 AAGAGAAAAAAAGGAAAAA
1 AAGAAAAAAAAAGAAAAAA
1245639 TCAAGCCAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (21 bp):
AAGAAAAAAAAAGAAAAAAAA
Found at i:1255906 original size:224 final size:224
Alignment explanation
Indices: 1255516--1255966 Score: 726
Period size: 224 Copynumber: 2.0 Consensus size: 224
1255506 TATGAATGAG
* *
1255516 GGTGAAAAAAAGATATAAAAGTATTTGTGCCTTGACATGATCTAAAAGAAGTCTAAAAGGATTTC
1 GGTGAAAAAAAGATATAAAAGCATTTGTGCCTTGACATGATCTAAAAGAAGTCCAAAAGGATTTC
* * *
1255581 AAGGCTGATCGCGGTTGTACGAAGACATCTGAATGTCTCGGGATAGAATTCGGGGAAAAAAACCA
66 AAGGCTGATCGCGGTTATACGAAGACATCCGAATGTCTCGGGATAGAATTCGGGGAAAAAAAACA
*
1255646 TTTTTAACAACAACCGAAAACAAGGGATAGCATCGCGCTATCCCACTTCCCAAATTTATTTCGGA
131 TTTTTAACAACAAACGAAAACAAGGGATAGCATCGCGCTATCCCACTTCCCAAATTTATTTCGGA
* *
1255711 TCGATTCGAAAGTTAT-AAAGGGTGAAATA
196 TCAATTCAAAAGTTATCAAA-GGTGAAATA
* *
1255740 GGTGAAAAAAAGATATAAAAGCATTTGTGCCTTGACATGGTTTAAAAGAAGTCCAAAAGGATTTC
1 GGTGAAAAAAAGATATAAAAGCATTTGTGCCTTGACATGATCTAAAAGAAGTCCAAAAGGATTTC
* *
1255805 AAGGCTGATCGCGGTTATGCGGAGACATCCGAATGTCTCGGGATAGAATTCGGGGAAAAAAAACA
66 AAGGCTGATCGCGGTTATACGAAGACATCCGAATGTCTCGGGATAGAATTCGGGGAAAAAAAACA
** * *
1255870 TTTTTGGCAACAAAC-AAACACAGGGGATAGCATCGCGCTGTCCCACTTCCCAAATTTATTTCGG
131 TTTTTAACAACAAACGAAA-ACAAGGGATAGCATCGCGCTATCCCACTTCCCAAATTTATTTCGG
1255934 ATCAATTCAAAAGTTATCAAAGGTGAAATA
195 ATCAATTCAAAAGTTATCAAAGGTGAAATA
1255964 GGT
1 GGT
1255967 ACTGTTTGAA
Statistics
Matches: 209, Mismatches: 16, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
223 3 0.01
224 203 0.97
225 3 0.01
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (224 bp):
GGTGAAAAAAAGATATAAAAGCATTTGTGCCTTGACATGATCTAAAAGAAGTCCAAAAGGATTTC
AAGGCTGATCGCGGTTATACGAAGACATCCGAATGTCTCGGGATAGAATTCGGGGAAAAAAAACA
TTTTTAACAACAAACGAAAACAAGGGATAGCATCGCGCTATCCCACTTCCCAAATTTATTTCGGA
TCAATTCAAAAGTTATCAAAGGTGAAATA
Found at i:1257095 original size:20 final size:20
Alignment explanation
Indices: 1257066--1257115 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
1257056 CCCTGAAAAA
* * *
1257066 TATCGTTACACATTTAAATG
1 TATCGATACACATTGAAATC
* *
1257086 TATCGATACAGATTGCAATC
1 TATCGATACACATTGAAATC
1257106 TATCGATACA
1 TATCGATACA
1257116 GGACCAAATG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34
Consensus pattern (20 bp):
TATCGATACACATTGAAATC
Found at i:1257226 original size:13 final size:13
Alignment explanation
Indices: 1257208--1257233 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1257198 ACACACAGTA
1257208 TGTATCGATACAT
1 TGTATCGATACAT
1257221 TGTATCGATACAT
1 TGTATCGATACAT
1257234 CATAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1258407 original size:13 final size:13
Alignment explanation
Indices: 1258389--1258414 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1258379 ATATAGATTG
1258389 CATTGTATCGATA
1 CATTGTATCGATA
1258402 CATTGTATCGATA
1 CATTGTATCGATA
1258415 TATGACCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:1258521 original size:13 final size:13
Alignment explanation
Indices: 1258503--1258528 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1258493 ACACACAATA
1258503 TGTATCGATACAT
1 TGTATCGATACAT
1258516 TGTATCGATACAT
1 TGTATCGATACAT
1258529 CATAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1258544 original size:33 final size:32
Alignment explanation
Indices: 1258483--1258546 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
1258473 GTAGCCAATC
*
1258483 TTGTATCAATACACACAATATGTATCGATACA
1 TTGTATCAATACACACAAAATGTATCGATACA
* *
1258515 TTGTATCGATACATCATAAAATGTATCGATAC
1 TTGTATCAATACA-CACAAAATGTATCGATAC
1258547 TTTGGCTTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 12 0.43
33 16 0.57
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (32 bp):
TTGTATCAATACACACAAAATGTATCGATACA
Found at i:1261607 original size:122 final size:122
Alignment explanation
Indices: 1261390--1261639 Score: 491
Period size: 122 Copynumber: 2.0 Consensus size: 122
1261380 GTAGTTTGGG
*
1261390 ATGATGAAACAGCCCGTTGATCAATACCACTCAAGATTTGGCACAAAGCAAAGCACAAATATTTT
1 ATGATTAAACAGCCCGTTGATCAATACCACTCAAGATTTGGCACAAAGCAAAGCACAAATATTTT
1261455 AAGGATGATGGAAGGCTATTTTGGTTTAAAAATCAGAGTCTTGGACTTGTTTTAATC
66 AAGGATGATGGAAGGCTATTTTGGTTTAAAAATCAGAGTCTTGGACTTGTTTTAATC
1261512 ATGATTAAACAGCCCGTTGATCAATACCACTCAAGATTTGGCACAAAGCAAAGCACAAATATTTT
1 ATGATTAAACAGCCCGTTGATCAATACCACTCAAGATTTGGCACAAAGCAAAGCACAAATATTTT
1261577 AAGGATGATGGAAGGCTATTTTGGTTTAAAAATCAGAGTCTTGGACTTGTTTTAATC
66 AAGGATGATGGAAGGCTATTTTGGTTTAAAAATCAGAGTCTTGGACTTGTTTTAATC
1261634 ATGATT
1 ATGATT
1261640 CCAGACCTAA
Statistics
Matches: 127, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
122 127 1.00
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.30
Consensus pattern (122 bp):
ATGATTAAACAGCCCGTTGATCAATACCACTCAAGATTTGGCACAAAGCAAAGCACAAATATTTT
AAGGATGATGGAAGGCTATTTTGGTTTAAAAATCAGAGTCTTGGACTTGTTTTAATC
Found at i:1262840 original size:21 final size:19
Alignment explanation
Indices: 1262793--1262847 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
1262783 GCAGGGCAAC
1262793 TTTGTATCGATACAATACT
1 TTTGTATCGATACAATACT
* * *
1262812 TATGTATCGATACATTTGCT
1 TTTGTATCGATACA-ATACT
1262832 GTTTGTATCGATACAA
1 -TTTGTATCGATACAA
1262848 ATTATTGAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 13 0.45
20 3 0.10
21 13 0.45
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.42
Consensus pattern (19 bp):
TTTGTATCGATACAATACT
Found at i:1263780 original size:49 final size:49
Alignment explanation
Indices: 1263617--1264452 Score: 364
Period size: 49 Copynumber: 17.8 Consensus size: 49
1263607 CAAAGAATGA
* * * * * * *
1263617 CAATGTGCTGATTCATGGCCAATGACATTAGACTTGAAGAAG-AA-TGC
1 CAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATGAAAGTGC
* ** * * * **
1263664 CAATGTGCTGAGACAAGGCCAGTGACATTGGGCTTAGGAATG-TTAAAGATTA
1 CAATATGCTGATTCAAGGCCAGTGATATTGGACTTA--AA-GATGAAAG-TGC
* * * *
1263716 CAATATGCTGATTCAAGGCTAGTGATTTTGGACATAAAGGTGAAAGTGC
1 CAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATGAAAGTGC
* ** ** *
1263765 CAATGTGCTGATTCAAGGTGAGCAATATTGGTCTTAAAGAT-AAAGGTGC
1 CAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATGAAA-GTGC
* ** *
1263814 CAATATGCTGATTCAAGGCCGGCAATATCGGACTTAAAGATG-AAGATGC
1 CAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATGAAAG-TGC
* * * * * *
1263863 CAATGTGCTGATTTAAGGCCGGTGACATTTGACTTAAAGAT-AAAGGTAC
1 CAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATGAAA-GTGC
* * ** *
1263912 CAATATGGTGATTCAAGGCCAATGATATCAGACTTAAAGATG-AAGATCC
1 CAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATGAAAG-TGC
* * * * * *
1263961 CAATGTGCTGATTCAAGACCGGTGACATTGGACTTAAAGAAGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATGAAAGTGC
* * *
1264010 CAATATACTGATTCAAGGCTAGTGATATTGGGC-T-----T---A-TGC
1 CAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATGAAAGTGC
* * * * * * *
1264049 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGA-CAAGGTGC
1 CAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATGAAAGTGC
* * *
1264097 CAATACGCTGATTCAAGGCCAGTAATATTGGGC-T-----T---A-TGC
1 CAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATGAAAGTGC
* ** * * * * * *
1264136 CAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAGACA-CAAGGTGC
1 CAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATGAAAGTGC
* ** *
1264184 CAATATGCTGATTCAACGCCAGCAATATTGGGC-T-----T----GTGC
1 CAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATGAAAGTGC
* ** * * * *
1264223 CAATGTGCTGATTCAAGGCCAGCAACATTGGTCTTAAAGA-CAAGGTGC
1 CAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATGAAAGTGC
* ** *
1264271 CAATATGATGATTCAAGGCCAGCAATATTGGAC-TCAAGATGGTAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGAT-G-AAA-GTGC
* * * *
1264322 CAATATGCTGATTCAAGGCTAGCGATATTGGAC-T-----TGAATGTAC
1 CAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATGAAAGTGC
* * * * ** *
1264365 CAATGTGTTGATTTAAGGCTAGCAATATTGGTCTTAAAGAT-AAAGGTGC
1 CAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATGAAA-GTGC
* *
1264414 CAATATGCTGATTCAAGGCTAGCGATATTGGACTTAAAG
1 CAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAG
1264453 GTGCCATGGA
Statistics
Matches: 601, Mismatches: 130, Indels: 114
0.71 0.15 0.13
Matches are distributed among these distances:
39 92 0.15
40 3 0.00
43 31 0.05
44 3 0.00
45 1 0.00
46 1 0.00
47 36 0.06
48 101 0.17
49 254 0.42
50 15 0.02
51 35 0.06
52 29 0.05
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (49 bp):
CAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATGAAAGTGC
Found at i:1263852 original size:98 final size:94
Alignment explanation
Indices: 1263661--1264452 Score: 547
Period size: 87 Copynumber: 8.4 Consensus size: 94
1263651 TGAAGAAGAA
** * * * * **
1263661 TGCCAATGTGCTGAGACAAGGCCAGTGACATTGGGCTTAGGAATGTTAAAGATTACAATATGCTG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTA--AA-G-AAAAGGTGCCAATATGCTG
* ** * *
1263726 ATTCAAGGCTAGTGATTTTGGACATAAAGGTGAAAG
62 ATTCAAGGCCAGCAATATTGGACTTAAA-GT--AAG
** * * *
1263762 TGCCAATGTGCTGATTCAAGGTGAGCAATATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATT
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGA-AAAGGTGCCAATATGCTGATT
* *
1263827 CAAGGCCGGCAATATCGGACTTAAAGATGAAG
65 CAAGGCCAGCAATATTGGACTTAAAG-T-AAG
* * * * * *
1263859 ATGCCAATGTGCTGATTTAAGGCCGGTGACATTTGACTTAAAGATAAAGGTACCAATATGGTGAT
1 -TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGA-AAAGGTGCCAATATGCTGAT
*** **
1263924 TCAAGGCCAATGATATCAGACTTAAAGATGAAG
64 TCAAGGCCAGCAATATTGGACTTAAAG-T-AAG
* * * * *
1263957 ATCCCAATGTGCTGATTCAAGACCGGTGACATTGGACTTAAAGAAGAAGGTGCCAATATACTGAT
1 -TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAA-AAGGTGCCAATATGCTGAT
* ** *
1264022 TCAAGGCTAGTGATATTGGGC-T----T-A-
64 TCAAGGCCAGCAATATTGGACTTAAAGTAAG
* * * *
1264046 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAAGGTGCCAATACGCTGATTC
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAAAAGGTGCCAATATGCTGATTC
* *
1264111 AAGGCCAGTAATATTGGGC-T----T-A-
66 AAGGCCAGCAATATTGGACTTAAAGTAAG
* * * * *
1264133 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAGACACAAGGTGCCAATATGCTGATTC
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAAAAGGTGCCAATATGCTGATTC
* *
1264198 AACGCCAGCAATATTGGGC-T----T--G
66 AAGGCCAGCAATATTGGACTTAAAGTAAG
* * * *
1264220 TGCCAATGTGCTGATTCAAGGCCAGCAACATTGGTCTTAAAGACAAGGTGCCAATATGATGATTC
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAAAAGGTGCCAATATGCTGATTC
*
1264285 AAGGCCAGCAATATTGGACTCAAGATGGTAAAGG
66 AAGGCCAGCAATATTGGACTTAA-A--GT-AA-G
* * * * * * * *
1264319 TGCCAATATGCTGATTCAAGGCTAGCGATATTGGACTT---G--AATGTACCAATGTGTTGATTT
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAAAAGGTGCCAATATGCTGATTC
* *
1264379 AAGGCTAGCAATATTGGTCTTAAAGATAAAGG
66 AAGGCCAGCAATATTGGACTTAAAG-T-AA-G
* * *
1264411 TGCCAATATGCTGATTCAAGGCTAGCGATATTGGACTTAAAG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAG
1264453 GTGCCATGGA
Statistics
Matches: 585, Mismatches: 85, Indels: 48
0.81 0.12 0.07
Matches are distributed among these distances:
87 197 0.34
88 37 0.06
90 1 0.00
91 1 0.00
92 45 0.08
93 1 0.00
94 36 0.06
95 2 0.00
96 1 0.00
97 6 0.01
98 191 0.33
99 36 0.06
101 31 0.05
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.27
Consensus pattern (94 bp):
TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAAAAGGTGCCAATATGCTGATTC
AAGGCCAGCAATATTGGACTTAAAGTAAG
Found at i:1264061 original size:39 final size:39
Alignment explanation
Indices: 1264007--1264244 Score: 152
Period size: 39 Copynumber: 5.6 Consensus size: 39
1263997 AAGAAGAAGG
* *
1264007 TGCCAATATACTGATTCAAGGCTAGTGATATTGGGCTTA
1 TGCCAATATGCTGATTCAAGGCCAGTGATATTGGGCTTA
* * * *
1264046 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAA
1 TGCCAATATGCTGATTCAAGGCCAGTGATATTGGGCTT-------A
* *
1264092 GGTGCCAATACGCTGATTCAAGGCCAGTAATATTGGGCTTA
1 --TGCCAATATGCTGATTCAAGGCCAGTGATATTGGGCTTA
* ** * *
1264133 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAGACACAA
1 TGCCAATATGCTGATTCAAGGCCAGTGATATTGGGCTT-------A
* ** *
1264179 GGTGCCAATATGCTGATTCAACGCCAGCAATATTGGGCTTG
1 --TGCCAATATGCTGATTCAAGGCCAGTGATATTGGGCTTA
*
1264220 TGCCAATGTGCTGATTCAAGGCCAG
1 TGCCAATATGCTGATTCAAGGCCAG
1264245 CAACATTGGT
Statistics
Matches: 153, Mismatches: 28, Indels: 36
0.71 0.13 0.17
Matches are distributed among these distances:
39 86 0.56
41 1 0.01
46 2 0.01
48 64 0.42
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.26
Consensus pattern (39 bp):
TGCCAATATGCTGATTCAAGGCCAGTGATATTGGGCTTA
Found at i:1264117 original size:48 final size:46
Alignment explanation
Indices: 1264046--1264450 Score: 295
Period size: 48 Copynumber: 8.9 Consensus size: 46
1264036 ATTGGGCTTA
* * *
1264046 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCAATATTGGTCTTA-AGA-AAGG
* * *
1264094 TGCCAATACGCTGATTCAAGGCCAGTAATATTGGGCTT-----A--
1 TGCCAATATGCTGATTCAAGGCCAGCAATATTGGTCTTAAGAAAGG
* * * * *
1264133 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAGACACAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCAATATTGGTCTTA-AGA-AAGG
* *
1264181 TGCCAATATGCTGATTCAACGCCAGCAATATTGGGCTT-------G
1 TGCCAATATGCTGATTCAAGGCCAGCAATATTGGTCTTAAGAAAGG
* *
1264220 TGCCAATGTGCTGATTCAAGGCCAGCAACATTGGTCTTAAAGACAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCAATATTGGTCTT-AAGA-AAGG
* * *
1264268 TGCCAATATGATGATTCAAGGCCAGCAATATTGGACTCAAGATGGTAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCAATATTGGTCT-TA-A--G-AAAGG
* * * *
1264319 TGCCAATATGCTGATTCAAGGCTAGCGATATTGGACTT--G-AATG
1 TGCCAATATGCTGATTCAAGGCCAGCAATATTGGTCTTAAGAAAGG
* * * * *
1264362 TACCAATGTGTTGATTTAAGGCTAGCAATATTGGTCTTAAAGATAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCAATATTGGTCTT-AAG--AAAGG
* * *
1264411 TGCCAATATGCTGATTCAAGGCTAGCGATATTGGACTTAA
1 TGCCAATATGCTGATTCAAGGCCAGCAATATTGGTCTTAA
1264451 AGGTGCCATG
Statistics
Matches: 282, Mismatches: 46, Indels: 58
0.73 0.12 0.15
Matches are distributed among these distances:
39 66 0.23
41 1 0.00
43 35 0.12
45 1 0.00
46 2 0.01
48 101 0.36
49 36 0.13
51 39 0.14
52 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.27
Consensus pattern (46 bp):
TGCCAATATGCTGATTCAAGGCCAGCAATATTGGTCTTAAGAAAGG
Found at i:1264430 original size:92 final size:94
Alignment explanation
Indices: 1264270--1264448 Score: 281
Period size: 92 Copynumber: 1.9 Consensus size: 94
1264260 AGACAAGGTG
*
1264270 CCAATATGATGATTCAAGGCCAGCAATATTGGACTCAAGATGGTAAAGGTGCCAATATGCTGATT
1 CCAATATGATGATTCAAGGCCAGCAATATTGGACTCAAGATGATAAAGGTGCCAATATGCTGATT
1264335 CAAGGCTAGCGATATTGGACTTGAATGTA
66 CAAGGCTAGCGATATTGGACTTGAATGTA
* * * * * *
1264364 CCAATGTGTTGATTTAAGGCTAGCAATATTGGTCTTAA-A-GATAAAGGTGCCAATATGCTGATT
1 CCAATATGATGATTCAAGGCCAGCAATATTGGACTCAAGATGATAAAGGTGCCAATATGCTGATT
1264427 CAAGGCTAGCGATATTGGACTT
66 CAAGGCTAGCGATATTGGACTT
1264449 AAAGGTGCCA
Statistics
Matches: 78, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
92 45 0.58
93 1 0.01
94 32 0.41
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (94 bp):
CCAATATGATGATTCAAGGCCAGCAATATTGGACTCAAGATGATAAAGGTGCCAATATGCTGATT
CAAGGCTAGCGATATTGGACTTGAATGTA
Found at i:1264492 original size:34 final size:33
Alignment explanation
Indices: 1264449--1265869 Score: 731
Period size: 33 Copynumber: 44.9 Consensus size: 33
1264439 TATTGGACTT
* *
1264449 AAAGGTGCCATGGAGTTGTAGACTTACAA-GAA
1 AAAGGTGCCATGGAGTTGTGGACTTAAAAGGAA
* *
1264481 AAAGGGATGCCACGGAAG-TGTGGGCTTAAAAGGGAA
1 AAA-GG-TGCCATGG-AGTTGTGGACTTAAAA-GGAA
* * * *
1264517 AAGGGTGCCATAGAGTCGTGGACTTAAAAAG-A
1 AAAGGTGCCATGGAGTTGTGGACTTAAAAGGAA
*
1264549 AAAGGTGCCAAGGAGTTGTGGACTTAAAAGGAA
1 AAAGGTGCCATGGAGTTGTGGACTTAAAAGGAA
* *
1264582 CAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
1 AAAGGTGCCATGGAGTTGTGGACTTAAAAGGAA
* * *
1264615 AAAGATACCATGGAGTTATGGACTTAAAA-G--
1 AAAGGTGCCATGGAGTTGTGGACTTAAAAGGAA
* * * *
1264645 ---GTTGCCACGGAGTTGTGGGCTTTAAAAAGAA
1 AAAGGTGCCATGGAGTTGTGGAC-TTAAAAGGAA
* ** *
1264676 AAATGTGCCACAGAGTTATGGACTTAAAA-G--
1 AAAGGTGCCATGGAGTTGTGGACTTAAAAGGAA
** *
1264706 ---GGTGCCACAGAGTTGTGAACTTTGAAAA-GAA
1 AAAGGTGCCATGGAGTTGTGGAC-TT-AAAAGGAA
*** *
1264737 AAAGGTGCCACAAAGTTGTAGACTTAAAAGGAA
1 AAAGGTGCCATGGAGTTGTGGACTTAAAAGGAA
* *
1264770 AAAGATGCCACGGAGTTGTGGACTTAAAA-G--
1 AAAGGTGCCATGGAGTTGTGGACTTAAAAGGAA
* **
1264800 ---GGTGCGACAGAGTTGTGGACTTAAAAGGAA
1 AAAGGTGCCATGGAGTTGTGGACTTAAAAGGAA
* ** *
1264830 AAAGAGGGCCACAGAGTTGTAGG-CTTTAAAAAGAA
1 AAAG-GTGCCATGGAGTTGT-GGAC-TTAAAAGGAA
***
1264865 AAAGGTGCCGCAGAGTTGTGGACTT------AA
1 AAAGGTGCCATGGAGTTGTGGACTTAAAAGGAA
** ** *
1264892 AAAGGTGCCACAGAGTCATGGACTTAAAAAGAA
1 AAAGGTGCCATGGAGTTGTGGACTTAAAAGGAA
*
1264925 AAAGGTGCCACGGAGTTGTGGACTTAAAA-G--
1 AAAGGTGCCATGGAGTTGTGGACTTAAAAGGAA
* * *
1264955 ---GGTGCCACGGAGTTATGGACTAAAAAGGAA
1 AAAGGTGCCATGGAGTTGTGGACTTAAAAGGAA
** *
1264985 AAAGAGTGCCACAGAATTGCTGG-CTTTATAAA-GAA
1 AAAG-GTGCCATGGAGTTG-TGGAC-TTA-AAAGGAA
* *
1265020 AAAGGTGCCATTGAGTTGCGGACTTAAAA-G--
1 AAAGGTGCCATGGAGTTGTGGACTTAAAAGGAA
* ***
1265050 ---TGTGCCACAAAGTTGTGGACTTTGAAAA-GAA
1 AAAGGTGCCATGGAGTTGTGGAC-TT-AAAAGGAA
** ** *
1265081 AAAGGTGCCACAGAGTCATGGACTTAAAAAGAA
1 AAAGGTGCCATGGAGTTGTGGACTTAAAAGGAA
* * *
1265114 AAAAGTGCCACGGAGTTATGGACTTAAAA-G--
1 AAAGGTGCCATGGAGTTGTGGACTTAAAAGGAA
* *
1265144 ---GGTGCCACGGGGTTGTGGACTTAAAAGGAA
1 AAAGGTGCCATGGAGTTGTGGACTTAAAAGGAA
* * * *
1265174 AAGAAGTGGC-TCGGACTT-TGCG-CTTTAAAAAGAA
1 AA-AGGTGCCAT-GGAGTTGTG-GAC-TTAAAAGGAA
* * * ** *
1265208 GAAGGTGCAACGGAGTCATGGACATAAAAGGAA
1 AAAGGTGCCATGGAGTTGTGGACTTAAAAGGAA
* * *
1265241 CAAGGTTCCACGGAGTTGTGGACTTAAAAGGAA
1 AAAGGTGCCATGGAGTTGTGGACTTAAAAGGAA
* *
1265274 AAAGATGCCACGGAGTTGTGGACTTAAAA-G--
1 AAAGGTGCCATGGAGTTGTGGACTTAAAAGGAA
** * *
1265304 ---GGTGCCACAGAGTTATAGACTTAAAAGGAAA
1 AAAGGTGCCATGGAGTTGTGGACTTAAAAGG-AA
* * * * *
1265335 AAAAGTGCCACGGAGTTATGGGCTTTAAAAAGAA
1 AAAGGTGCCATGGAGTTGTGGAC-TTAAAAGGAA
* *
1265369 AAAGGTGTCACGGAGTTGTGGACTTAAAA-G--
1 AAAGGTGCCATGGAGTTGTGGACTTAAAAGGAA
*** * *
1265399 ---GGTGCCACAAAGTTGTGGACTTTGAAACGAA
1 AAAGGTGCCATGGAGTTGTGGAC-TTAAAAGGAA
* * *
1265430 AAAGGTGTCACGGAGTTGAGGACTTAAAAGGAA
1 AAAGGTGCCATGGAGTTGTGGACTTAAAAGGAA
* *
1265463 AAA-ATGCCACGGAGTTGTGGACTTAAAA-G--
1 AAAGGTGCCATGGAGTTGTGGACTTAAAAGGAA
* **
1265492 ---GGTGCCACGGAGTAATGGACTTAAAAGGAA
1 AAAGGTGCCATGGAGTTGTGGACTTAAAAGGAA
*
1265522 CAAGGTGCCATGGAGTTGTGGACTTAAAAGGAA
1 AAAGGTGCCATGGAGTTGTGGACTTAAAAGGAA
* *
1265555 AAAGATGCCACGGAGTTGTGGACTTAAAA-G--
1 AAAGGTGCCATGGAGTTGTGGACTTAAAAGGAA
**
1265585 ---GGTGCCACAGAGTTGTGGACTTAAAAGGAA
1 AAAGGTGCCATGGAGTTGTGGACTTAAAAGGAA
* * **
1265615 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAATAA
1 AAAG-GTGCCATGGAGTTGTGGAC-TTAAAAGGAA
1265650 AAAGGTGCCATGGAGTTGTGGACTTAAAA-G--
1 AAAGGTGCCATGGAGTTGTGGACTTAAAAGGAA
** *
1265680 ---GGTG-CAACGAGTTATGGACTTAAAAGGAA
1 AAAGGTGCCATGGAGTTGTGGACTTAAAAGGAA
* * * *
1265709 AAAGAGTGTCACGGAGTTGTGGGCTTTAAAAAGAA
1 AAAG-GTGCCATGGAGTTGTGGAC-TTAAAAGGAA
*
1265744 AAAGGTGCCACGGAGTTGTGGACTTAAAA-G--
1 AAAGGTGCCATGGAGTTGTGGACTTAAAAGGAA
* *
1265774 ---GGTGCCATAGAGTTATGGACTTTGAAAA-GAA
1 AAAGGTGCCATGGAGTTGTGGAC-TT-AAAAGGAA
**
1265805 AAAGGTGCCACAGAGTTGTGGACTTAAAAGGAA
1 AAAGGTGCCATGGAGTTGTGGACTTAAAAGGAA
** * *
1265838 AAAGAGTGCCACAGAGTTGTGGGCTTTAAAGG
1 AAAG-GTGCCATGGAGTTGTGGACTTAAAAGG
1265870 GTGCCACAGA
Statistics
Matches: 1105, Mismatches: 166, Indels: 234
0.73 0.11 0.16
Matches are distributed among these distances:
26 18 0.02
27 248 0.22
28 23 0.02
29 17 0.02
31 1 0.00
32 78 0.07
33 335 0.30
34 314 0.28
35 63 0.06
36 8 0.01
ACGTcount: A:0.37, C:0.13, G:0.30, T:0.20
Consensus pattern (33 bp):
AAAGGTGCCATGGAGTTGTGGACTTAAAAGGAA
Found at i:1264656 original size:27 final size:27
Alignment explanation
Indices: 1264627--1264719 Score: 78
Period size: 27 Copynumber: 3.2 Consensus size: 27
1264617 AGATACCATG
*
1264627 GAGTTATGGACTTAAAAGGTTGCCACG
1 GAGTTATGGACTTAAAAGGTTGCCACA
* * *
1264654 GAGTTGTGGGCTTTAAAAAGAAAAATGTGCCACA
1 GAGTTATGGAC-TT-AAAAG----GT-TGCCACA
*
1264688 GAGTTATGGACTTAAAAGGGTGCCACA
1 GAGTTATGGACTTAAAAGGTTGCCACA
1264715 GAGTT
1 GAGTT
1264720 GTGAACTTTG
Statistics
Matches: 51, Mismatches: 8, Indels: 14
0.70 0.11 0.19
Matches are distributed among these distances:
27 21 0.41
28 2 0.04
29 5 0.10
32 5 0.10
33 3 0.06
34 15 0.29
ACGTcount: A:0.33, C:0.13, G:0.29, T:0.25
Consensus pattern (27 bp):
GAGTTATGGACTTAAAAGGTTGCCACA
Found at i:1264727 original size:27 final size:27
Alignment explanation
Indices: 1264680--1265890 Score: 191
Period size: 27 Copynumber: 38.8 Consensus size: 27
1264670 AAAGAAAAAT
*
1264680 GTGCCACAGAGTTATGGACTTAAAAGG
1 GTGCCACAGAGTTGTGGACTTAAAAGG
*
1264707 GTGCCACAGAGTTGTGAACTTTGAAAAGAAAAAG
1 GTGCCACAGAGTTGTGGAC-TT-AAAAG-----G
* *
1264741 GTGCCACAAAGTTGTAGACTTAAAAGG
1 GTGCCACAGAGTTGTGGACTTAAAAGG
*
1264768 AAAAAGATGCCACGGAGTTGTGGACTTAAAAGG
1 -----G-TGCCACAGAGTTGTGGACTTAAAAGG
*
1264801 GTGCGACAGAGTTGTGGACTTAAAAGGAAAAAG
1 GTGCCACAGAGTTGTGGACTTAAAA-G-----G
*
1264834 AGGGCCACAGAGTTGTAGG-CTTTAAAAAGAAAAAG
1 -GTGCCACAGAGTTGT-GGAC-TT-AAAAG-----G
* *
1264869 GTGCCGCAGAGTTGTGGACTTAAAAAG
1 GTGCCACAGAGTTGTGGACTTAAAAGG
**
1264896 GTGCCACAGAGTCATGGACTTAAAAAGAAAAAG
1 GTGCCACAGAGTTGTGGACTT-AAAAG-----G
*
1264929 GTGCCACGGAGTTGTGGACTTAAAAGG
1 GTGCCACAGAGTTGTGGACTTAAAAGG
* * *
1264956 GTGCCACGGAGTTATGGACTAAAAAGGAAAAAG
1 GTGCCACAGAGTTGTGGACTTAAAA-G-----G
*
1264989 AGTGCCACAGAATTGCTGG-CTTTATAAAGAAAAAG
1 -GTGCCACAGAGTTG-TGGAC-TTA-AAAG-----G
** * *
1265024 GTGCCATTGAGTTGCGGACTTAAAAGT
1 GTGCCACAGAGTTGTGGACTTAAAAGG
*
1265051 GTGCCACAAAGTTGTGGACTTTGAAAAGAAAAAG
1 GTGCCACAGAGTTGTGGAC-TT-AAAAG-----G
** *
1265085 GTGCCACAGAGTCATGGACTTAAAAAGAAAAAA
1 GTGCCACAGAGTTGTGGACTT-AAAAG-----G
* *
1265118 GTGCCACGGAGTTATGGACTTAAAAGG
1 GTGCCACAGAGTTGTGGACTTAAAAGG
* *
1265145 GTGCCACGGGGTTGTGGACTTAAAAGGAAAAG
1 GTGCCACAGAGTTGTGGACTTAAAA-G----G
* * * *
1265177 AAGTGGCTCGGACTT-TGCG-CTTTAAAAAGAAGAAG
1 --GTGCCACAGAGTTGTG-GAC-TT-AA---AAG--G
* * ** *
1265212 GTGCAACGGAGTCATGGACATAAAAGGAACAAG
1 GTGCCACAGAGTTGTGGACTTAAAA-G-----G
* *
1265245 GTTCCACGGAGTTGTGGACTTAAAAGG
1 GTGCCACAGAGTTGTGGACTTAAAAGG
*
1265272 AAAAAGATGCCACGGAGTTGTGGACTTAAAAGG
1 -----G-TGCCACAGAGTTGTGGACTTAAAAGG
* *
1265305 GTGCCACAGAGTTATAGACTTAAAAGG
1 GTGCCACAGAGTTGTGGACTTAAAAGG
* * *
1265332 AAAAAAAGTGCCACGGAGTTATGGGCTTTAAAAAGAAAAAG
1 -------GTGCCACAGAGTTGTGGAC-TT-AAAAG-----G
* *
1265373 GTGTCACGGAGTTGTGGACTTAAAAGG
1 GTGCCACAGAGTTGTGGACTTAAAAGG
* *
1265400 GTGCCACAAAGTTGTGGACTTTGAAACGAAAAAG
1 GTGCCACAGAGTTGTGGAC-TT------AAAAGG
* * *
1265434 GTGTCACGGAGTTGAGGACTTAAAAGG
1 GTGCCACAGAGTTGTGGACTTAAAAGG
* *
1265461 AAAAAATGCCACGGAGTTGTGGACTTAAAAGG
1 -----GTGCCACAGAGTTGTGGACTTAAAAGG
* **
1265493 GTGCCACGGAGTAATGGACTTAAAAGGAACAAG
1 GTGCCACAGAGTTGTGGACTTAAAA-G-----G
**
1265526 GTGCCATGGAGTTGTGGACTTAAAAGG
1 GTGCCACAGAGTTGTGGACTTAAAAGG
*
1265553 AAAAAGATGCCACGGAGTTGTGGACTTAAAAGG
1 -----G-TGCCACAGAGTTGTGGACTTAAAAGG
1265586 GTGCCACAGAGTTGTGGACTTAAAAGGAAAAAG
1 GTGCCACAGAGTTGTGGACTTAAAA-G-----G
* * *
1265619 AGTGCCACGGAGTTGTGGGCTTTAAAAATAAAAAG
1 -GTGCCACAGAGTTGTGGAC--T-----TAAAAGG
**
1265654 GTGCCATGGAGTTGTGGACTTAAAAGG
1 GTGCCACAGAGTTGTGGACTTAAAAGG
* *
1265681 GTGCAAC-GAGTTATGGACTTAAAAGGAAAAAG
1 GTGCCACAGAGTTGTGGACTTAAAA-G-----G
* * *
1265713 AGTGTCACGGAGTTGTGGGCTTTAAAAAGAAAAAG
1 -GTGCCACAGAGTTGTGGAC-TT-AAAAG-----G
*
1265748 GTGCCACGGAGTTGTGGACTTAAAAGG
1 GTGCCACAGAGTTGTGGACTTAAAAGG
* *
1265775 GTGCCATAGAGTTATGGACTTTGAAAAGAAAAAG
1 GTGCCACAGAGTTGTGGAC-TT-AAAAG-----G
1265809 GTGCCACAGAGTTGTGGACTTAAAAGGAAAAAG
1 GTGCCACAGAGTTGTGGACTTAAAA-G-----G
* *
1265842 AGTGCCACAGAGTTGTGGGCTTTAAAGG
1 -GTGCCACAGAGTTGTGGACTTAAAAGG
1265870 GTGCCACAGAGTTGTGGACTT
1 GTGCCACAGAGTTGTGGACTT
1265891 TGAAAAGAAA
Statistics
Matches: 924, Mismatches: 116, Indels: 288
0.70 0.09 0.22
Matches are distributed among these distances:
26 16 0.02
27 262 0.28
28 21 0.02
29 17 0.02
30 1 0.00
32 71 0.08
33 217 0.23
34 253 0.27
35 40 0.04
36 17 0.02
37 1 0.00
38 2 0.00
41 6 0.01
ACGTcount: A:0.36, C:0.13, G:0.30, T:0.21
Consensus pattern (27 bp):
GTGCCACAGAGTTGTGGACTTAAAAGG
Found at i:1264764 original size:94 final size:91
Alignment explanation
Indices: 1264640--1265915 Score: 383
Period size: 95 Copynumber: 13.5 Consensus size: 91
1264630 TTATGGACTT
* * * *
1264640 AAAAGGTTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAATGTGCCACAGAGTTATGGACTTAAAA
1 AAAAGG-TGCCACAGAGTTGTAGAC-TTAAAAAGAAAAA-GTGCCACAGAGTTGTGGACTTAAAA
*
1264705 GGGTGCCACAGAGTTGTGAACTTTGAAAAGA
63 GGGTGCCACAGAGTTGTGGAC-TT-AAAAGA
* * *
1264736 AAAAGGTGCCACAAAGTTGTAGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAGG
1 AAAAGGTGCCACAGAGTTGTAGACTTAAAAAGAAAAAG-TGCCACAGAGTTGTGGACTTAAAAGG
*
1264801 GTGCGACAGAGTTGTGGACTTAAAAGGA
65 GTGCCACAGAGTTGTGGACTTAAAA-GA
* * *
1264829 AAAAGAGGGCCACAGAGTTGTAGGCTTTAAAAAGAAAAAGGTGCCGCAGAGTTGTGGACTTAAAA
1 AAAAG-GTGCCACAGAGTTGTAGAC-TTAAAAAGAAAAA-GTGCCACAGAGTTGTGGACTTAAAA
* **
1264894 AGGTGCCACAGAGTCATGGACTTAAAAAGA
63 GGGTGCCACAGAGTTGTGGACTT-AAAAGA
* * * * * *
1264924 AAAAGGTGCCACGGAGTTGTGGACTT-AAAAG----GGTGCCACGGAGTTATGGACTAAAAAGGA
1 AAAAGGTGCCACAGAGTTGTAGACTTAAAAAGAAAAAGTGCCACAGAGTTGTGGACTTAAAA-G-
*
1264984 AAAAGAGTGCCACAGAATTGCTGG-CTTTATAAAGA
64 ----G-GTGCCACAGAGTTG-TGGAC-TTA-AAAGA
** ** * *
1265019 AAAAGGTGCCATTGAGTTGCGGACTT-AAAAG----TGTGCCACAAAGTTGTGGACTTTGAAAAG
1 AAAAGGTGCCACAGAGTTGTAGACTTAAAAAGAAAAAGTGCCACAGAGTTGTGGAC-TT-AAAAG
**
1265079 AAAAAGGTGCCACAGAGTCATGGACTTAAAAAGA
64 -----GGTGCCACAGAGTTGTGGACTT-AAAAGA
* * * * * * *
1265113 AAAAAGTGCCACGGAGTTATGGACTT-AAAAG----GGTGCCACGGGGTTGTGGACTTAAAAGGA
1 AAAAGGTGCCACAGAGTTGTAGACTTAAAAAGAAAAAGTGCCACAGAGTTGTGGACTTAAAA-G-
* * * *
1265173 AAAGAAGTGGCTCGGACTT-TGCG-CTTTAAAAAGA
64 ---G--GTGCCACAGAGTTGTG-GAC-TT-AAAAGA
* * * ** * * * * * *
1265207 AGAAGGTGCAACGGAGTCATGGACATAAAAGGAACAAGGTTCCACGGAGTTGTGGACTTAAAAGG
1 AAAAGGTGCCACAGAGTTGTAGACTTAAAAAGAA-AAAGTGCCACAGAGTTGTGGACTTAAAAGG
*
1265272 AAAAAGATGCCACGGAGTTGTGGACTTAAAAG-
65 -----G-TGCCACAGAGTTGTGGACTTAAAAGA
* * * * *
1265304 ----GGTGCCACAGAGTTATAGACTTAAAAGGAAAAAAAGTGCCACGGAGTTATGGGCTTTAAAA
1 AAAAGGTGCCACAGAGTTGTAGACTTAAAA--AGAAAAAGTGCCACAGAGTTGTGGAC-TT-AAA
* *
1265365 AGAAAAAGGTGTCACGGAGTTGTGGACTTAAAAG-
62 AG-----GGTGCCACAGAGTTGTGGACTTAAAAGA
* * * * * * *
1265399 ----GGTGCCACAAAGTTGTGGACTTTGAAACGAAAAAGGTGTCACGGAGTTGAGGACTTAAAAG
1 AAAAGGTGCCACAGAGTTGTAGAC-TTAAAAAGAAAAA-GTGCCACAGAGTTGTGGACTTAAAAG
* *
1265460 GAAAAAATGCCACGGAGTTGTGGACTTAAAAG-
64 G-----GTGCCACAGAGTTGTGGACTTAAAAGA
* ** * * * **
1265492 ----GGTGCCACGGAGTAATGGACTTAAAAGGAACAAGGTGCCATGGAGTTGTGGACTTAAAAGG
1 AAAAGGTGCCACAGAGTTGTAGACTTAAAAAGAA-AAAGTGCCACAGAGTTGTGGACTTAAAAGG
*
1265553 AAAAAGATGCCACGGAGTTGTGGACTTAAAAG-
65 -----G-TGCCACAGAGTTGTGGACTTAAAAGA
* * * *
1265585 ----GGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAA
1 AAAAGGTGCCACAGAGTTGTAGACTTAAAAAG-AAAA-AGTGCCACAGAGTTGTGGAC--T----
* **
1265646 ATAAAAAGGTGCCATGGAGTTGTGGACTTAAAAG-
58 -TAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGA
* * * * * * *
1265680 ----GGTGCAAC-GAGTTATGGACTTAAAAGGAAAAAGAGTGTCACGGAGTTGTGGGCTTTAAAA
1 AAAAGGTGCCACAGAGTTGTAGACTTAAAAAG-AAAA-AGTGCCACAGAGTTGTGGAC-TT-AAA
*
1265740 AGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAG-
62 AG-----GGTGCCACAGAGTTGTGGACTTAAAAGA
* * * *
1265774 ----GGTGCCATAGAGTTATGGACTTTGAAAAGAAAAAGGTGCCACAGAGTTGTGGACTTAAAAG
1 AAAAGGTGCCACAGAGTTGTAGAC-TTAAAAAGAAAAA-GTGCCACAGAGTTGTGGACTTAAAA-
* *
1265835 GAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAG-
63 G-----G-GTGCCACAGAGTTGTGGACTTAAAAGA
* *
1265869 ----GGTGCCACAGAGTTGTGGACTTTGAAAAGAAAAAGCTGCCACAGAGT
1 AAAAGGTGCCACAGAGTTGTAGAC-TTAAAAAGAAAAAG-TGCCACAGAGT
1265916 CATCGACTTT
Statistics
Matches: 976, Mismatches: 128, Indels: 153
0.78 0.10 0.12
Matches are distributed among these distances:
87 21 0.02
88 2 0.00
89 4 0.00
92 55 0.06
93 145 0.15
94 318 0.33
95 334 0.34
96 38 0.04
97 4 0.00
98 8 0.01
99 13 0.01
100 27 0.03
101 7 0.01
ACGTcount: A:0.37, C:0.13, G:0.30, T:0.20
Consensus pattern (91 bp):
AAAAGGTGCCACAGAGTTGTAGACTTAAAAAGAAAAAGTGCCACAGAGTTGTGGACTTAAAAGGG
TGCCACAGAGTTGTGGACTTAAAAGA
Found at i:1264792 original size:155 final size:155
Alignment explanation
Indices: 1264548--1265869 Score: 678
Period size: 155 Copynumber: 8.4 Consensus size: 155
1264538 ACTTAAAAAG
* *
1264548 AAAA-GGTGCCA-AGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTAAAA
1 AAAAGGGTGCCACA-GAGTTGTGGACTTAAAA-GAAAAAGGTGCCACAGAGTTGTGGACTTAAAA
* * * * *
1264611 GGAAAAAGATACCATGGAGTTATGGACTTAAAAGGTTGCCACGGAGTTGTGGGCTTTAAAAAGAA
64 GGAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAAGAA
*
1264676 AAA-TGTGCCACAGAGTTAT-GGAC-TT-
128 AAAGAGTGCCACAGAGTTATAGG-CTTTA
* * *
1264701 AAAAGGGTGCCACAGAGTTGTGAACTTTGAAAAGAAAAAGGTGCCACAAAGTTGTAGACTTAAAA
1 AAAAGGGTGCCACAGAGTTGTGGAC-TT-AAAAGAAAAAGGTGCCACAGAGTTGTGGACTTAAAA
* * *
1264766 GGAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGGTGCGACAGAGTTGTGGACTTAAAAGGAAA
64 GGAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAAGAAA
* *
1264831 AAGAGGGCCACAGAGTTGTAGGCTTTA
129 AAGAGTGCCACAGAGTTATAGGCTTTA
* **
1264858 AAAAGAAAAAGGTGCCGCAGAGTTGTGGACTT-----AAAAAGGTGCCACAGAGTCATGGACTTA
1 AAAAG-----GGTGCCACAGAGTTGTGGACTTAAAAGAAAAAGGTGCCACAGAGTTGTGGACTTA
* * *
1264918 AAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTATGGAC-TAAAAAG
61 AAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAA-
* *
1264982 GAAAAAGAGTGCCACAGAATTGCT-GGCTTTATAAA
125 GAAAAAGAGTGCCACAGAGTT-ATAGGC-TT-T--A
* ** * * *
1265017 GAAAAAGGTGCCATTGAGTTGCGGACTTAAAAG-----TGTGCCACAAAGTTGTGGACTTTGAAA
1 -AAAAGGGTGCCACAGAGTTGTGGACTTAAAAGAAAAAGGTGCCACAGAGTTGTGGAC-TT-AAA
* * ** * *
1265077 A-GAAAAAGGTGCCACAGAGTCATGGACTTAAAAAGAAAAAAGTGCCACGGAGTTATGGACTT-A
63 AGGAAAAAGATGCCACGGAGTTGTGGACTT-AAAAG-----GGTGCCACGGAGTTGTGGACTTAA
* * * *
1265140 AAAG-----G-GTGCCACGGGGTTGT-GGACTTAAAA
122 AAAGAAAAAGAGTGCCACAGAGTTATAGG-CTT--TA
* * * * * * * * ** *
1265170 GGAAAAGAAGTGGCTCGGACTT-TGCG-CTTTAAAAAGAAGAAGGTGCAACGGAGTCATGGACAT
1 --AAAAG-GGTGCCACAGAGTTGTG-GAC-TT-AAAAGAAAAAGGTGCCACAGAGTTGTGGACTT
* * *
1265233 AAAAGGAACAAGGTTCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACT
60 AAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAGG-----G-TGCCACGGAGTTGTGGACT
* *
1265298 T-AAAAG-----G-GTGCCACAGAGTTATAGACTTAAAAGGA
119 TAAAAAGAAAAAGAGTGCCACAGAGTTATAGGCTT-----TA
** * * * * *
1265333 AAAAAAGTGCCACGGAGTTATGGGCTTTAAAAAGAAAAAGGTGTCACGGAGTTGTGGACTTAAAA
1 AAAAGGGTGCCACAGAGTTGTGGAC-TT-AAAAGAAAAAGGTGCCACAGAGTTGTGGACTTAAAA
** * * *
1265398 GG-----G-TGCCACAAAGTTGTGGACTTTGAAACGAAAAAGGTGTCACGGAGTTGAGGACTTAA
64 GGAAAAAGATGCCACGGAGTTGTGGAC-TT------AAAAGGGTGCCACGGAGTTGTGGACTTAA
* * *
1265457 AAGGAAAAA-A-TGCCACGGAGTTGT-GGAC-TT-
122 AAAGAAAAAGAGTGCCACAGAGTTATAGG-CTTTA
* ** * **
1265487 AAAAGGGTGCCACGGAGTAATGGACTTAAAAGGAACAAGGTGCCATGGAGTTGTGGACTTAAAAG
1 AAAAGGGTGCCACAGAGTTGTGGACTTAAAA-GAAAAAGGTGCCACAGAGTTGTGGACTTAAAAG
* *
1265552 GAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAA
65 GAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAAGAAAA
* * *
1265617 AGAGTGCCACGGAGTTGTGGGCTTTAAAAA
130 AGAGTGCCACAGAGTTATAGGCTTT----A
* ** * *
1265647 TAAAAAGGTGCCATGGAGTTGTGGACTTAAAAG-----GGTGCAAC-GAGTTATGGACTTAAAAG
1 -AAAAGGGTGCCACAGAGTTGTGGACTTAAAAGAAAAAGGTGCCACAGAGTTGTGGACTTAAAAG
* *
1265706 GAAAAAGAGTGTCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTT-A
65 GAAAAAGA-TGCCACGGAGTTGTGGAC-TT-AAAAG-----GGTGCCACGGAGTTGTGGACTTAA
*
1265770 AAAG-----G-GTGCCATAGAGTTAT-GGACTTTGAAAA
122 AAAGAAAAAGAGTGCCACAGAGTTATAGG-CTTT----A
* * *
1265802 GAAAAAGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAA
1 -AAAAGGGTGCCACAGAGTTGTGGACTTAAAA-GAAAAAG-GTGCCACAGAGTTGTGGACTTAAA
1265867 AGG
63 AGG
1265870 GTGCCACAGA
Statistics
Matches: 928, Mismatches: 133, Indels: 206
0.73 0.10 0.16
Matches are distributed among these distances:
152 38 0.04
153 39 0.04
154 109 0.12
155 337 0.36
156 69 0.07
157 25 0.03
158 3 0.00
159 27 0.03
160 83 0.09
161 106 0.11
162 73 0.08
163 19 0.02
ACGTcount: A:0.37, C:0.13, G:0.30, T:0.20
Consensus pattern (155 bp):
AAAAGGGTGCCACAGAGTTGTGGACTTAAAAGAAAAAGGTGCCACAGAGTTGTGGACTTAAAAGG
AAAAAGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAAGAAAAA
GAGTGCCACAGAGTTATAGGCTTTA
Found at i:1264815 original size:60 final size:61
Alignment explanation
Indices: 1264735--1264862 Score: 170
Period size: 60 Copynumber: 2.1 Consensus size: 61
1264725 CTTTGAAAAG
* *
1264735 AAAAAGGTGCCACAAAGTTGTAGACTTAAAAGGAAAAAGA-TGCCACGGAGTTGTGGACTT
1 AAAAAGGTGCCACAAAGTTGTAGACTTAAAAGGAAAAAGAGGGCCACAGAGTTGTGGACTT
* * * *
1264795 AAAAGGGTGCGACAGAGTTGTGGACTTAAAAGGAAAAAGAGGGCCACAGAGTTGTAGG-CTTT
1 AAAAAGGTGCCACAAAGTTGTAGACTTAAAAGGAAAAAGAGGGCCACAGAGTTGT-GGAC-TT
1264857 AAAAAG
1 AAAAAG
1264863 AAAAAGGTGC
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
60 36 0.62
61 13 0.22
62 9 0.16
ACGTcount: A:0.40, C:0.12, G:0.30, T:0.19
Consensus pattern (61 bp):
AAAAAGGTGCCACAAAGTTGTAGACTTAAAAGGAAAAAGAGGGCCACAGAGTTGTGGACTT
Found at i:1264866 original size:35 final size:33
Alignment explanation
Indices: 1264795--1265915 Score: 410
Period size: 34 Copynumber: 35.5 Consensus size: 33
1264785 TTGTGGACTT
* *
1264795 AAAAGGGTGCGACAGAGTTGTGGACTTAAAAGGA
1 AAAAGGG-GCCACAGAGTTGTGGACTTAAAAAGA
1264829 AAAAGAGGGCCACAGAGTTGTAGG-CTTTAAAAAGA
1 AAAAG-GGGCCACAGAGTTGT-GGAC-TTAAAAAGA
* *
1264864 AAAAGGTGCCGCAGAGTTGTGGACTT------A
1 AAAAGGGGCCACAGAGTTGTGGACTTAAAAAGA
* **
1264891 AAAAGGTGCCACAGAGTCATGGACTTAAAAAGA
1 AAAAGGGGCCACAGAGTTGTGGACTTAAAAAGA
* *
1264924 AAAAGGTGCCACGGAGTTGTGGACTT-AAAAG-
1 AAAAGGGGCCACAGAGTTGTGGACTTAAAAAGA
* * *
1264955 ----GGTGCCACGGAGTTATGGAC-TAAAAAGGA
1 AAAAGGGGCCACAGAGTTGTGGACTTAAAAA-GA
* * *
1264984 AAAAGAGTGCCACAGAATTGCTGG-CTTTATAAAGA
1 AAAAG-GGGCCACAGAGTTG-TGGAC-TTAAAAAGA
* ** *
1265019 AAAAGGTGCCATTGAGTTGCGGACTT-AAAAG-
1 AAAAGGGGCCACAGAGTTGTGGACTTAAAAAGA
* * * *
1265050 ----TGTGCCACAAAGTTGTGGACTTTGAAAAGA
1 AAAAGGGGCCACAGAGTTGTGGAC-TTAAAAAGA
* **
1265080 AAAAGGTGCCACAGAGTCATGGACTTAAAAAGA
1 AAAAGGGGCCACAGAGTTGTGGACTTAAAAAGA
* * * *
1265113 AAAAAGTGCCACGGAGTTATGGACTT-AAAAG-
1 AAAAGGGGCCACAGAGTTGTGGACTTAAAAAGA
* * * *
1265144 ----GGTGCCACGGGGTTGTGGACTTAAAAGGAA
1 AAAAGGGGCCACAGAGTTGTGGACTTAAAAAG-A
* * * *
1265174 AAGAAGTGG-CTCGGACTT-TGCG-CTTTAAAAAGA
1 AA-AAGGGGCCACAGAGTTGTG-GAC-TTAAAAAGA
* * * * ** * *
1265207 AGAAGGTGCAACGGAGTCATGGACATAAAAGGA
1 AAAAGGGGCCACAGAGTTGTGGACTTAAAAAGA
* ** * *
1265240 ACAAGGTTCCACGGAGTTGTGGACTTAAAAGGA
1 AAAAGGGGCCACAGAGTTGTGGACTTAAAAAGA
** *
1265273 AAAAGATGCCACGGAGTTGTGGACTT-AAAAG-
1 AAAAGGGGCCACAGAGTTGTGGACTTAAAAAGA
* * * *
1265304 ----GGTGCCACAGAGTTATAGACTTAAAAGGAA
1 AAAAGGGGCCACAGAGTTGTGGACTTAAAAAG-A
* * * * *
1265334 AAAAAGTGCCACGGAGTTATGGGCTTTAAAAAGA
1 AAAAGGGGCCACAGAGTTGTGGAC-TTAAAAAGA
* * *
1265368 AAAAGGTGTCACGGAGTTGTGGACTT-AAAAG-
1 AAAAGGGGCCACAGAGTTGTGGACTTAAAAAGA
* * * *
1265399 ----GGTGCCACAAAGTTGTGGACTTTGAAACGA
1 AAAAGGGGCCACAGAGTTGTGGAC-TTAAAAAGA
* * * * *
1265429 AAAAGGTGTCACGGAGTTGAGGACTTAAAAGGA
1 AAAAGGGGCCACAGAGTTGTGGACTTAAAAAGA
** *
1265462 AAAA-ATGCCACGGAGTTGTGGACTT-AAAAG-
1 AAAAGGGGCCACAGAGTTGTGGACTTAAAAAGA
* * ** *
1265492 ----GGTGCCACGGAGTAATGGACTTAAAAGGA
1 AAAAGGGGCCACAGAGTTGTGGACTTAAAAAGA
* * ** *
1265521 ACAAGGTGCCATGGAGTTGTGGACTTAAAAGGA
1 AAAAGGGGCCACAGAGTTGTGGACTTAAAAAGA
** *
1265554 AAAAGATGCCACGGAGTTGTGGACTT-AAAAG-
1 AAAAGGGGCCACAGAGTTGTGGACTTAAAAAGA
* *
1265585 ----GGTGCCACAGAGTTGTGGACTTAAAAGGA
1 AAAAGGGGCCACAGAGTTGTGGACTTAAAAAGA
* * * *
1265614 AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAATA
1 AAAAG-GGGCCACAGAGTTGTGGAC-TTAAAAAGA
* **
1265649 AAAAGGTGCCATGGAGTTGTGGACTT-AAAAG-
1 AAAAGGGGCCACAGAGTTGTGGACTTAAAAAGA
* * * *
1265680 ----GGTGCAAC-GAGTTATGGACTTAAAAGGA
1 AAAAGGGGCCACAGAGTTGTGGACTTAAAAAGA
* * * *
1265708 AAAAGAGTGTCACGGAGTTGTGGGCTTTAAAAAGA
1 AAAAG-GGGCCACAGAGTTGTGGAC-TTAAAAAGA
* *
1265743 AAAAGGTGCCACGGAGTTGTGGACTT-AAAAG-
1 AAAAGGGGCCACAGAGTTGTGGACTTAAAAAGA
* * * *
1265774 ----GGTGCCATAGAGTTATGGACTTTGAAAAGA
1 AAAAGGGGCCACAGAGTTGTGGAC-TTAAAAAGA
* *
1265804 AAAAGGTGCCACAGAGTTGTGGACTTAAAAGGA
1 AAAAGGGGCCACAGAGTTGTGGACTTAAAAAGA
* * *
1265837 AAAAGAGTGCCACAGAGTTGTGGGCTT-TAAAG-
1 AAAAG-GGGCCACAGAGTTGTGGACTTAAAAAGA
* *
1265869 ----GGTGCCACAGAGTTGTGGACTTTGAAAAGA
1 AAAAGGGGCCACAGAGTTGTGGAC-TTAAAAAGA
**
1265899 AAAAGCTGCCACAGAGT
1 AAAAGGGGCCACAGAGT
1265916 CATCGACTTT
Statistics
Matches: 856, Mismatches: 135, Indels: 192
0.72 0.11 0.16
Matches are distributed among these distances:
26 13 0.02
27 199 0.23
28 26 0.03
29 18 0.02
31 4 0.00
32 59 0.07
33 219 0.26
34 252 0.29
35 61 0.07
36 5 0.01
ACGTcount: A:0.37, C:0.13, G:0.30, T:0.20
Consensus pattern (33 bp):
AAAAGGGGCCACAGAGTTGTGGACTTAAAAAGA
Found at i:1264924 original size:60 final size:60
Alignment explanation
Indices: 1264855--1265833 Score: 308
Period size: 61 Copynumber: 15.7 Consensus size: 60
1264845 GTTGTAGGCT
*
1264855 TTAAAAAGAAAAAGGTGCCGCAGAGTTGTGGACTTAAAAAGGTGCCACAGAGTCATGGAC
1 TTAAAAAGAAAAAGGTGCCACAGAGTTGTGGACTTAAAAAGGTGCCACAGAGTCATGGAC
* * * *
1264915 TTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTATGGAC
1 TTAAAAAGAAAAAGGTGCCACAGAGTTGTGGACTTAAAAAGGTGCCACAGAGTCATGGAC
* ** **
1264975 -TAAAAAGGAAAAAGAGTGCCACAGAATTGCTGG-CTTTATAAAGAAAAAGGTGCCATTGAGTTG
1 TTAAAAA-GAAAAAG-GTGCCACAGAGTTG-TGGAC--T-T----AAAAAGGTGCCACAGAGTCA
*
1265038 CGGAC
56 TGGAC
* *
1265043 TT-AAAAG-----TGTGCCACAAAGTTGTGGACTTTGAAAAGAAAAAGGTGCCACAGAGTCATGG
1 TTAAAAAGAAAAAGGTGCCACAGAGTTGTGGAC-TT------AAAAAGGTGCCACAGAGTCATGG
1265102 AC
59 AC
* * * * * * **
1265104 TTAAAAAGAAAAAAGTGCCACGGAGTTATGGACTTAAAAGGGTGCCACGGGGTTGTGGAC
1 TTAAAAAGAAAAAGGTGCCACAGAGTTGTGGACTTAAAAAGGTGCCACAGAGTCATGGAC
* * * * * * * *
1265164 TTAAAAGGAAAAGAAGTGGCTCGGACTT-TGCG-CTTTAAAAAGAAGAAGGTGCAACGGAGTCAT
1 TTAAAAAGAAAA-AGGTGCCACAGAGTTGTG-GAC-TT----A-AA-AAGGTGCCACAGAGTCAT
1265227 GGAC
57 GGAC
* * * * * * * **
1265231 ATAAAAGGAACAAGGTTCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGA
1 TTAAAAAGAAAAAGGTGCCACAGAGTTGTGGACTT------AAAAAGGTGCCACAGAGTCATGGA
1265296 C
60 C
* * * * *
1265297 TT-AAAAG-----GGTGCCACAGAGTTATAGACTTAAAAGGAAAAAAAGTGCCACGGAGTTATGG
1 TTAAAAAGAAAAAGGTGCCACAGAGTTGTGGACTT-------AAAAAGGTGCCACAGAGTCATGG
*
1265356 GC
59 AC
* * * * **
1265358 TTTAAAAAGAAAAAGGTGTCACGGAGTTGTGGACTTAAAAGGGTGCCACAAAGTTGTGGAC
1 -TTAAAAAGAAAAAGGTGCCACAGAGTTGTGGACTTAAAAAGGTGCCACAGAGTCATGGAC
* * * * * * **
1265419 TTTGAAACGAAAAAGGTGTCACGGAGTTGAGGACTT-AAAAGGAAAAAATGCCACGGAGTTGTGG
1 -TTAAAAAGAAAAAGGTGCCACAGAGTTGTGGACTTAAAAAGG------TGCCACAGAGTCATGG
1265483 AC
59 AC
* ** ** **
1265485 TT-AAAAG-----GGTGCCACGGAGTAATGGACTTAAAAGGAACAAGGTGCCATGGAGTTGTGGA
1 TTAAAAAGAAAAAGGTGCCACAGAGTTGTGGACTT---A--AA-AAGGTGCCACAGAGTCATGGA
1265544 C
60 C
* * * * **
1265545 TTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGAC
1 TTAAAAAGAAAAAGGTGCCACAGAGTTGTGGACTTAAAAAGGTGCCACAGAGTCATGGAC
* * * ** **
1265605 TTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAATAAAAAGGTGCCATGGAGTTGTG
1 TTAAAAAGAAAAAG-GTGCCACAGAGTTGTGGAC--T-----TAAAAAGGTGCCACAGAGTCATG
1265670 GAC
58 GAC
* * * * **
1265673 TT-AAAAG-----GGTGCAAC-GAGTTATGGACTTAAAAGGAAAAAGAGTGTCACGGAGTTGTGG
1 TTAAAAAGAAAAAGGTGCCACAGAGTTGTGGACTT------AAAAAG-GTGCCACAGAGTCATGG
*
1265731 GC
59 AC
* * * *
1265733 TTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCATAGAGTTATGGAC
1 -TTAAAAAGAAAAAGGTGCCACAGAGTTGTGGACTTAAAAAGGTGCCACAGAGTCATGGAC
*
1265794 TTTGAAAAGAAAAAGGTGCCACAGAGTTGTGGACTTAAAA
1 -TTAAAAAGAAAAAGGTGCCACAGAGTTGTGGACTTAAAA
1265834 GGAAAAAGAG
Statistics
Matches: 722, Mismatches: 114, Indels: 165
0.72 0.11 0.16
Matches are distributed among these distances:
53 1 0.00
58 1 0.00
59 31 0.04
60 201 0.28
61 227 0.31
62 21 0.03
63 8 0.01
64 5 0.01
65 9 0.01
66 75 0.10
67 60 0.08
68 82 0.11
69 1 0.00
ACGTcount: A:0.37, C:0.13, G:0.30, T:0.21
Consensus pattern (60 bp):
TTAAAAAGAAAAAGGTGCCACAGAGTTGTGGACTTAAAAAGGTGCCACAGAGTCATGGAC
Found at i:1265289 original size:160 final size:161
Alignment explanation
Indices: 1265099--1265399 Score: 428
Period size: 160 Copynumber: 1.9 Consensus size: 161
1265089 CACAGAGTCA
* * * *
1265099 TGGACTTAAAAAGAAAAAAGTGCCACGGAGTTATGGACTTAAAAGGGTGCCACGGGGTTGTGGAC
1 TGGACTTAAAAAGAAAAAAGTGCCACGGAGTTATGGACTTAAAAGGGTGCCACAGAGTTATAGAC
* * * *
1265164 TTAAAAGGAAAAGAAGTGGCTCGGACTT-TGCGCTTTAAAAAGAAGAAGGTG-CAACGGAGTCAT
66 TTAAAAGGAAAAAAAGTGCCACGGACTTATGCGCTTTAAAAAGAAAAAGGTGTC-ACGGAGTCAT
1265227 GGACATAAAAGGAACAAGGTTCCACGGAGTTG
130 GGACATAAAAGGAACAAGGTTCCACGGAGTTG
* *
1265259 TGGACTT-AAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTATAGA
1 TGGACTTAAAAAGAAAAAAG-TGCCACGGAGTTATGGACTTAAAAGGGTGCCACAGAGTTATAGA
* * **
1265323 CTTAAAAGGAAAAAAAGTGCCACGGAGTTATGGGCTTTAAAAAGAAAAAGGTGTCACGGAGTTGT
65 CTTAAAAGGAAAAAAAGTGCCACGGACTTATGCGCTTTAAAAAGAAAAAGGTGTCACGGAGTCAT
*
1265388 GGACTTAAAAGG
130 GGACATAAAAGG
1265400 GTGCCACAAA
Statistics
Matches: 123, Mismatches: 15, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
159 11 0.09
160 71 0.58
161 40 0.33
162 1 0.01
ACGTcount: A:0.38, C:0.13, G:0.30, T:0.20
Consensus pattern (161 bp):
TGGACTTAAAAAGAAAAAAGTGCCACGGAGTTATGGACTTAAAAGGGTGCCACAGAGTTATAGAC
TTAAAAGGAAAAAAAGTGCCACGGACTTATGCGCTTTAAAAAGAAAAAGGTGTCACGGAGTCATG
GACATAAAAGGAACAAGGTTCCACGGAGTTG
Found at i:1265381 original size:95 final size:93
Alignment explanation
Indices: 1265211--1265915 Score: 862
Period size: 95 Copynumber: 7.5 Consensus size: 93
1265201 AAAAGAAGAA
* * * * * * *
1265211 GGTGCAACGGAGTCATGGACATAAAAGGAACAAGGTTCCACGGAGTTGTGGACTTAAAAGGAAAA
1 GGTGCCACAGAGTTATGGACTTAAAAGGAAAAAAGTGCCACGGAGTTGTGGACTTAAAAGGAAAA
*
1265276 AGATGCCACGGAGTTGTGGACTTAAAAG
66 AGGTGCCACGGAGTTGTGGACTTAAAAG
* * * *
1265304 GGTGCCACAGAGTTATAGACTTAAAAGGAAAAAAAGTGCCACGGAGTTATGGGCTTTAAAAAGAA
1 GGTGCCACAGAGTTATGGACTTAAAAGG-AAAAAAGTGCCACGGAGTTGTGGAC-TTAAAAGGAA
*
1265369 AAAGGTGTCACGGAGTTGTGGACTTAAAAG
64 AAAGGTGCCACGGAGTTGTGGACTTAAAAG
* * * * * * *
1265399 GGTGCCACAAAGTTGTGGACTTTGAAACGAAAAAGGTGTCACGGAGTTGAGGACTTAAAAGGAAA
1 GGTGCCACAGAGTTATGGAC-TTAAAAGGAAAAAAGTGCCACGGAGTTGTGGACTTAAAAGGAAA
*
1265464 AA-ATGCCACGGAGTTGTGGACTTAAAAG
65 AAGGTGCCACGGAGTTGTGGACTTAAAAG
* * * * *
1265492 GGTGCCACGGAGTAATGGACTTAAAAGGAACAAGGTGCCATGGAGTTGTGGACTTAAAAGGAAAA
1 GGTGCCACAGAGTTATGGACTTAAAAGGAAAAAAGTGCCACGGAGTTGTGGACTTAAAAGGAAAA
*
1265557 AGATGCCACGGAGTTGTGGACTTAAAAG
66 AGGTGCCACGGAGTTGTGGACTTAAAAG
* * **
1265585 GGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAATAA
1 GGTGCCACAGAGTTATGGACTTAAAAGGAAAAA-AGTGCCACGGAGTTGTGGAC-TTAAAAGGAA
*
1265650 AAAGGTGCCATGGAGTTGTGGACTTAAAAG
64 AAAGGTGCCACGGAGTTGTGGACTTAAAAG
* * * *
1265680 GGTGCAAC-GAGTTATGGACTTAAAAGGAAAAAGAGTGTCACGGAGTTGTGGGCTTTAAAAAGAA
1 GGTGCCACAGAGTTATGGACTTAAAAGGAAAAA-AGTGCCACGGAGTTGTGGAC-TTAAAAGGAA
1265744 AAAGGTGCCACGGAGTTGTGGACTTAAAAG
64 AAAGGTGCCACGGAGTTGTGGACTTAAAAG
* * *
1265774 GGTGCCATAGAGTTATGGACTTTGAAAA-GAAAAAGGTGCCACAGAGTTGTGGACTTAAAAGGAA
1 GGTGCCACAGAGTTATGGAC-TT-AAAAGGAAAAAAGTGCCACGGAGTTGTGGACTTAAAAGGAA
* * *
1265838 AAAGAGTGCCACAGAGTTGTGGGCTTTAAAG
64 AAAG-GTGCCACGGAGTTGTGGACTTAAAAG
* *
1265869 GGTGCCACAGAGTTGTGGACTTTGAAAA-G-AAAAAGCTGCCACAGAGT
1 GGTGCCACAGAGTTATGGAC-TT-AAAAGGAAAAAAG-TGCCACGGAGT
1265916 CATCGACTTT
Statistics
Matches: 536, Mismatches: 65, Indels: 20
0.86 0.10 0.03
Matches are distributed among these distances:
92 40 0.07
93 118 0.22
94 155 0.29
95 205 0.38
96 14 0.03
97 4 0.01
ACGTcount: A:0.36, C:0.12, G:0.31, T:0.21
Consensus pattern (93 bp):
GGTGCCACAGAGTTATGGACTTAAAAGGAAAAAAGTGCCACGGAGTTGTGGACTTAAAAGGAAAA
AGGTGCCACGGAGTTGTGGACTTAAAAG
Found at i:1265404 original size:61 final size:60
Alignment explanation
Indices: 1265339--1265835 Score: 372
Period size: 61 Copynumber: 8.0 Consensus size: 60
1265329 AGGAAAAAAA
* * *
1265339 GTGCCACGGAGTTATGGGCTTTAAAAAGAAAAAGGTGTCACGGAGTTGTGGACTTAAAAGG
1 GTGCCACGGAGTTGTGGAC-TTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
** * * * *
1265400 GTGCCACAAAGTTGTGGACTTTGAAACGAAAAAGGTGTCACGGAGTTGAGGACTTAAAAGG
1 GTGCCACGGAGTTGTGGAC-TTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
* **
1265461 AAAAAATGCCACGGAGTTGTGGACTT-AAAAG-----GGTGCCACGGAGTAATGGACTTAAAAGG
1 -----GTGCCACGGAGTTGTGGACTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAA-G
1265520 AACAAG
60 -----G
* * *
1265526 GTGCCATGGAGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAGG
1 GTGCCACGGAGTTGTGGACTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
* * *
1265586 GTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAATAAA
1 GTGCCACGGAGTTGTGGACTTAAAAAGAAAAAG-GTGCCACGGAGTTGTGGAC--T-----TAAA
*
1265651 AAG
58 AGG
* * *
1265654 GTGCCATGGAGTTGTGGACTT-AAAAG-----GGTGCAAC-GAGTTATGGACTTAAAAGGAAAAA
1 GTGCCACGGAGTTGTGGACTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAA-G-----
1265712 G
60 G
* *
1265713 AGTGTCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
1 -GTGCCACGGAGTTGTGGAC-TTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
** * * *
1265775 GTGCCATAGAGTTATGGACTTTGAAAAGAAAAAGGTGCCACAGAGTTGTGGACTTAAAAGG
1 GTGCCACGGAGTTGTGGAC-TTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
1265836 AAAAAGAGTG
Statistics
Matches: 351, Mismatches: 45, Indels: 80
0.74 0.09 0.17
Matches are distributed among these distances:
53 5 0.01
58 1 0.00
59 23 0.07
60 77 0.22
61 137 0.39
62 7 0.02
63 1 0.00
64 4 0.01
65 4 0.01
66 39 0.11
67 12 0.03
68 41 0.12
ACGTcount: A:0.35, C:0.12, G:0.31, T:0.21
Consensus pattern (60 bp):
GTGCCACGGAGTTGTGGACTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
Found at i:1265543 original size:281 final size:282
Alignment explanation
Indices: 1265211--1265882 Score: 1010
Period size: 281 Copynumber: 2.4 Consensus size: 282
1265201 AAAAGAAGAA
* * * *
1265211 GGTGCAACGGAGTCATGGACATAAAAGGAACAAGGTTCCACGGAGTTGTGGACTTAAAAGGAAAA
1 GGTGCCACGGAGTAATGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAA
1265276 AGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTATAGACTTAAAAGGAAAAAAAGT
66 AGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTATAGACTTAAAAGGAAAAAAAGT
* *
1265341 GCCACGGAGTTATGGGCTTTAAAAAGAAAAAGGTGTCACGGAGTTGTGGACTTAAAAGGGTGCCA
131 GCCACGGAGTTATGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCAA
* * *
1265406 CAAAGTTGTGGACTTTGAAACGAAAAAG-GTGTCACGGAGTTGAGGAC-TTAAAAGGAAAAA-AT
196 C-AAGTTATGGAC-TTAAAACGAAAAAGAGTGTCACGGAGTTGAGGACTTTAAAAAGAAAAAGAT
1265468 GCCACGGAGTTGTGGACTTAAAAG
259 GCCACGGAGTTGTGGACTTAAAAG
*
1265492 GGTGCCACGGAGTAATGGACTTAAAAGGAACAAGGTGCCATGGAGTTGTGGACTTAAAAGGAAAA
1 GGTGCCACGGAGTAATGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAA
* * *
1265557 AGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGT
66 AGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTATAGACTTAAAAGGAAAAAAAGT
* * *
1265622 GCCACGGAGTTGTGGGCTTTAAAAATAAAAAGGTGCCATGGAGTTGTGGACTTAAAAGGGTGCAA
131 GCCACGGAGTTATGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCAA
* * * * *
1265687 CGAGTTATGGACTTAAAAGGAAAAAGAGTGTCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGC
196 CAAGTTATGGACTTAAAACGAAAAAGAGTGTCACGGAGTTGAGGACTTTAAAAAGAAAAAGATGC
1265752 CACGGAGTTGTGGACTTAAAAG
261 CACGGAGTTGTGGACTTAAAAG
** * * *
1265774 GGTGCCATAGAGTTATGGACTTTGAAAA-GAAAAAGGTGCCACAGAGTTGTGGACTTAAAAGGAA
1 GGTGCCACGGAGTAATGGAC-TT-AAAAGGAACAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* * *
1265838 AAAGAGTGCCACAGAGTTGTGGGCTTTAAAGGGTGCCACAGAGTT
64 AAAGA-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTT
1265883 GTGGACTTTG
Statistics
Matches: 355, Mismatches: 30, Indels: 9
0.90 0.08 0.02
Matches are distributed among these distances:
279 12 0.03
280 26 0.07
281 195 0.55
282 42 0.12
283 40 0.11
284 40 0.11
ACGTcount: A:0.36, C:0.12, G:0.31, T:0.21
Consensus pattern (282 bp):
GGTGCCACGGAGTAATGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAA
AGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTATAGACTTAAAAGGAAAAAAAGT
GCCACGGAGTTATGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCAA
CAAGTTATGGACTTAAAACGAAAAAGAGTGTCACGGAGTTGAGGACTTTAAAAAGAAAAAGATGC
CACGGAGTTGTGGACTTAAAAG
Found at i:1265924 original size:95 final size:94
Alignment explanation
Indices: 1264442--1265915 Score: 993
Period size: 94 Copynumber: 15.6 Consensus size: 94
1264432 CTAGCGATAT
** * * *
1264442 TGGACTT-AAA-GGTGCCATGGAGTTGTAGACTTACAA-GAAAAAGGGATGCCACGGAAG-TGTG
1 TGGACTTAAAAGGGTGCCACAGAGTTATGGACTTAAAAGGAAAAA-GG-TGCCACGG-AGTTGTG
* * * ** *
1264503 GGCTTAAAAGGGAAAAGGGTGCCATAGAGTCG
63 GACTTAAAAGGAAAAAGAGTGCCACGGAGTTG
* *
1264535 TGGACTTAAAAAGAAAAGGTGCCA-AGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTT
1 TGGACTT-AAAAG----GGTGCCACA-GAGTTATGGACTTAAAAGGAAAAAGGTGCCACGGAGTT
* * *
1264599 GTGGACTTAAAAGGAAAAAGA-TACCATGGAGTTA
60 GTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTG
* * * * * * * *
1264633 TGGACTTAAAAGGTTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAATGTGCCACAGAGTTATGGA
1 TGGACTTAAAAGGGTGCCACAGAGTTATGGAC-TTAAAAGGAAAAAGGTGCCACGGAGTTGTGGA
*
1264698 CTTAAAA-G-----G-GTGCCACAGAGTTG
65 CTTAAAAGGAAAAAGAGTGCCACGGAGTTG
* * * * *
1264721 TGAACTTTGAAAAGAAAAAGGTGCCACAAAGTTGTAGACTTAAAAGGAAAAAGATGCCACGGAGT
1 TGGAC-TT-AAAAG-----GGTGCCACAGAGTTATGGACTTAAAAGGAAAAAGGTGCCACGGAGT
* *
1264786 TGTGGACTTAAAA-G-----G-GTGCGACAGAGTTG
59 TGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTG
* * * * *
1264815 TGGACTTAAAAGGAAAAAGAGGGCCACAGAGTTGTAGG-CTTTAAAAAGAAAAAGGTGCCGCAGA
1 TGGACTTAAAA-G-----G-GTGCCACAGAGTTAT-GGAC-TTAAAAGGAAAAAGGTGCCACGGA
* **
1264879 GTTGTGGACTT------AAAAAG-GTGCCACAGAGTCA
57 GTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTG
* *
1264910 TGGACTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAA-G-----GGTGCCACGGAGTT
1 TGGACTT-AAAAG-----GGTGCCACAGAGTTATGGACTTAAAAGGAAAAAGGTGCCACGGAGTT
* * * *
1264969 ATGGACTAAAAAGGAAAAAGAGTGCCACAGAATTG
60 GTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTG
** ** * **
1265004 CTGG-CTTTATAAAGAAAAAGGTGCCATTGAGTTGCGGACTTAAAA-G-----TGTGCCACAAAG
1 -TGGAC-TTA-AAAG-----GGTGCCACAGAGTTATGGACTTAAAAGGAAAAAGGTGCCACGGAG
* **
1265062 TTGTGGACTTTGAAAA-GAAAAAG-GTGCCACAGAGTCA
58 TTGTGGAC-TT-AAAAGGAAAAAGAGTGCCACGGAGTTG
* * *
1265099 TGGACTTAAAAAGAAAAAAGTGCCACGGAGTTATGGACTTAAAA-G-----GGTGCCACGGGGTT
1 TGGACTT-AAAAG-----GGTGCCACAGAGTTATGGACTTAAAAGGAAAAAGGTGCCACGGAGTT
* * *
1265158 GTGGACTTAAAAGG-AAAAGAAGTGGCTCGGACTT-
60 GTGGACTTAAAAGGAAAAAG-AGTGCCACGGAGTTG
* * * * * *
1265192 TGCG-CTTTAAAAAGAAGAAGGTGCAACGGAGTCATGGACATAAAAGGAACAAGGTTCCACGGAG
1 TG-GAC-TT---AA-AAG--GGTGCCACAGAGTTATGGACTTAAAAGGAAAAAGGTGCCACGGAG
1265256 TTGTGGACTTAAAAGGAAAAAGA-TGCCACGGAGTTG
58 TTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTG
* * * *
1265292 TGGACTTAAAAGGGTGCCACAGAGTTATAGACTTAAAAGGAAAAAAAGTGCCACGGAGTTATGGG
1 TGGACTTAAAAGGGTGCCACAGAGTTATGGACTTAAAAGG-AAAAAGGTGCCACGGAGTTGTGGA
* *
1265357 CTTTAAAAAGAAAAAG-GTGTCACGGAGTTG
65 C-TTAAAAGGAAAAAGAGTGCCACGGAGTTG
* * * * * *
1265387 TGGACTTAAAAGGGTGCCACAAAGTTGTGGACTTTGAAACGAAAAAGGTGTCACGGAGTTGAGGA
1 TGGACTTAAAAGGGTGCCACAGAGTTATGGAC-TTAAAAGGAAAAAGGTGCCACGGAGTTGTGGA
1265452 CTTAAAAGGAAAAA-A-TGCCACGGAGTTG
65 CTTAAAAGGAAAAAGAGTGCCACGGAGTTG
* * * *
1265480 TGGACTTAAAAGGGTGCCACGGAGTAATGGACTTAAAAGGAACAAGGTGCCATGGAGTTGTGGAC
1 TGGACTTAAAAGGGTGCCACAGAGTTATGGACTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGAC
1265545 TTAAAAGGAAAAAGA-TGCCACGGAGTTG
66 TTAAAAGGAAAAAGAGTGCCACGGAGTTG
* *
1265573 TGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGG
1 TGGACTTAAAAGGGTGCCACAGAGTTATGGACTTAAAAGGAAAAAG-GTGCCACGGAGTTGTGGA
** *
1265638 CTTTAAAAATAAAAAG-GTGCCATGGAGTTG
65 C-TTAAAAGGAAAAAGAGTGCCACGGAGTTG
* * *
1265668 TGGACTTAAAAGGGTGCAAC-GAGTTATGGACTTAAAAGGAAAAAGAGTGTCACGGAGTTGTGGG
1 TGGACTTAAAAGGGTGCCACAGAGTTATGGACTTAAAAGGAAAAAG-GTGCCACGGAGTTGTGGA
*
1265732 CTTTAAAAAGAAAAAG-GTGCCACGGAGTTG
65 C-TTAAAAGGAAAAAGAGTGCCACGGAGTTG
* *
1265762 TGGACTTAAAAGGGTGCCATAGAGTTATGGACTTTGAAAA-GAAAAAGGTGCCACAGAGTTGTGG
1 TGGACTTAAAAGGGTGCCACAGAGTTATGGAC-TT-AAAAGGAAAAAGGTGCCACGGAGTTGTGG
*
1265826 ACTTAAAAGGAAAAAGAGTGCCACAGAGTTG
64 ACTTAAAAGGAAAAAGAGTGCCACGGAGTTG
* * * * *
1265857 TGGGCTTTAAAGGGTGCCACAGAGTTGTGGACTTTGAAAA-GAAAAAGCTGCCACAGAGT
1 TGGACTTAAAAGGGTGCCACAGAGTTATGGAC-TT-AAAAGGAAAAAGGTGCCACGGAGT
1265916 CATCGACTTT
Statistics
Matches: 1157, Mismatches: 149, Indels: 148
0.80 0.10 0.10
Matches are distributed among these distances:
87 18 0.02
88 14 0.01
89 2 0.00
90 5 0.00
92 54 0.05
93 172 0.15
94 365 0.32
95 358 0.31
96 32 0.03
97 16 0.01
98 18 0.02
99 39 0.03
100 54 0.05
101 10 0.01
ACGTcount: A:0.37, C:0.13, G:0.30, T:0.20
Consensus pattern (94 bp):
TGGACTTAAAAGGGTGCCACAGAGTTATGGACTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGAC
TTAAAAGGAAAAAGAGTGCCACGGAGTTG
Found at i:1265970 original size:61 final size:61
Alignment explanation
Indices: 1265905--1266111 Score: 274
Period size: 61 Copynumber: 3.4 Consensus size: 61
1265895 AAGAAAAAGC
* * * * * *
1265905 TGCCACAGAGTCATCGACTTTG-GGAAGAGATGCCACTAAGTGATAGACTTTGAGAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAGATGCCACTAAGTGATGGACTTTGAGAAGAGA
*
1265965 TTGCCACTGAGTCGTGGACTTTGAAGAAAAGATGCCACTAAGTCG-TGGACTTTGGGAAGAGA
1 -TGCCACTGAGTCGTGGACTTTGAAGAAAAGATGCCACTAAGT-GATGGACTTTGAGAAGAGA
* * * *
1266027 TGCCACTGAGTCGTGGACTTAGAAGAAAAGATGCCACTAAGTCATGGACTTAGAAAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAGATGCCACTAAGTGATGGACTTTGAGAAGAGA
*
1266088 TGCCACTGAGTTGTGGACTTTGAA
1 TGCCACTGAGTCGTGGACTTTGAA
1266112 AAGAGAGATT
Statistics
Matches: 129, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
61 96 0.74
62 32 0.25
63 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.29, T:0.23
Consensus pattern (61 bp):
TGCCACTGAGTCGTGGACTTTGAAGAAAAGATGCCACTAAGTGATGGACTTTGAGAAGAGA
Found at i:1265985 original size:31 final size:30
Alignment explanation
Indices: 1265905--1266117 Score: 230
Period size: 30 Copynumber: 7.0 Consensus size: 30
1265895 AAGAAAAAGC
* * * *
1265905 TGCCACAGAGTCATCGACTTTGGGAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGA
* *
1265935 TGCCACTAAGT-GATAGACTTTGAGAAGAGA
1 TGCCACTGAGTCG-TGGACTTTGAGAAGAGA
*
1265965 TTGCCACTGAGTCGTGGACTTTGAAGAAAAGA
1 -TGCCACTGAGTCGTGGACTTTG-AGAAGAGA
* *
1265997 TGCCACTAAGTCGTGGACTTTGGGAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGA
* *
1266027 TGCCACTGAGTCGTGGACTTAGAAGAAAAGA
1 TGCCACTGAGTCGTGGACTTTG-AGAAGAGA
* * * *
1266058 TGCCACTAAGTCATGGACTTAGAAAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGA
* *
1266088 TGCCACTGAGTTGTGGACTTTGAAAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGA
1266118 GATTTGAAGA
Statistics
Matches: 155, Mismatches: 23, Indels: 10
0.82 0.12 0.05
Matches are distributed among these distances:
30 82 0.53
31 65 0.42
32 8 0.05
ACGTcount: A:0.33, C:0.16, G:0.29, T:0.23
Consensus pattern (30 bp):
TGCCACTGAGTCGTGGACTTTGAGAAGAGA
Found at i:1267400 original size:14 final size:13
Alignment explanation
Indices: 1267383--1267412 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
1267373 GCCTTTGCAC
1267383 TTTTTTTTGTGTGT
1 TTTTTTTTGTGT-T
1267397 TTTTTTTTGTGTT
1 TTTTTTTTGTGTT
1267410 TTT
1 TTT
1267413 ACTTTTGACT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.83
Consensus pattern (13 bp):
TTTTTTTTGTGTT
Found at i:1267419 original size:14 final size:12
Alignment explanation
Indices: 1267383--1267412 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
1267373 GCCTTTGCAC
1267383 TTTTTTTTGTGTG
1 TTTTTTTT-TGTG
1267396 TTTTTTTTTGTG
1 TTTTTTTTTGTG
1267408 TTTTT
1 TTTTT
1267413 ACTTTTGACT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.53
13 8 0.47
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.83
Consensus pattern (12 bp):
TTTTTTTTTGTG
Found at i:1276735 original size:32 final size:31
Alignment explanation
Indices: 1276699--1276790 Score: 114
Period size: 32 Copynumber: 2.9 Consensus size: 31
1276689 GACTTACGTA
1276699 GGCTTAAAAAAAAGGTGCCACTAACTTGTGTG
1 GGCTT-AAAAAAAGGTGCCACTAACTTGTGTG
* *
1276731 GGCTTTAAAAAGAGTTGCCACTAACTTGTGTG
1 GGC-TTAAAAAAAGGTGCCACTAACTTGTGTG
** *
1276763 GGCTT-TGAAAGGGTGCCACTAACTTGTG
1 GGCTTAAAAAAAGGTGCCACTAACTTGTG
1276791 GAGTTTGAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
30 18 0.35
31 2 0.04
32 30 0.58
33 2 0.04
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.28
Consensus pattern (31 bp):
GGCTTAAAAAAAGGTGCCACTAACTTGTGTG
Found at i:1276799 original size:28 final size:30
Alignment explanation
Indices: 1276712--1276835 Score: 139
Period size: 28 Copynumber: 4.2 Consensus size: 30
1276702 TTAAAAAAAA
*
1276712 GGTGCCACTAACTTGTGTGGGCTTTAAAAAG
1 GGTGCCACTAACTTGTGTGGGCTTT-GAAAG
*
1276743 AGTTGCCACTAACTTGTGTGGGCTTTGAAAG
1 -GGTGCCACTAACTTGTGTGGGCTTTGAAAG
* *
1276774 GGTGCCACTAACTTGTG-GAG-TTTGAAAT
1 GGTGCCACTAACTTGTGTGGGCTTTGAAAG
* * *
1276802 GATGCCACTAAC-T-TGTGGGCTTTTAAAT
1 GGTGCCACTAACTTGTGTGGGCTTTGAAAG
1276830 GGTGCC
1 GGTGCC
1276836 TTTGAAAGGA
Statistics
Matches: 81, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
26 2 0.02
27 3 0.04
28 30 0.37
29 2 0.02
30 16 0.20
31 4 0.05
32 24 0.30
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.31
Consensus pattern (30 bp):
GGTGCCACTAACTTGTGTGGGCTTTGAAAG
Found at i:1276875 original size:28 final size:28
Alignment explanation
Indices: 1276835--1277151 Score: 429
Period size: 28 Copynumber: 11.3 Consensus size: 28
1276825 TAAATGGTGC
*
1276835 CTTTGAAAGGATGCCACTGACTTGTGGG
1 CTTTGAAAGGATGCCACTAACTTGTGGG
*
1276863 CTTTGAAAGGATGCCGCTAACTTGTGGG
1 CTTTGAAAGGATGCCACTAACTTGTGGG
** *
1276891 CTTTGAAAAAAGTGCCACTGACTTGTGGG
1 CTTTGAAAGGA-TGCCACTAACTTGTGGG
* *
1276920 CTTTGAAATGATGCCGCTAACTTGTGGG
1 CTTTGAAAGGATGCCACTAACTTGTGGG
*
1276948 CTTTGAAATGG-TGCCACTGACTTGTGGG
1 CTTTGAAA-GGATGCCACTAACTTGTGGG
* * *
1276976 CTTTGAAATGATGCCACTACCTTATGGG
1 CTTTGAAAGGATGCCACTAACTTGTGGG
* *
1277004 CTTTGAAATGATGCCACTAATTTGTGGG
1 CTTTGAAAGGATGCCACTAACTTGTGGG
*
1277032 CTTTAAAAGGATGCCACTAACTTGTGGG
1 CTTTGAAAGGATGCCACTAACTTGTGGG
* *
1277060 CTTTGAAAAGATGCCACTAACTTGGGGG
1 CTTTGAAAGGATGCCACTAACTTGTGGG
* *
1277088 CTTTGAAAGAATGCCACTGACTTGTGGG
1 CTTTGAAAGGATGCCACTAACTTGTGGG
* *
1277116 CTTTGAAAGGATGCGACTGACTTGTGGG
1 CTTTGAAAGGATGCCACTAACTTGTGGG
1277144 CTTTGAAA
1 CTTTGAAA
1277152 AGGGTCGTAT
Statistics
Matches: 254, Mismatches: 32, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
27 1 0.00
28 228 0.90
29 25 0.10
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.30
Consensus pattern (28 bp):
CTTTGAAAGGATGCCACTAACTTGTGGG
Found at i:1276916 original size:127 final size:131
Alignment explanation
Indices: 1276709--1277095 Score: 352
Period size: 127 Copynumber: 2.9 Consensus size: 131
1276699 GGCTTAAAAA
* *
1276709 AAAGGTGCCACTAACTTGTGTGGGCTTTAAAAAGAGTTGCCACTAACTTGTGTGGGCTTTGAAAG
1 AAAGGTGCCACTAACTTGTGTGGGCTTTAAAAAGAGATGCCACTAACTTGTGTGGGCTTTGAAAA
* *
1276774 GGTGCCACTAACTTGTGGAG-TTTGAAATGATGCCACTAACTTGTGGGCTTTTAAATGGTGCCTT
66 AGTGCCACTAACTTGTGG-GCTTTGAAATGATGCCACTAACTTGTGGGCTTTGAAATGGTGCCTT
1276838 TG
130 TG
* * *
1276840 AAAGGATGCCACTGAC-T-TGTGGGCTTT-GAAAG-GATGCCGCTAAC-T-TGTGGGCTTTGAAA
1 AAAGG-TGCCACTAACTTGTGTGGGCTTTAAAAAGAGATGCCACTAACTTGTGTGGGCTTTG-AA
* *
1276899 AAAGTGCCACTGACTTGTGGGCTTTGAAATGATGCCGCTAACTTGTGGGCTTTGAAATGGTGCCA
64 AAAGTGCCACTAACTTGTGGGCTTTGAAATGATGCCACTAACTTGTGGGCTTTGAAAT-G-G---
1276964 CTGACTTGTGGGCTTTG
124 -TG-C-------CTTTG
* * * * *
1276981 AAATGATGCCACT-ACCT-TATGGGCTTT-GAAA-TGATGCCACTAA-TT-TGTGGGCTTT-AAA
1 AAA-GGTGCCACTAACTTGTGTGGGCTTTAAAAAGAGATGCCACTAACTTGTGTGGGCTTTGAAA
* * *
1277039 AGGATGCCACTAACTTGTGGGCTTTGAAAAGATGCCACTAACTTGGGGGCTTTGAAA
65 AAG-TGCCACTAACTTGTGGGCTTTGAAATGATGCCACTAACTTGTGGGCTTTGAAA
1277096 GAATGCCACT
Statistics
Matches: 217, Mismatches: 17, Indels: 35
0.81 0.06 0.13
Matches are distributed among these distances:
126 12 0.06
127 54 0.25
128 11 0.05
129 5 0.02
130 10 0.05
131 6 0.03
132 9 0.04
133 2 0.01
134 1 0.00
139 5 0.02
140 51 0.24
141 50 0.23
142 1 0.00
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (131 bp):
AAAGGTGCCACTAACTTGTGTGGGCTTTAAAAAGAGATGCCACTAACTTGTGTGGGCTTTGAAAA
AGTGCCACTAACTTGTGGGCTTTGAAATGATGCCACTAACTTGTGGGCTTTGAAATGGTGCCTTT
G
Found at i:1278951 original size:12 final size:11
Alignment explanation
Indices: 1278928--1279001 Score: 62
Period size: 11 Copynumber: 6.7 Consensus size: 11
1278918 ATCTAGACCC
1278928 TTTTTTTGTTTG
1 TTTTTTT-TTTG
1278940 TCTTTTTTTTTG
1 T-TTTTTTTTTG
*
1278952 -TTTTTTTTGG
1 TTTTTTTTTTG
* *
1278962 GTTTTTTGTT-
1 TTTTTTTTTTG
*
1278972 TTTTTTTTTGG
1 TTTTTTTTTTG
**
1278983 TTTTTTTTGGG
1 TTTTTTTTTTG
1278994 TTTTTTTT
1 TTTTTTTT
1279002 GGTTGCATTT
Statistics
Matches: 52, Mismatches: 7, Indels: 7
0.79 0.11 0.11
Matches are distributed among these distances:
10 16 0.31
11 25 0.48
12 5 0.10
13 6 0.12
ACGTcount: A:0.00, C:0.01, G:0.16, T:0.82
Consensus pattern (11 bp):
TTTTTTTTTTG
Found at i:1278976 original size:30 final size:31
Alignment explanation
Indices: 1278936--1278999 Score: 112
Period size: 31 Copynumber: 2.1 Consensus size: 31
1278926 CCTTTTTTTG
1278936 TTTGTCTTTTTTTTT-GTTTTTTTTGGGTTT
1 TTTGTCTTTTTTTTTGGTTTTTTTTGGGTTT
*
1278966 TTTGTTTTTTTTTTTGGTTTTTTTTGGGTTT
1 TTTGTCTTTTTTTTTGGTTTTTTTTGGGTTT
1278997 TTT
1 TTT
1279000 TTGGTTGCAT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 14 0.44
31 18 0.56
ACGTcount: A:0.00, C:0.02, G:0.17, T:0.81
Consensus pattern (31 bp):
TTTGTCTTTTTTTTTGGTTTTTTTTGGGTTT
Found at i:1279002 original size:11 final size:11
Alignment explanation
Indices: 1278942--1279003 Score: 69
Period size: 11 Copynumber: 5.9 Consensus size: 11
1278932 TTTGTTTGTC
*
1278942 TTTTTTTT-TG
1 TTTTTTTTGGG
1278952 TTTTTTTTGGG
1 TTTTTTTTGGG
1278963 TTTTTTGTT---
1 TTTTTT-TTGGG
*
1278972 TTTTTTTTTGG
1 TTTTTTTTGGG
1278983 TTTTTTTTGGG
1 TTTTTTTTGGG
1278994 TTTTTTTTGG
1 TTTTTTTTGG
1279004 TTGCATTTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
8 2 0.04
9 6 0.13
10 8 0.18
11 27 0.60
12 2 0.04
ACGTcount: A:0.00, C:0.00, G:0.19, T:0.81
Consensus pattern (11 bp):
TTTTTTTTGGG
Found at i:1279003 original size:21 final size:19
Alignment explanation
Indices: 1278943--1279005 Score: 81
Period size: 21 Copynumber: 3.1 Consensus size: 19
1278933 TTGTTTGTCT
1278943 TTTTTTTTGTTTTTTTTGGG
1 TTTTTTTTGTTTTTTTT-GG
*
1278963 TTTTTTGTTTTTTTTTTTGG
1 TTTTTT-TTGTTTTTTTTGG
1278983 TTTTTTTTGGGTTTTTTTTGG
1 TTTTTTTT--GTTTTTTTTGG
1279004 TT
1 TT
1279006 GCATTTTTGG
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
19 2 0.05
20 14 0.37
21 22 0.58
ACGTcount: A:0.00, C:0.00, G:0.19, T:0.81
Consensus pattern (19 bp):
TTTTTTTTGTTTTTTTTGG
Found at i:1279019 original size:21 final size:21
Alignment explanation
Indices: 1278951--1279020 Score: 63
Period size: 21 Copynumber: 3.3 Consensus size: 21
1278941 CTTTTTTTTT
* *
1278951 GTTTTTTTTGGGT-TTTTTGTT
1 GTTTTTTTTGGTTATTTTTG-G
* *
1278972 TTTTTTTTTGGTTTTTTTTGG
1 GTTTTTTTTGGTTATTTTTGG
1278993 GTTTTTTTTGGTTGCATTTTT-G
1 GTTTTTTTTGGTT--ATTTTTGG
1279015 GTTTTT
1 GTTTTT
1279021 GTTGCAAGAA
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
21 23 0.56
22 13 0.32
23 5 0.12
ACGTcount: A:0.01, C:0.01, G:0.21, T:0.76
Consensus pattern (21 bp):
GTTTTTTTTGGTTATTTTTGG
Found at i:1287353 original size:21 final size:20
Alignment explanation
Indices: 1287324--1287364 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
1287314 TGTGAGTGTA
*
1287324 GGGGCTGCCCGGTTGCGACCT
1 GGGGCTG-CCGATTGCGACCT
*
1287345 GGGGGTGCCGATTGCGACCT
1 GGGGCTGCCGATTGCGACCT
1287365 AGTGAGTGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.07, C:0.29, G:0.44, T:0.20
Consensus pattern (20 bp):
GGGGCTGCCGATTGCGACCT
Found at i:1287826 original size:13 final size:13
Alignment explanation
Indices: 1287808--1287833 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1287798 ATAAACCCTT
1287808 TGTATCGATACAA
1 TGTATCGATACAA
1287821 TGTATCGATACAA
1 TGTATCGATACAA
1287834 AGAATGCTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1288048 original size:8 final size:8
Alignment explanation
Indices: 1288035--1288060 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
1288025 AACATCATTC
1288035 ATCACAAA
1 ATCACAAA
1288043 ATCACAAA
1 ATCACAAA
1288051 ATCACAAA
1 ATCACAAA
1288059 AT
1 AT
1288061 TTAATCAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.62, C:0.23, G:0.00, T:0.15
Consensus pattern (8 bp):
ATCACAAA
Found at i:1294020 original size:13 final size:13
Alignment explanation
Indices: 1294002--1294027 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1293992 CATTTTGGGA
1294002 TGTATCGATACAT
1 TGTATCGATACAT
1294015 TGTATCGATACAT
1 TGTATCGATACAT
1294028 CTTGTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1294021 original size:33 final size:32
Alignment explanation
Indices: 1293979--1294045 Score: 107
Period size: 33 Copynumber: 2.1 Consensus size: 32
1293969 CGTTACAAGC
*
1293979 CATTGTATCGATACATTTTGGGATGTATCGATA
1 CATTGTATCGATACATCTTGGG-TGTATCGATA
*
1294012 CATTGTATCGATACATCTTGTGTGTATCGATA
1 CATTGTATCGATACATCTTGGGTGTATCGATA
1294044 CA
1 CA
1294046 AACAGTTAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.38
33 20 0.62
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.39
Consensus pattern (32 bp):
CATTGTATCGATACATCTTGGGTGTATCGATA
Found at i:1297548 original size:43 final size:43
Alignment explanation
Indices: 1297465--1298426 Score: 608
Period size: 43 Copynumber: 22.6 Consensus size: 43
1297455 ACCCTCAGTT
* *
1297465 TGCCTGTCGGCTTTG-CCCTAGAGACTTTCCTATCCC-TAAGTC
1 TGCCTGTCGGCTTTGACCCTGGAGACTTTTCTA-CCCTTAAGTC
1297507 TGCCTGTCGGCTTTGACCCTGGAGACTTTT-TCACCCTTAAGTC
1 TGCCTGTCGGCTTTGACCCTGGAGACTTTTCT-ACCCTTAAGTC
* * * * * * *
1297550 TGCCTATCGGGTTTAACTCTGAAGACTTTCCTATCCC-TAAGTT
1 TGCCTGTCGGCTTTGACCCTGGAGACTTTTCTA-CCCTTAAGTC
* * *
1297593 TGCCTATCGACTTTGACCCTAGAGACTTTTCTATCCC-TAAGTC
1 TGCCTGTCGGCTTTGACCCTGGAGACTTTTCTA-CCCTTAAGTC
* * * * *
1297636 TGTCTTTCGACTTTGACCTTGGAGACTTCTTC-ACCTTTAAGTC
1 TGCCTGTCGGCTTTGACCCTGGAGACTT-TTCTACCCTTAAGTC
* * * * *
1297679 TGCCCGTCAGCTTTGACCCTGGAAACTTTCCTACCCTTCAGTC
1 TGCCTGTCGGCTTTGACCCTGGAGACTTTTCTACCCTTAAGTC
** ** ** * * *
1297722 TGCCTGTCAACTTTGACCCCAGAGAC-TGCCT-CATCTAAAGTT
1 TGCCTGTCGGCTTTGACCCTGGAGACTTTTCTAC-CCTTAAGTC
* ** * *
1297764 TGCCTGTCGGCTTTGACCTTCAAGACTTTTCTATCCC-TAATTT
1 TGCCTGTCGGCTTTGACCCTGGAGACTTTTCTA-CCCTTAAGTC
* * *
1297807 TGCCTGTCAGCTTTGA-CC-GAGAGACTTTCCTACCCTTCAGTC
1 TGCCTGTCGGCTTTGACCCTG-GAGACTTTTCTACCCTTAAGTC
* * * * ** * *
1297849 TACCTATCGACTTTGACCCATGGAGA-ATGCCT-CATCTAAAGTC
1 TGCCTGTCGGCTTTGACCC-TGGAGACTTTTCTAC-CCTTAAGTC
* * * * * *
1297892 TGCCTGTCGGCTTTGACCTTAGAGACTTTCCTACCATTTAGTT
1 TGCCTGTCGGCTTTGACCCTGGAGACTTTTCTACCCTTAAGTC
* * ** * *
1297935 TGCCTATCGACTTTGACCCTGGAGAC-TGCCT-CATCTAAAGTC
1 TGCCTGTCGGCTTTGACCCTGGAGACTTTTCTAC-CCTTAAGTC
* * * *
1297977 TGCCTGTCCGCTTTGATCCTGGAGACTTTCCTATCCC-TAAGTT
1 TGCCTGTCGGCTTTGACCCTGGAGACTTTTCTA-CCCTTAAGTC
* * * * *
1298020 TGCCTGTTGACTTTGA-CCTAGATACTTTCCTACCCTTAAGTC
1 TGCCTGTCGGCTTTGACCCTGGAGACTTTTCTACCCTTAAGTC
** * * *
1298062 TGTTTGTCAGCTTTGACCCTAGAGAC-TTTCTTACCCTTTAGTC
1 TGCCTGTCGGCTTTGACCCTGGAGACTTTTC-TACCCTTAAGTC
* * * * *
1298105 TACTTGTTGGCTTTGACCCTAGAGACTTTCCTATCCC-TAAGTC
1 TGCCTGTCGGCTTTGACCCTGGAGACTTTTCTA-CCCTTAAGTC
* * * *
1298148 TGCCCGTCAGCTTTGACCCTAGAGAC-TTTCTTACCCTTCAGTC
1 TGCCTGTCGGCTTTGACCCTGGAGACTTTTC-TACCCTTAAGTC
** * ** * *
1298191 TAACTGTCGGCTTTGACCCTAGAGAC-TGCCT-CATCTAAAGTC
1 TGCCTGTCGGCTTTGACCCTGGAGACTTTTCTAC-CCTTAAGTC
* * * *
1298233 TGCCTGTTGGCTTTGACCCTGAAGACTTTCCTATCCC-TAAATC
1 TGCCTGTCGGCTTTGACCCTGGAGACTTTTCTA-CCCTTAAGTC
* * * * *
1298276 TGCCTGTCAGCTTTGACCTTGGAGACTTTCCAACCCTTCAGTC
1 TGCCTGTCGGCTTTGACCCTGGAGACTTTTCTACCCTTAAGTC
* * * ** * *
1298319 TACTTGTCAGCTTTGACCCTGGAGAC-TGCCT-CATCTAAAGTC
1 TGCCTGTCGGCTTTGACCCTGGAGACTTTTCTAC-CCTTAAGTC
* *
1298361 TACCTGTCGACTTTGACCCTGGAGACTTTTCTACCCTT-AGTC
1 TGCCTGTCGGCTTTGACCCTGGAGACTTTTCTACCCTTAAGTC
*
1298403 TGCCTGTCGGCTTTGACCTTGGAG
1 TGCCTGTCGGCTTTGACCCTGGAG
1298427 CCTGCCTCAT
Statistics
Matches: 711, Mismatches: 170, Indels: 78
0.74 0.18 0.08
Matches are distributed among these distances:
41 10 0.01
42 241 0.34
43 434 0.61
44 22 0.03
45 4 0.01
ACGTcount: A:0.18, C:0.30, G:0.18, T:0.35
Consensus pattern (43 bp):
TGCCTGTCGGCTTTGACCCTGGAGACTTTTCTACCCTTAAGTC
Found at i:1297863 original size:85 final size:85
Alignment explanation
Indices: 1297456--1298420 Score: 520
Period size: 85 Copynumber: 11.3 Consensus size: 85
1297446 TCTTTTTATA
* * * * * *
1297456 CCCTCAGTTTGCCTGTCGGCTTTG-CCCTAGAGACTTTCCTATCCC-TAAGTCTGCCTGTCGGCT
1 CCCTAAGTCTGCCTGTCAGCTTTGACCCTAGAGACTTTCCTA-CCCTTCAGTCTACCTGTCGACT
* *
1297519 TTGACCCTGGAGACTTT-TTCA-
65 TTGACCCT-AAGACTTTCCT-AT
* * * * * * * * *
1297540 CCCTTAAGTCTGCCTATCGGGTTTAACTCT-GAAGACTTTCCTATCCC-TAAGTTTGCCTATCGA
1 CCC-TAAGTCTGCCTGTCAGCTTTGACCCTAG-AGACTTTCCTA-CCCTTCAGTCTACCTGTCGA
*
1297603 CTTTGACCCTAGAGACTTTTCTAT
63 CTTTGACCCTA-AGACTTTCCTAT
* * * * * * * * *
1297627 CCCTAAGTCTGTCTTTC-GACTTTGACCTTGGAGAC-TTCTTCACCTTTAAGTCTGCCCGTC-AG
1 CCCTAAGTCTGCCTGTCAG-CTTTGACCCTAGAGACTTTCCT-ACCCTTCAGTCTACCTGTCGA-
1297689 CTTTGACCCTGGAA-ACTTTCCTA-
63 CTTTGACCCT--AAGACTTTCCTAT
* * * * * ** * * *
1297712 CCCTTCAGTCTGCCTGTCAACTTTGACCCCAGAGAC-TGCCT-CATCTAAAGTTTGCCTGTCGGC
1 CCC-TAAGTCTGCCTGTCAGCTTTGACCCTAGAGACTTTCCTAC-CCTTCAGTCTACCTGTCGAC
* *
1297775 TTTGACCTTCAAGACTTTTCTAT
64 TTTGACCCT-AAGACTTTCCTAT
* * * *
1297798 CCCTAATTTTGCCTGTCAGCTTTGA-CCGAGAGACTTTCCTACCCTTCAGTCTACCTATCGACTT
1 CCCTAAGTCTGCCTGTCAGCTTTGACCCTAGAGACTTTCCTACCCTTCAGTCTACCTGTCGACTT
* * *
1297862 TGACCCATGGAGA-ATGCCTCAT
66 TGACCC-T-AAGACTTTCCT-AT
* * * * * * *
1297884 --CTAAAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTTCCTACCATTTAGTTTGCCTATCGACT
1 CCCT-AAGTCTGCCTGTCAGCTTTGACCCTAGAGACTTTCCTACCCTTCAGTCTACCTGTCGACT
* *
1297947 TTGACCCTGGAGAC-TGCCTCAT
65 TTGACCCT-AAGACTTTCCT-AT
* * * * * * *
1297969 --CTAAAGTCTGCCTGTCCGCTTTGATCCTGGAGACTTTCCTATCCC-TAAGTTTGCCTGTTGAC
1 CCCT-AAGTCTGCCTGTCAGCTTTGACCCTAGAGACTTTCCTA-CCCTTCAGTCTACCTGTCGAC
*
1298031 TTTGA-CCTAGATACTTTCCTA-
64 TTTGACCCTA-AGACTTTCCTAT
** * * * * *
1298052 CCCTTAAGTCTGTTTGTCAGCTTTGACCCTAGAGACTTTCTTACCCTTTAGTCTACTTGTTGGCT
1 CCC-TAAGTCTGCCTGTCAGCTTTGACCCTAGAGACTTTCCTACCCTTCAGTCTACCTGTCGACT
1298117 TTGACCCTAGAGACTTTCCTAT
65 TTGACCCTA-AGACTTTCCTAT
* * * *
1298139 CCCTAAGTCTGCCCGTCAGCTTTGACCCTAGAGACTTTCTTACCCTTCAGTCTAACTGTCGGCTT
1 CCCTAAGTCTGCCTGTCAGCTTTGACCCTAGAGACTTTCCTACCCTTCAGTCTACCTGTCGACTT
*
1298204 TGACCCTAGAGAC-TGCCTCAT
66 TGACCCTA-AGACTTTCCT-AT
** * * *
1298225 --CTAAAGTCTGCCTGTTGGCTTTGACCCT-GAAGACTTTCCTATCCC-TAAATCTGCCTGTC-A
1 CCCT-AAGTCTGCCTGTCAGCTTTGACCCTAG-AGACTTTCCTA-CCCTTCAGTCTACCTGTCGA
* * *
1298285 GCTTTGACCTTGGAGACTTTCC-AA
63 -CTTTGACCCT-AAGACTTTCCTAT
* * * * * * **
1298309 CCCTTCAGTCTACTTGTCAGCTTTGACCCTGGAGAC-TGCCT-CATCTAAAGTCTACCTGTCGAC
1 CCC-TAAGTCTGCCTGTCAGCTTTGACCCTAGAGACTTTCCTAC-CCTTCAGTCTACCTGTCGAC
* *
1298372 TTTGACCCTGGAGACTTTTCTA-
64 TTTGACCCT-AAGACTTTCCTAT
* *
1298394 CCCTTAGTCTGCCTGTCGGCTTTGACC
1 CCCTAAGTCTGCCTGTCAGCTTTGACC
1298421 TTGGAGCCTG
Statistics
Matches: 702, Mismatches: 129, Indels: 100
0.75 0.14 0.11
Matches are distributed among these distances:
83 1 0.00
84 51 0.07
85 340 0.48
86 298 0.42
87 11 0.02
88 1 0.00
ACGTcount: A:0.18, C:0.30, G:0.17, T:0.35
Consensus pattern (85 bp):
CCCTAAGTCTGCCTGTCAGCTTTGACCCTAGAGACTTTCCTACCCTTCAGTCTACCTGTCGACTT
TGACCCTAAGACTTTCCTAT
Found at i:1297907 original size:213 final size:213
Alignment explanation
Indices: 1297465--1298174 Score: 704
Period size: 213 Copynumber: 3.3 Consensus size: 213
1297455 ACCCTCAGTT
*
1297465 TGCCTGTCGGCTTTG-CCCTAGAGACTTTCCTATCCC-TAAGTCTGCCTGTCGGCTTTGACCCTG
1 TGCCTGTCGGCTTTGACCCTAGAGACTTTCCTA-CCCTTAAGTCTGCCTGTCGACTTTGACCCTG
*** * * * * *
1297528 GAGACTTTTTCACCCTTAAGTCTGCCTATCGGGTTT-AACTCTGAAGACTTTCCTATCCCTAAGT
65 GAGACTGCCTCA-TCTAAAGTCTGCCTGTCGGCTTTGACCT-TGAAGACTTTCCTATCCCTAAGT
* * ** * *
1297592 TTGCCTATCGACTTTGACCCTAGAGACTTTTCTATCCC-TAAGTCTGTCTTTCGACTTTGACCTT
128 TTGCCTGTCGACTTTGA-CCTAGAGACTTTCCTA-CCCTTAAGTCTACCTATCGACTTTGACCAT
* * * *
1297656 GGAGACTTCTTCACCTTTAAGTC
191 GGAGAATGCCTCACCTTAAAGTC
* * * * * * **
1297679 TGCCCGTCAGCTTTGACCCTGGAAACTTTCCTACCCTTCAGTCTGCCTGTCAACTTTGACCCCAG
1 TGCCTGTCGGCTTTGACCCTAGAGACTTTCCTACCCTTAAGTCTGCCTGTCGACTTTGACCCTGG
* * * *
1297744 AGACTGCCTCATCTAAAGTTTGCCTGTCGGCTTTGACCTTCAAGACTTTTCTATCCCTAATTTTG
66 AGACTGCCTCATCTAAAGTCTGCCTGTCGGCTTTGACCTTGAAGACTTTCCTATCCCTAAGTTTG
* *
1297809 CCTGTC-AGCTTTGACCGAGAGACTTTCCTACCCTTCAGTCTACCTATCGACTTTGACCCATGGA
131 CCTGTCGA-CTTTGACCTAGAGACTTTCCTACCCTTAAGTCTACCTATCGACTTTGA-CCATGGA
*
1297873 GAATGCCTCATC-TAAAGTC
194 GAATGCCTCACCTTAAAGTC
* * * * *
1297892 TGCCTGTCGGCTTTGACCTTAGAGACTTTCCTACCATTTAGTTTGCCTATCGACTTTGACCCTGG
1 TGCCTGTCGGCTTTGACCCTAGAGACTTTCCTACCCTTAAGTCTGCCTGTCGACTTTGACCCTGG
* *
1297957 AGACTGCCTCATCTAAAGTCTGCCTGTCCGCTTTGATCC-TGGAGACTTTCCTATCCCTAAGTTT
66 AGACTGCCTCATCTAAAGTCTGCCTGTCGGCTTTGA-CCTTGAAGACTTTCCTATCCCTAAGTTT
* * *** * * *
1298021 GCCTGTTGACTTTGACCTAGATACTTTCCTACCCTTAAGTCTGTTTGTC-AGCTTTGACCCTAGA
130 GCCTGTCGACTTTGACCTAGAGACTTTCCTACCCTTAAGTCTACCTATCGA-CTTTGACCATGGA
* ** * *
1298085 GACTTTCTTACCCTT-TAGTC
194 GAATGCCTCA-CCTTAAAGTC
* * * *
1298105 TACTTGTTGGCTTTGACCCTAGAGACTTTCCTATCCC-TAAGTCTGCCCGTC-AGCTTTGACCCT
1 TGCCTGTCGGCTTTGACCCTAGAGACTTTCCTA-CCCTTAAGTCTGCCTGTCGA-CTTTGACCCT
*
1298168 AGAGACT
64 GGAGACT
1298175 TTCTTACCCT
Statistics
Matches: 405, Mismatches: 78, Indels: 27
0.79 0.15 0.05
Matches are distributed among these distances:
212 16 0.04
213 252 0.62
214 88 0.22
215 49 0.12
ACGTcount: A:0.18, C:0.30, G:0.17, T:0.35
Consensus pattern (213 bp):
TGCCTGTCGGCTTTGACCCTAGAGACTTTCCTACCCTTAAGTCTGCCTGTCGACTTTGACCCTGG
AGACTGCCTCATCTAAAGTCTGCCTGTCGGCTTTGACCTTGAAGACTTTCCTATCCCTAAGTTTG
CCTGTCGACTTTGACCTAGAGACTTTCCTACCCTTAAGTCTACCTATCGACTTTGACCATGGAGA
ATGCCTCACCTTAAAGTC
Found at i:1297937 original size:128 final size:128
Alignment explanation
Indices: 1297502--1298469 Score: 427
Period size: 128 Copynumber: 7.6 Consensus size: 128
1297492 TCCTATCCCT
* * * * * *
1297502 AAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTT-TTCACCCTTAAGTCTGCCTATCGGGTTTAA
1 AAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTTCCTCA-CCTTAAGTCTGCCTATCAGCTTTGA
* * **
1297566 CTCTGA-AGACTTTCCTATCCC-TAAGTTTGCCTATCGACTTTGACCC-TAGAGACT-TTTCTAT
65 C-CTGAGAGACTTTCCTA-CCCTTCAGTCTGCCTATCGACTTTGACCCAT-GAGACTGCCTC-AT
1297627 CCCT-
126 --CTA
* * * * * **
1297631 AAGTCTGTCTTTCGACTTTGACCTTGGAGAC-TTCTTCACCTTTAAGTCTGCCCGTCAGCTTTGA
1 AAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTTCCTCACC-TTAAGTCTGCCTATCAGCTTTGA
* * *
1297695 CCCTG-GAAACTTTCCTACCCTTCAGTCTGCCTGTCAACTTTGACCCCA-GAGACTGCCTCATCT
65 -CCTGAGAGACTTTCCTACCCTTCAGTCTGCCTATCGACTTTGA-CCCATGAGACTGCCTCATCT
1297758 A
128 A
* * * * * *
1297759 AAGTTTGCCTGTCGGCTTTGACCTTCA-AGACTTTTCT-ATCCCTAATTTTGCCTGTCAGCTTTG
1 AAGTCTGCCTGTCGGCTTTGACCTT-AGAGACTTTCCTCA-CCTTAAGTCTGCCTATCAGCTTTG
* *
1297822 ACC-GAGAGACTTTCCTACCCTTCAGTCTACCTATCGACTTTGACCCATGGAGAATGCCTCATCT
64 ACCTGAGAGACTTTCCTACCCTTCAGTCTGCCTATCGACTTTGACCCAT-GAGACTGCCTCATCT
1297886 A
128 A
* *
1297887 AAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTTCCT-ACCATTTAGTTTGCCTATC-GACTTTG
1 AAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTTCCTCACC-TTAAGTCTGCCTATCAG-CTTTG
* * ** * * *
1297950 ACCCTG-GAGAC-TGCCT-CATCTAAAGTCTGCCTGTCCG-CTTTGATCC-TGGAGACTTTCCT-
64 A-CCTGAGAGACTTTCCTAC-CCTTCAGTCTGCCTAT-CGACTTTGACCCAT-GAGAC-TGCCTC
1298009 ATCCCT-
124 AT--CTA
* * * * ** *
1298015 AAGTTTGCCTGTTGACTTTGACC-TAGATACTTTCCT-ACCCTTAAGTCTGTTTGTCAGCTTTGA
1 AAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTTCCTCA-CCTTAAGTCTGCCTATCAGCTTTGA
* * * * * * * *
1298078 CCCT-AGAGACTTTCTTACCCTTTAGTCTACTTGTTGGCTTTGACCC-TAGAGACTTTCCT-ATC
65 -CCTGAGAGACTTTCCTACCCTTCAGTCTGCCTATCGACTTTGACCCAT-GAGAC-TGCCTCAT-
1298140 CCT-
126 -CTA
* * * * * ** * *
1298143 AAGTCTGCCCGTCAGCTTTGACCCTAGAGACTTT-CTTACCCTTCAGTCTAACTGTCGGCTTTGA
1 AAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTTCCTCA-CCTTAAGTCTGCCTATCAGCTTTGA
* * ** * * * *
1298207 CCCT-AGAGAC-TGCCT-CATCTAAAGTCTGCCTGTTGGCTTTGACCC-TGAAGACTTTCCT-AT
65 -CCTGAGAGACTTTCCTAC-CCTTCAGTCTGCCTATCGACTTTGACCCATG-AGAC-TGCCTCAT
1298267 CCCTA
126 --CTA
* * * * * * *
1298272 AA-TCTGCCTGTCAGCTTTGACCTTGGAGACTTTCC-AACCCTTCAGTCTACTTGTCAGCTTTGA
1 AAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTTCCTCA-CCTTAAGTCTGCCTATCAGCTTTGA
* * ** * * **
1298335 CCCTG-GAGAC-TGCCT-CATCTAAAGTCTACCTGTCGACTTTGACCC-TGGAGACT-TTTCTAC
65 -CCTGAGAGACTTTCCTAC-CCTTCAGTCTGCCTATCGACTTTGACCCAT-GAGACTGCCTC-A-
*
1298395 CCT-
125 TCTA
* * * * * * * *
1298398 TAGTCTGCCTGTCGGCTTTGACCTTGGAG-CCTGCCTCATCTAAAGTTTGCCTGTCAGCTTTGAC
1 AAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTTCCTCACCTTAAGTCTGCCTATCAGCTTTGAC
*
1298462 CCGAGAGA
66 CTGAGAGA
1298470 ATTTTTTCTT
Statistics
Matches: 685, Mismatches: 109, Indels: 93
0.77 0.12 0.10
Matches are distributed among these distances:
125 3 0.00
126 34 0.05
127 121 0.18
128 370 0.54
129 150 0.22
130 7 0.01
ACGTcount: A:0.19, C:0.30, G:0.18, T:0.34
Consensus pattern (128 bp):
AAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTTCCTCACCTTAAGTCTGCCTATCAGCTTTGAC
CTGAGAGACTTTCCTACCCTTCAGTCTGCCTATCGACTTTGACCCATGAGACTGCCTCATCTA
Found at i:1303802 original size:50 final size:51
Alignment explanation
Indices: 1303726--1303834 Score: 130
Period size: 50 Copynumber: 2.1 Consensus size: 51
1303716 CGAAATGCTC
* *** *
1303726 AAAATAAAATAGATGTATCGATACATTCTTCAATGTATCGATACATCTGAGT
1 AAAA-AAAATAGATCTATCGATACATTCAAAAATGTATCGATACATCCGAGT
* * *
1303778 AAAAAAAA-AGATCTATCGATACATTGAAAAATGTATTGATACATCCGGGT
1 AAAAAAAATAGATCTATCGATACATTCAAAAATGTATCGATACATCCGAGT
1303828 AAAAAAA
1 AAAAAAA
1303835 GAATGTATTG
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
50 41 0.84
51 4 0.08
52 4 0.08
ACGTcount: A:0.47, C:0.12, G:0.14, T:0.28
Consensus pattern (51 bp):
AAAAAAAATAGATCTATCGATACATTCAAAAATGTATCGATACATCCGAGT
Found at i:1306906 original size:20 final size:20
Alignment explanation
Indices: 1306881--1306979 Score: 100
Period size: 20 Copynumber: 5.7 Consensus size: 20
1306871 TTTCAACGAT
1306881 TTGTATCGATACATAAAGTG
1 TTGTATCGATACATAAAGTG
1306901 TTGTATCGATAC---AA---
1 TTGTATCGATACATAAAGTG
1306915 -TGTATCGATACATAAAGTG
1 TTGTATCGATACATAAAGTG
1306934 TTGTATCGATAC---AA---
1 TTGTATCGATACATAAAGTG
1306948 -TGTATCGATACATAAAGTG
1 TTGTATCGATACATAAAGTG
1306967 TTGTATCGATACA
1 TTGTATCGATACA
1306980 ATGTATCGAT
Statistics
Matches: 65, Mismatches: 0, Indels: 28
0.70 0.00 0.30
Matches are distributed among these distances:
13 22 0.34
16 4 0.06
17 4 0.06
20 35 0.54
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.34
Consensus pattern (20 bp):
TTGTATCGATACATAAAGTG
Found at i:1306920 original size:13 final size:13
Alignment explanation
Indices: 1306902--1306992 Score: 56
Period size: 13 Copynumber: 5.9 Consensus size: 13
1306892 CATAAAGTGT
1306902 TGTATCGATACAA
1 TGTATCGATACAA
1306915 TGTATCGATACATAAA
1 TGTATCGATAC---AA
1306931 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
1306948 TGTATCGATACATAAA
1 TGTATCGATAC---AA
1306964 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
1306981 TGTATCGATACA
1 TGTATCGATACA
1306993 TTTTTTTTTG
Statistics
Matches: 64, Mismatches: 0, Indels: 28
0.70 0.00 0.30
Matches are distributed among these distances:
13 34 0.53
16 4 0.06
17 4 0.06
20 22 0.34
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1307014 original size:33 final size:33
Alignment explanation
Indices: 1306882--1306993 Score: 224
Period size: 33 Copynumber: 3.4 Consensus size: 33
1306872 TTCAACGATT
1306882 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
1306915 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
1306948 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
1306981 TGTATCGATACAT
1 TGTATCGATACAT
1306994 TTTTTTTTGT
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 79 1.00
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:1307073 original size:13 final size:13
Alignment explanation
Indices: 1307055--1307079 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1307045 ATCACTTAAA
1307055 TGTATCGATACAT
1 TGTATCGATACAT
1307068 TGTATCGATACA
1 TGTATCGATACA
1307080 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1307144 original size:52 final size:52
Alignment explanation
Indices: 1307088--1307216 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
1307078 CACTGATCTT
* *
1307088 TGTATCGATACATGCAGGAAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
**
1307140 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1307192 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
1307217 TCATATTTCG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:1311297 original size:52 final size:52
Alignment explanation
Indices: 1311226--1311370 Score: 193
Period size: 52 Copynumber: 2.8 Consensus size: 52
1311216 TATTGATACA
* *** *
1311226 TTACTCAAATGTATCGATACACTGAT-CTTTGTATCGATACACGCAGGCAAAT
1 TTACCCAAATGTATCGATACACT-ATGAAATGTATCGATACACACAGGCAAAT
* *
1311278 TTACCCAGATGTATCGATACACTATGAAATGTATCGATACATACAGGCAAAT
1 TTACCCAAATGTATCGATACACTATGAAATGTATCGATACACACAGGCAAAT
* *
1311330 TTGCCCAAATGTATCGATACAATATGAAATGTATCGATACA
1 TTACCCAAATGTATCGATACACTATGAAATGTATCGATACA
1311371 TGTAGGCAAA
Statistics
Matches: 82, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.29
Consensus pattern (52 bp):
TTACCCAAATGTATCGATACACTATGAAATGTATCGATACACACAGGCAAAT
Found at i:1311371 original size:52 final size:52
Alignment explanation
Indices: 1311255--1311380 Score: 198
Period size: 52 Copynumber: 2.4 Consensus size: 52
1311245 CACTGATCTT
* * *
1311255 TGTATCGATACACGCAGGCAAATTTACCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTACCCAAATGTATCGATACAATATGAAA
* *
1311307 TGTATCGATACATACAGGCAAATTTGCCCAAATGTATCGATACAATATGAAA
1 TGTATCGATACATGCAGGCAAATTTACCCAAATGTATCGATACAATATGAAA
*
1311359 TGTATCGATACATGTAGGCAAA
1 TGTATCGATACATGCAGGCAAA
1311381 ATTTCATATT
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.26
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTACCCAAATGTATCGATACAATATGAAA
Found at i:1315099 original size:155 final size:152
Alignment explanation
Indices: 1314811--1315464 Score: 509
Period size: 155 Copynumber: 4.2 Consensus size: 152
1314801 TAAGTTTAAG
* * ** *
1314811 AAAAATTATGAAAATACCCCA-GGGGATACCTTCAACGTAAAAGTA-CCTG-ATACCCTTAAAGG
1 AAAAATTATCAAAATACCCTATGGATATACCTTCAACGTAAAAGTACCCGGCA-ACCC-TAAAGG
* * * * *
1314873 ACTTAAAAAGGATTATAGATGCGGGTGAACCTATCCTAAATACCCACCTTTGACATGAAAGTAGA
64 ACTAAAAAAGG-TTATAGAT-CGGATGAACCTATCCTAAAT-CTCACCTTCGACAT-AAAGCAGA
1314938 CCCGGTGACAACCTAGGACTCGATTCTA
125 CCCGGTGACAACCTAGGACTCGATTCTA
* * * *
1314966 AAAAATTATGAAAATGTCCCTATGGATATACCTTCGACGTAAAAGTATCCCGGCAACCCTAAAAG
1 AAAAATTATCAAAAT-ACCCTATGGATATACCTTCAACGTAAAAGTA-CCCGGCAACCCTAAAGG
* * * * *
1315031 ACTGAAAAAGGCTAGAGATCGGATGAACCTATTCTAAATGCTCACCTTCGGCATAAGAGCAGA-C
64 ACTAAAAAAGGTTATAGATCGGATGAACCTATCCTAAAT-CTCACCTTCGACATAA-AGCAGACC
*
1315095 CGGTGACAACTTAGGACTCGATTCTA
127 CGGTGACAACCTAGGACTCGATTCTA
* * *
1315121 AGAAATTA-CAAAATACCTCTATGGGTATACCTTCAATGTAAAAGTATCCCGGCAACCCTAAAGG
1 AAAAATTATCAAAATACC-CTATGGATATACCTTCAACGTAAAAGTA-CCCGGCAACCCTAAAGG
** * * * * * *
1315185 ACTAAAAAAAATTTTA-ACTAGGATGAACCTACCCTAAATATCAACCTTCGACATAAAAGCGGAG
64 ACTAAAAAAGGTTATAGA-TCGGATGAACCTATCCTAAATCTC-ACCTTCGACAT-AAAGCAGAC
* *
1315249 CCGGTGATAACCTAGGACT-TAGTTCTA
126 CCGGTGACAACCTAGGACTCGA-TTCTA
* * * * ** * * *
1315276 AAAAATTACCCAAATGCCCCTAT-GATTATACTTTTGATGTAAAAGTACCCGGTAACCCTAAAGA
1 AAAAATTATCAAAAT-ACCCTATGGA-TATACCTTCAACGTAAAAGTACCCGGCAACCCTAAAGG
* * * * * * * *
1315340 ACTTAAAAAGAATTTTA-ACTAGG-TGAACCTACCCTAAATATCAACCTTTGACATAAAAGCAAA
64 ACTAAAAAAG-GTTATAGA-TCGGATGAACCTATCCTAAATCTC-ACCTTCGACAT-AAAGCAGA
* * **
1315403 CTCAGTGATGACCTAGGACTCGATTCTA
125 CCCGGTGACAACCTAGGACTCGATTCTA
* * * *
1315431 AAAAATTACCAAAATGCCCTTAGGGGTATACCTT
1 AAAAATTATCAAAATACCC-TATGGATATACCTT
1315465 TGACATAAAA
Statistics
Matches: 416, Mismatches: 64, Indels: 38
0.80 0.12 0.07
Matches are distributed among these distances:
153 5 0.01
154 94 0.23
155 186 0.45
156 79 0.19
157 29 0.07
158 15 0.04
159 7 0.02
160 1 0.00
ACGTcount: A:0.38, C:0.22, G:0.16, T:0.24
Consensus pattern (152 bp):
AAAAATTATCAAAATACCCTATGGATATACCTTCAACGTAAAAGTACCCGGCAACCCTAAAGGAC
TAAAAAAGGTTATAGATCGGATGAACCTATCCTAAATCTCACCTTCGACATAAAGCAGACCCGGT
GACAACCTAGGACTCGATTCTA
Found at i:1315467 original size:155 final size:156
Alignment explanation
Indices: 1314898--1315476 Score: 568
Period size: 155 Copynumber: 3.7 Consensus size: 156
1314888 TAGATGCGGG
* * * * * * *
1314898 TGAACCTATCCTAAATACCCACCTTTGACATGAAAGTAGACCCGGTGACAACCTAGGACTCGATT
1 TGAACCTACCCTAAATATCAACCTTCGACATAAAAGCA-AACCGGTGACAACCTAGGACTCGATT
** *
1314963 CTAAAAAATTATGAAAATGTCCC-TATGGATATACCTTCGACGTAAAAGTATCCCGGCAACCCTA
65 CTAAAAAATTACCAAAATG-CCCTTATGGGTATACCTTCGACGTAAAAGTATCCCGGCAACCCTA
* ** ** *
1315027 AA-AGACTGAAAAAG-GCTAGAGA-TCGGA
129 AAGA-ACTTAAAAAGAATTTTA-ACTAGGA
** * * * * *
1315054 TGAACCTATTCTAAATGCTC-ACCTTCGGCATAAGAGCAGACCGGTGACAACTTAGGACTCGATT
1 TGAACCTACCCTAAAT-ATCAACCTTCGACATAAAAGCAAACCGGTGACAACCTAGGACTCGATT
* * * *
1315118 CTAAGAAATTA-CAAAAT-ACCTCTATGGGTATACCTTCAATGTAAAAGTATCCCGGCAACCCTA
65 CTAAAAAATTACCAAAATGCCCT-TATGGGTATACCTTCGACGTAAAAGTATCCCGGCAACCCTA
* *
1315181 AAGGAC-TAAAAAAAATTTTAACTAGGA
129 AAGAACTTAAAAAGAATTTTAACTAGGA
* * * *
1315208 TGAACCTACCCTAAATATCAACCTTCGACATAAAAGCGGAGCCGGTGATAACCTAGGACT-TAGT
1 TGAACCTACCCTAAATATCAACCTTCGACATAAAAGC-AAACCGGTGACAACCTAGGACTCGA-T
* * ** * * * *
1315272 TCTAAAAAATTACCCAAATGCCCCTATGATTATACTTTTGATGTAAAAGTA-CCCGGTAACCCTA
64 TCTAAAAAATTACCAAAATGCCCTTATGGGTATACCTTCGACGTAAAAGTATCCCGGCAACCCTA
1315336 AAGAACTTAAAAAGAATTTTAACTAGG-
129 AAGAACTTAAAAAGAATTTTAACTAGGA
* * **
1315363 TGAACCTACCCTAAATATCAACCTTTGACATAAAAGCAAACTCAGTGATGACCTAGGACTCGATT
1 TGAACCTACCCTAAATATCAACCTTCGACATAAAAGCAAAC-CGGTGACAACCTAGGACTCGATT
* * *
1315428 CTAAAAAATTACCAAAATGCCCTTAGGGGTATACCTTTGACATAAAAGT
65 CTAAAAAATTACCAAAATGCCCTTATGGGTATACCTTCGACGTAAAAGT
1315477 GTCTGATGCC
Statistics
Matches: 347, Mismatches: 62, Indels: 29
0.79 0.14 0.07
Matches are distributed among these distances:
152 2 0.01
153 8 0.02
154 85 0.24
155 174 0.50
156 75 0.22
157 3 0.01
ACGTcount: A:0.38, C:0.22, G:0.16, T:0.24
Consensus pattern (156 bp):
TGAACCTACCCTAAATATCAACCTTCGACATAAAAGCAAACCGGTGACAACCTAGGACTCGATTC
TAAAAAATTACCAAAATGCCCTTATGGGTATACCTTCGACGTAAAAGTATCCCGGCAACCCTAAA
GAACTTAAAAAGAATTTTAACTAGGA
Found at i:1318144 original size:19 final size:19
Alignment explanation
Indices: 1318117--1318154 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
1318107 TTTGTATCGA
1318117 TTCAATGTATCGATACATG
1 TTCAATGTATCGATACATG
*
1318136 TTCATTGTATCGATACATG
1 TTCAATGTATCGATACATG
1318155 AAACTGTCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (19 bp):
TTCAATGTATCGATACATG
Found at i:1320018 original size:3 final size:3
Alignment explanation
Indices: 1320003--1320043 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
1319993 CCATCAAAGG
*
1320003 TGA TGA AGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TG
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TG
1320044 GTGACTCGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.34, C:0.00, G:0.34, T:0.32
Consensus pattern (3 bp):
TGA
Found at i:1327060 original size:13 final size:13
Alignment explanation
Indices: 1327042--1327066 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1327032 CATTATGTTT
1327042 TGTATCGATACAA
1 TGTATCGATACAA
1327055 TGTATCGATACA
1 TGTATCGATACA
1327067 TGAAACTGGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1327122 original size:20 final size:19
Alignment explanation
Indices: 1327097--1327150 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 19
1327087 ATATGAATAT
1327097 TTGTATCGATACATG-GCACA
1 TTGTATCGATACATGAG-A-A
*
1327117 TTGTATCGATACGTGATGAA
1 TTGTATCGATACATGA-GAA
1327137 TTGTATCGATACAT
1 TTGTATCGATACAT
1327151 TGCTTTAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 28 0.93
21 1 0.03
22 1 0.03
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (19 bp):
TTGTATCGATACATGAGAA
Found at i:1328196 original size:167 final size:166
Alignment explanation
Indices: 1327952--1328708 Score: 872
Period size: 167 Copynumber: 4.6 Consensus size: 166
1327942 TTTTTGGGAG
* * * *
1327952 AAAGGGAATTTCAAGAAAAAAATTCAAAATTTAT-GAAATGAATGAATTTTTGAAAAGTAAATTA
1 AAAGGAAATTTCAAGGAAAAAATTCAAAATTTATGGAAATGAATGAATTTTTGAAAACTGAATTA
*
1328016 ATATGAAATAAATAATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCCT-AA
66 ATATG-AATAAATAATAATATTTTATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCCTCAA
* **
1328080 AGAAATTTATGGAGTAGAAAACTCTGTCTTTTAAAAAA
130 AAAAATTTATGGAGTAGAAAACTCT-TCTTTTCGAAAA
* *
1328118 AAAGGAAATTTCAAGGAAAAAATTCAAAATTTATGGAAATGAAAGAATTTTTGAAAACTGAATCA
1 AAAGGAAATTTCAAGGAAAAAATTCAAAATTTATGGAAATGAATGAATTTTTGAAAACTGAATTA
* * * * * *
1328183 CTACATG-ATAAATAATAATATTTTATGAATTTTGAAAATTGAAAACCAAGAAAAATCTCCTTGA
66 --ATATGAATAAATAATAATATTTTATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCCTCA
1328247 AAAAAATTTATGGAGTAGAAAACTC--CATATTTCGAAAA
129 AAAAAATTTATGGAGTAGAAAACTCTTC-T-TTTCGAAAA
* * * * *
1328285 AAGGGAAATTTCAAAGAAAAACTTTAAAATTTATGGAAATGAATGAATTTTTAAAAACTGAATTA
1 AAAGGAAATTTCAAGGAAAAAATTCAAAATTTATGGAAATGAATGAATTTTTGAAAACTGAATTA
1328350 ATATGAAGTAAATAATAATATTTTATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCC-C-A
66 ATATGAA-TAAATAATAATATTTTATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCCTCAA
* *
1328413 AAAAATTTACAGG-GTAGAAAA--CTTCATATTTCGAGAA
130 AAAAATTTA-TGGAGTAGAAAACTCTTC-T-TTTCGAAAA
* * *
1328450 AAA-GAGAATTTGAAGGAAAAAAATCAAAATTTATGGAAATGAATGAATTTTTTAAAACTGAATT
1 AAAGGA-AATTTCAAGGAAAAAATTCAAAATTTATGGAAATGAATGAATTTTTGAAAACTGAATT
* **
1328514 AATATGACATAAATAATAATATTTTATCAATTTTAAAAA-TAAAAAAAAAGAAAAAT-CCCCTCA
65 AATATGA-ATAAATAATAATATTTTATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCCTCA
*
1328577 AAAAAATTTACGGAGTAGAAAACTCTT-TATTTCG---A
129 AAAAAATTTATGGAGTAGAAAACTCTTCT-TTTCGAAAA
* * * *
1328612 AAA--AAATTTCAA-GAAAAAATTCAAAATTTTAT-GAACATGAATGCAGTTTTTTAGAACTGAT
1 AAAGGAAATTTCAAGGAAAAAATTCAAAA-TTTATGGAA-ATGAATG-AATTTTTGAAAACTGAA
* * * *
1328673 TTAATAGGAATTAAATGATGATATTTTAGGAATTTT
63 TTAATATGAA-TAAATAATAATATTTTATGAATTTT
1328709 GATGTTTAAA
Statistics
Matches: 518, Mismatches: 51, Indels: 49
0.84 0.08 0.08
Matches are distributed among these distances:
159 16 0.03
160 20 0.04
161 44 0.08
162 4 0.01
163 5 0.01
164 20 0.04
165 150 0.29
166 37 0.07
167 193 0.37
168 25 0.05
169 4 0.01
ACGTcount: A:0.50, C:0.08, G:0.12, T:0.30
Consensus pattern (166 bp):
AAAGGAAATTTCAAGGAAAAAATTCAAAATTTATGGAAATGAATGAATTTTTGAAAACTGAATTA
ATATGAATAAATAATAATATTTTATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCCTCAAA
AAAATTTATGGAGTAGAAAACTCTTCTTTTCGAAAA
Found at i:1328509 original size:165 final size:163
Alignment explanation
Indices: 1327905--1328748 Score: 853
Period size: 167 Copynumber: 5.1 Consensus size: 163
1327895 TATACCAAAG
** * * * * * *
1327905 AAAAT-CCCCAAAATTATTTATGAAATAGAAAAC-TCGAT-TTTTGGGAGAAAGGGAATTTCAAG
1 AAAATCCCCCAAAAAAATTTATGGAGTAGAAAACTTC-ATATTTCGAGAAAAAGAGAATTTCAAG
* *
1327967 AAAAAAATTCAAAATTTAT-GAAATGAATGAATTTTTGAAAAGTAAATTAATATGAAATAAATAA
65 -AAAAAATTCAAAATTTATGGAAATGAATGAATTTTTGAAAACTGAATTAATATG-AATAAATAA
*
1328031 TAATATTTGATGAATTTTAAAAATTAAAAACCAAGA
128 TAATATTTTATGAATTTTAAAAATTAAAAACCAAGA
* ** *
1328067 AAAATCCCCCTAAAGAAATTTATGGAGTAGAAAACTCTGTC-T-TTTAAAAAAAAAG-GAAATTT
1 AAAATCCCCC-AAAAAAATTTATGGAGTAGAAAA--CT-TCATATTTCGAGAAAAAGAG-AATTT
* * *
1328129 CAAGGAAAAAATTCAAAATTTATGGAAATGAAAGAATTTTTGAAAACTGAATCACTACATG-ATA
61 CAA-GAAAAAATTCAAAATTTATGGAAATGAATGAATTTTTGAAAACTGAATTA--ATATGAATA
* *
1328193 AATAATAATATTTTATGAATTTTGAAAATTGAAAACCAAGA
123 AATAATAATATTTTATGAATTTTAAAAATTAAAAACCAAGA
** * *
1328234 AAAATCTCCTTGAAAAAAATTTATGGAGTAGAAAACTCCATATTTCGA-AAAAAGGGAAATTTCA
1 AAAATC-CC-CCAAAAAAATTTATGGAGTAGAAAACTTCATATTTCGAGAAAAAGAG-AATTTC-
* * *
1328298 AAGAAAAACTTTAAAATTTATGGAAATGAATGAATTTTTAAAAACTGAATTAATATGAAGTAAAT
62 AAGAAAAAATTCAAAATTTATGGAAATGAATGAATTTTTGAAAACTGAATTAATATGAA-TAAAT
1328363 AATAATATTTTATGAATTTTAAAAATTAAAAACCAAGA
126 AATAATATTTTATGAATTTTAAAAATTAAAAACCAAGA
* * *
1328401 AAAATCCCCCCAAAAAATTTACAGG-GTAGAAAACTTCATATTTCGAGAAAAAGAGAATTTGAAG
1 AAAATCCCCCAAAAAAATTTA-TGGAGTAGAAAACTTCATATTTCGAGAAAAAGAGAATTTCAA-
* *
1328465 GAAAAAAATCAAAATTTATGGAAATGAATGAATTTTTTAAAACTGAATTAATATGACATAAATAA
64 GAAAAAATTCAAAATTTATGGAAATGAATGAATTTTTGAAAACTGAATTAATATGA-ATAAATAA
* **
1328530 TAATATTTTATCAATTTTAAAAA-TAAAAAAAAAGA
128 TAATATTTTATGAATTTTAAAAATTAAAAACCAAGA
* *
1328565 AAAATCCCCTCAAAAAAATTTACGGAGTAGAAAAC-TCTTTATTTC--G-AAAA-A-AATTTCAA
1 AAAATCCCC-CAAAAAAATTTATGGAGTAGAAAACTTC-ATATTTCGAGAAAAAGAGAATTTCAA
* * * * *
1328624 GAAAAAATTCAAAATTTTAT-GAACATGAATGCAGTTTTTTAGAACTGATTTAATAGGAATTAAA
64 GAAAAAATTCAAAA-TTTATGGAA-ATGAATG-AATTTTTGAAAACTGAATTAATATGAA-TAAA
* * * * *** * *
1328688 TGATGATATTTTAGGAATTTTGATGTTTAAAACCCATG-
125 TAATAATATTTTATGAATTTTAAAAATTAAAAACCAAGA
* *
1328726 AAAATTCCACAAAAAAATTTATG
1 AAAATCCCCCAAAAAAATTTATG
1328749 AGCAAAAAAA
Statistics
Matches: 581, Mismatches: 70, Indels: 64
0.81 0.10 0.09
Matches are distributed among these distances:
159 16 0.03
160 33 0.06
161 52 0.09
162 16 0.03
163 5 0.01
164 43 0.07
165 148 0.25
166 58 0.10
167 178 0.31
168 28 0.05
169 4 0.01
ACGTcount: A:0.50, C:0.09, G:0.12, T:0.30
Consensus pattern (163 bp):
AAAATCCCCCAAAAAAATTTATGGAGTAGAAAACTTCATATTTCGAGAAAAAGAGAATTTCAAGA
AAAAATTCAAAATTTATGGAAATGAATGAATTTTTGAAAACTGAATTAATATGAATAAATAATAA
TATTTTATGAATTTTAAAAATTAAAAACCAAGA
Found at i:1330380 original size:13 final size:13
Alignment explanation
Indices: 1330362--1330386 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1330352 CATTATGCTT
1330362 TGTATCGATACAA
1 TGTATCGATACAA
1330375 TGTATCGATACA
1 TGTATCGATACA
1330387 TGTTCATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1330424 original size:28 final size:28
Alignment explanation
Indices: 1330361--1330444 Score: 98
Period size: 28 Copynumber: 2.9 Consensus size: 28
1330351 ACATTATGCT
*
1330361 TTGTATCGATACAATGTATCGATACATGTTCA
1 TTGTATCGATAC-ATG-AAC-A-ACATGTTCA
*
1330393 TTGTATTGATACATGAACAACATGTTCA
1 TTGTATCGATACATGAACAACATGTTCA
*
1330421 TTGTATCGATACATGAGCAA-ATGT
1 TTGTATCGATACATGAACAACATGT
1330445 ATCGATACAT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
27 4 0.08
28 27 0.56
29 1 0.02
30 2 0.04
31 3 0.06
32 11 0.23
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (28 bp):
TTGTATCGATACATGAACAACATGTTCA
Found at i:1330523 original size:13 final size:13
Alignment explanation
Indices: 1330505--1330529 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1330495 CATGGCACAT
1330505 TGTATCGATACAA
1 TGTATCGATACAA
1330518 TGTATCGATACA
1 TGTATCGATACA
1330530 TGAAGAATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1334869 original size:13 final size:13
Alignment explanation
Indices: 1334851--1334877 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1334841 ACATGCTGCT
1334851 TTGTATCGATACA
1 TTGTATCGATACA
1334864 TTGTATCGATACA
1 TTGTATCGATACA
1334877 T
1 T
1334878 GTTCATTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1334874 original size:33 final size:32
Alignment explanation
Indices: 1334832--1334896 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
1334822 CACACCCAGA
* *
1334832 TGTATCGATACATGCTGCTTTGTATCGATACAT
1 TGTATCGATACATG-TGCATTATATCGATACAT
*
1334865 TGTATCGATACATGTTCATTATATCGATACAT
1 TGTATCGATACATGTGCATTATATCGATACAT
1334897 GGCCAAATTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 15 0.52
33 14 0.48
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (32 bp):
TGTATCGATACATGTGCATTATATCGATACAT
Found at i:1334912 original size:21 final size:19
Alignment explanation
Indices: 1334862--1334918 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
1334852 TGTATCGATA
**
1334862 CATTGTATCGATACATGTT
1 CATTGTATCGATACATGGC
*
1334881 CATTATATCGATACATGGC
1 CATTGTATCGATACATGGC
1334900 CAAATTGTATCGATACATG
1 C--ATTGTATCGATACATG
1334919 AAACTGGCAG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 17 0.53
21 15 0.47
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.35
Consensus pattern (19 bp):
CATTGTATCGATACATGGC
Found at i:1334973 original size:20 final size:19
Alignment explanation
Indices: 1334948--1335000 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 19
1334938 TATCACTATT
1334948 TGTATCGATACATG-GTACAA
1 TGTATCGATACATGAG-A-AA
1334968 TGTATCGATACATGAAGAAA
1 TGTATCGATACATG-AGAAA
1334988 TGTATCGATACAT
1 TGTATCGATACAT
1335001 AGCATGTAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 29 0.94
21 1 0.03
22 1 0.03
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (19 bp):
TGTATCGATACATGAGAAA
Found at i:1341198 original size:13 final size:13
Alignment explanation
Indices: 1341180--1341208 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
1341170 TACAAATTCC
1341180 TTGTATCGATACA
1 TTGTATCGATACA
1341193 TTGTATCGATACA
1 TTGTATCGATACA
1341206 TTG
1 TTG
1341209 GGTACTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1342381 original size:19 final size:19
Alignment explanation
Indices: 1342323--1342382 Score: 59
Period size: 19 Copynumber: 3.2 Consensus size: 19
1342313 AAGGGGGAGA
1342323 AGATAATCGTTTAAGGGGG
1 AGATAATCGTTTAAGGGGG
** ** *
1342342 AGCATTTTTTTTTAA-GAGG
1 AG-ATAATCGTTTAAGGGGG
1342361 AGATAATCGTTTAAGGGGG
1 AGATAATCGTTTAAGGGGG
1342380 AGA
1 AGA
1342383 ATATTTTTAA
Statistics
Matches: 29, Mismatches: 10, Indels: 4
0.67 0.23 0.09
Matches are distributed among these distances:
18 8 0.28
19 13 0.45
20 8 0.28
ACGTcount: A:0.32, C:0.05, G:0.32, T:0.32
Consensus pattern (19 bp):
AGATAATCGTTTAAGGGGG
Found at i:1342981 original size:32 final size:33
Alignment explanation
Indices: 1342921--1342985 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
1342911 CACACCTAGA
*
1342921 TGTATCGATACATGCTGCTTTGTATCGATACAT
1 TGTATCGATACATGCTGCATTGTATCGATACAT
* *
1342954 TGTATCGATAGATG-TTCATTGTATCGATACAT
1 TGTATCGATACATGCTGCATTGTATCGATACAT
1342986 GGCCAAATTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.55
33 13 0.45
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATGCTGCATTGTATCGATACAT
Found at i:1343082 original size:33 final size:32
Alignment explanation
Indices: 1343036--1343102 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 32
1343026 CTATCACTAT
1343036 TTGTATCGATACATG-GTACAATGTATCGATACA
1 TTGTATCGATACATGAG-A-AATGTATCGATACA
*
1343069 TTGTATCGTTACATGAAGAAATGTATCGATACA
1 TTGTATCGATACATG-AGAAATGTATCGATACA
1343102 T
1 T
1343103 AGCATGTAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 29 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.34
Consensus pattern (32 bp):
TTGTATCGATACATGAGAAATGTATCGATACA
Found at i:1345616 original size:13 final size:13
Alignment explanation
Indices: 1345598--1345637 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
1345588 ACAATGTTAT
*
1345598 TTGTATTGATACA
1 TTGTATCGATACA
1345611 TTGTATCGATACA
1 TTGTATCGATACA
*
1345624 ATGTATCGATACA
1 TTGTATCGATACA
1345637 T
1 T
1345638 GGGTTACTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1347152 original size:33 final size:33
Alignment explanation
Indices: 1347110--1347176 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 33
1347100 CGAGAGTTGA
*
1347110 TCACTTCACT-TTCGTAGCACATGAATGAGCACT
1 TCACTTCACTCTT-GTAGCACACGAATGAGCACT
*
1347143 TCACTTCACTCTTGTAGCACACGGATGAGCACT
1 TCACTTCACTCTTGTAGCACACGAATGAGCACT
1347176 T
1 T
1347177 TAGTTCTCTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 29 0.94
34 2 0.06
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.30
Consensus pattern (33 bp):
TCACTTCACTCTTGTAGCACACGAATGAGCACT
Found at i:1348172 original size:20 final size:20
Alignment explanation
Indices: 1348146--1348199 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
1348136 CTACCACTAT
*
1348146 TTGTATCGATACATGGCACAA
1 TTGTATCGATACAT-GAACAA
*
1348167 -TGTATCGATACATGAAGAA
1 TTGTATCGATACATGAACAA
1348186 TTGTATCGATACAT
1 TTGTATCGATACAT
1348200 TACCTCAAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 4 0.13
20 26 0.87
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (20 bp):
TTGTATCGATACATGAACAA
Found at i:1352837 original size:20 final size:20
Alignment explanation
Indices: 1352795--1352848 Score: 83
Period size: 20 Copynumber: 2.6 Consensus size: 20
1352785 TTCAATAATT
1352795 TGTATCGATACAATAAGGCAA
1 TGTATCGATAC-ATAAGGCAA
1352816 TGTATCGATACATAAGTG-AA
1 TGTATCGATACATAAG-GCAA
1352836 TGTATCGATACAT
1 TGTATCGATACAT
1352849 GCTTAAAATG
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
20 20 0.62
21 12 0.38
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.30
Consensus pattern (20 bp):
TGTATCGATACATAAGGCAA
Found at i:1356659 original size:63 final size:66
Alignment explanation
Indices: 1356586--1356707 Score: 153
Period size: 66 Copynumber: 1.9 Consensus size: 66
1356576 AAATGGGTTG
* *
1356586 AGCCCCAAGATTG-TCATC-AAGGTTTTATGTT-TTT-AAAGTCTAACTCATTTTCAAAACAAAT
1 AGCCCCAAGATTGCT-ATCAAAGGTTTTATGTTCTTTCAAAGTCAAACTCATTCTCAAAACAAAT
1356647 CA
65 CA
* * * *
1356649 AGCCCTAAGATTGCTATCAAAGTTTTTCTTTTCTTTCAAAGTCAAACTCATTCTCAAAA
1 AGCCCCAAGATTGCTATCAAAGGTTTTATGTTCTTTCAAAGTCAAACTCATTCTCAAAA
1356708 TTGGTCGAGC
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
63 15 0.31
64 11 0.22
65 3 0.06
66 20 0.41
ACGTcount: A:0.34, C:0.20, G:0.10, T:0.36
Consensus pattern (66 bp):
AGCCCCAAGATTGCTATCAAAGGTTTTATGTTCTTTCAAAGTCAAACTCATTCTCAAAACAAATC
A
Found at i:1357526 original size:98 final size:98
Alignment explanation
Indices: 1357401--1357597 Score: 394
Period size: 98 Copynumber: 2.0 Consensus size: 98
1357391 ATACATTATT
1357401 CAATGTATCGATACATCTAGTTAAAAATAAGCATTTCAGGCCATTTTCAACCTTGGCTGATGGGA
1 CAATGTATCGATACATCTAGTTAAAAATAAGCATTTCAGGCCATTTTCAACCTTGGCTGATGGGA
1357466 CCAAATGTCTGGTTTGAACACATTTTTTTCACA
66 CCAAATGTCTGGTTTGAACACATTTTTTTCACA
1357499 CAATGTATCGATACATCTAGTTAAAAATAAGCATTTCAGGCCATTTTCAACCTTGGCTGATGGGA
1 CAATGTATCGATACATCTAGTTAAAAATAAGCATTTCAGGCCATTTTCAACCTTGGCTGATGGGA
1357564 CCAAATGTCTGGTTTGAACACATTTTTTTCACA
66 CCAAATGTCTGGTTTGAACACATTTTTTTCACA
1357597 C
1 C
1357598 CCAAAGTCAT
Statistics
Matches: 99, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
98 99 1.00
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (98 bp):
CAATGTATCGATACATCTAGTTAAAAATAAGCATTTCAGGCCATTTTCAACCTTGGCTGATGGGA
CCAAATGTCTGGTTTGAACACATTTTTTTCACA
Found at i:1359007 original size:43 final size:41
Alignment explanation
Indices: 1358951--1359049 Score: 101
Period size: 40 Copynumber: 2.4 Consensus size: 41
1358941 GGAAAAATAA
* *
1358951 TTAGTGGCTTTTTTTCAGGGAAAACGTCGCTAACTACTTAAAT
1 TTAGTGGCATTTTTTC--GGAAAACGCCGCTAACTACTTAAAT
* *** *
1358994 TTAGCGGCA-TTTTTCTTTAAACGCCGCTAATTACTTAAAT
1 TTAGTGGCATTTTTTCGGAAAACGCCGCTAACTACTTAAAT
1359034 TTAGTGGCAATTTTTT
1 TTAGTGGC-ATTTTTT
1359050 AGTGGCATTT
Statistics
Matches: 46, Mismatches: 8, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
40 27 0.59
41 1 0.02
42 11 0.24
43 7 0.15
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.41
Consensus pattern (41 bp):
TTAGTGGCATTTTTTCGGAAAACGCCGCTAACTACTTAAAT
Found at i:1359022 original size:40 final size:41
Alignment explanation
Indices: 1358972--1359048 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 41
1358962 TTTTCAGGGA
*
1358972 AAACGTCGCTAACTACTTAAATTTAGCGGC-ATTTTTCTTT
1 AAACGCCGCTAACTACTTAAATTTAGCGGCAATTTTTCTTT
* *
1359012 AAACGCCGCTAATTACTTAAATTTAGTGGCAATTTTT
1 AAACGCCGCTAACTACTTAAATTTAGCGGCAATTTTT
1359049 TAGTGGCATT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
40 27 0.82
41 6 0.18
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
AAACGCCGCTAACTACTTAAATTTAGCGGCAATTTTTCTTT
Found at i:1364635 original size:13 final size:13
Alignment explanation
Indices: 1364617--1364642 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1364607 ACATTTTGGG
1364617 ATGTATCGATACA
1 ATGTATCGATACA
1364630 ATGTATCGATACA
1 ATGTATCGATACA
1364643 TAATGTGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1364637 original size:33 final size:32
Alignment explanation
Indices: 1364595--1364662 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 32
1364585 CATTACAAGC
**
1364595 CAATGTATCGATACATTTTGGGATGTATCGATA
1 CAATGTATCGATACATAATGGG-TGTATCGATA
*
1364628 CAATGTATCGATACATAATGTGTGTATCGATA
1 CAATGTATCGATACATAATGGGTGTATCGATA
1364660 CAA
1 CAA
1364663 ACAGTTAAGG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 13 0.41
33 19 0.59
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.34
Consensus pattern (32 bp):
CAATGTATCGATACATAATGGGTGTATCGATA
Found at i:1364761 original size:13 final size:13
Alignment explanation
Indices: 1364743--1364767 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1364733 ACATTTGGTC
1364743 ATGTATCGATACA
1 ATGTATCGATACA
1364756 ATGTATCGATAC
1 ATGTATCGATAC
1364768 TGTGCAATCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1367091 original size:18 final size:18
Alignment explanation
Indices: 1367068--1367106 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
1367058 TTGGTGTGAT
1367068 ATTATTATATATTGCTAA
1 ATTATTATATATTGCTAA
1367086 ATTATTATATATTGCTAA
1 ATTATTATATATTGCTAA
1367104 ATT
1 ATT
1367107 GGAGATGTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.51
Consensus pattern (18 bp):
ATTATTATATATTGCTAA
Found at i:1367368 original size:149 final size:154
Alignment explanation
Indices: 1367127--1367407 Score: 466
Period size: 149 Copynumber: 1.9 Consensus size: 154
1367117 AATTGTTGTT
*
1367127 ATGTGATTTGTTTGCTGTTGTAGGTTTTTTAGTTTATAATAATAATAATTATTATTATTATTATT
1 ATGTGATTTGTTTGCTGTTGTAGGTTTTTTAGTTTATAATAATAATAATCA-TATTATTATTATT
*
1367192 AATGTTTAAAATTATAATAAGATTGTTAAAGTTATTTTCTATTGATGTATATATATATATTGTAA
65 AATGTTCAAAATTATAATAAGATTGTTAAAGTTATTTTCTATTGATGTATATATATATATTGTAA
1367257 ATTATTATTAATGTTTGATGTTGAC
130 ATTATTATTAATGTTTGATGTTGAC
1367282 ATGTGATTTGTTTGCTG-T-T-GGTTTTTTA-TATTATAATAATAATAA-CA-ATTATTATTATT
1 ATGTGATTTGTTTGCTGTTGTAGGTTTTTTAGT-TTATAATAATAATAATCATATTATTATTATT
* *
1367341 AATGTTCGAAATTATAATAAGATTGTTAAAGTTATTTTCTATTGGTGTATATATATATATTGTAA
65 AATGTTCAAAATTATAATAAGATTGTTAAAGTTATTTTCTATTGATGTATATATATATATTGTAA
1367406 AT
130 AT
1367408 ACTTACAAAA
Statistics
Matches: 121, Mismatches: 4, Indels: 8
0.91 0.03 0.06
Matches are distributed among these distances:
149 76 0.63
151 2 0.02
152 24 0.20
153 1 0.01
154 1 0.01
155 17 0.14
ACGTcount: A:0.33, C:0.02, G:0.13, T:0.51
Consensus pattern (154 bp):
ATGTGATTTGTTTGCTGTTGTAGGTTTTTTAGTTTATAATAATAATAATCATATTATTATTATTA
ATGTTCAAAATTATAATAAGATTGTTAAAGTTATTTTCTATTGATGTATATATATATATTGTAAA
TTATTATTAATGTTTGATGTTGAC
Found at i:1368644 original size:13 final size:13
Alignment explanation
Indices: 1368626--1368650 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1368616 CATAAAGTGT
1368626 TGTATCGATACAA
1 TGTATCGATACAA
1368639 TGTATCGATACA
1 TGTATCGATACA
1368651 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1368648 original size:33 final size:33
Alignment explanation
Indices: 1368606--1368672 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1368596 TTCAACGATT
1368606 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
1368639 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
1368672 T
1 T
1368673 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:1368731 original size:13 final size:13
Alignment explanation
Indices: 1368713--1368740 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1368703 ATTACTCAAA
1368713 TGTATCGATACAT
1 TGTATCGATACAT
1368726 TGTATCGATACAT
1 TGTATCGATACAT
1368739 TG
1 TG
1368741 ATCTTTGTAT
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:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1368789 original size:52 final size:52
Alignment explanation
Indices: 1368746--1368870 Score: 178
Period size: 52 Copynumber: 2.4 Consensus size: 52
1368736 CATTGATCTT
*
1368746 TGTATCGATACATGAAAGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACACGAAAGCAAATTTGCCCAGATGTATCGATACATTATAAAA
* * * *
1368798 TGTATCGATACACGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACACGAAAGCAAATTTGCCCAGATGTATCGATACATTATAAAA
* * *
1368850 TATATCGATACATGCAAGCAA
1 TGTATCGATACACGAAAGCAA
1368871 CTTTTCATAT
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.27
Consensus pattern (52 bp):
TGTATCGATACACGAAAGCAAATTTGCCCAGATGTATCGATACATTATAAAA
Found at i:1371324 original size:18 final size:18
Alignment explanation
Indices: 1371301--1371339 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
1371291 TTGGTGTGAT
1371301 ATTATTATATATTGCTAA
1 ATTATTATATATTGCTAA
1371319 ATTATTATATATTGCTAA
1 ATTATTATATATTGCTAA
1371337 ATT
1 ATT
1371340 GGAGATGTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.51
Consensus pattern (18 bp):
ATTATTATATATTGCTAA
Found at i:1371584 original size:149 final size:153
Alignment explanation
Indices: 1371360--1371641 Score: 457
Period size: 149 Copynumber: 1.8 Consensus size: 153
1371350 AATTGTTGTT
*
1371360 ATGTGATTTGTTTGCTGTTGTAGGTTTTTAGTTTATAATAATAATAATTATTATTATTATTATTA
1 ATGTGATTTGTTTGCTGTTG-AGGTTTTTAGTTTATAATAATAATAATCA-TATTATTATTATTA
*
1371425 ATGTTTAAAATTATAATAAGATTGTTAAAGTTATTTTCTATTGATG-TATATATATATATTGTAA
64 ATGTTCAAAATTATAATAAGATTGTTAAAGTTATTTTCTATTGATGATATATATATATATTGTAA
1371489 ATTATTATTAATGTTTGATGTTGAC
129 ATTATTATTAATGTTTGATGTTGAC
*
1371514 ATGTGATTTGTTTGCTGTTG-GTTTTTTA-TATTATAATAATAATAA-CA-ATTATTATTATTAA
1 ATGTGATTTGTTTGCTGTTGAGGTTTTTAGT-TTATAATAATAATAATCATATTATTATTATTAA
*
1371575 TGTTCAAAATTATAATAAGATTGTTAAAGTTATTTTCTATTGGTGTATATATATATATATTGTAA
65 TGTTCAAAATTATAATAAGATTGTTAAAGTTATTTTCTATTGATG-ATATATATATATATTGTAA
1371640 AT
129 AT
1371642 ACTTACAAAA
Statistics
Matches: 121, Mismatches: 4, Indels: 9
0.90 0.03 0.07
Matches are distributed among these distances:
149 57 0.47
151 22 0.18
152 22 0.18
154 20 0.17
ACGTcount: A:0.34, C:0.02, G:0.12, T:0.51
Consensus pattern (153 bp):
ATGTGATTTGTTTGCTGTTGAGGTTTTTAGTTTATAATAATAATAATCATATTATTATTATTAAT
GTTCAAAATTATAATAAGATTGTTAAAGTTATTTTCTATTGATGATATATATATATATTGTAAAT
TATTATTAATGTTTGATGTTGAC
Found at i:1372879 original size:13 final size:13
Alignment explanation
Indices: 1372861--1372885 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1372851 CATAAAGTGT
1372861 TGTATCGATACAA
1 TGTATCGATACAA
1372874 TGTATCGATACA
1 TGTATCGATACA
1372886 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1372883 original size:33 final size:33
Alignment explanation
Indices: 1372841--1372907 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1372831 TTCAACGATT
1372841 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
1372874 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
1372907 T
1 T
1372908 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:1372966 original size:13 final size:13
Alignment explanation
Indices: 1372948--1372975 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1372938 ATTACTCAAA
1372948 TGTATCGATACAT
1 TGTATCGATACAT
1372961 TGTATCGATACAT
1 TGTATCGATACAT
1372974 TG
1 TG
1372976 ATCTTTGTAT
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:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1373023 original size:52 final size:52
Alignment explanation
Indices: 1372981--1373105 Score: 169
Period size: 52 Copynumber: 2.4 Consensus size: 52
1372971 CATTGATCTT
*
1372981 TGTATCGATACATGAAAGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACACGAAAGCAAATTTGCCCAGATGTATCGATACATTATAAAA
* * * *
1373033 TGTATCGATACACGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACACGAAAGCAAATTTGCCCAGATGTATCGATACATTATAAAA
* * * *
1373085 TATATTGATACATGCAAGCAA
1 TGTATCGATACACGAAAGCAA
1373106 CTTTTCATAT
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 64 1.00
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (52 bp):
TGTATCGATACACGAAAGCAAATTTGCCCAGATGTATCGATACATTATAAAA
Found at i:1377036 original size:13 final size:14
Alignment explanation
Indices: 1377008--1377037 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
1376998 TAAATTGAGG
1377008 CAGAAAGTGCTTTT
1 CAGAAAGTGCTTTT
1377022 CAGAAAGTG-TTTT
1 CAGAAAGTGCTTTT
1377035 CAG
1 CAG
1377038 CAATTTATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.30, C:0.13, G:0.23, T:0.33
Consensus pattern (14 bp):
CAGAAAGTGCTTTT
Found at i:1390386 original size:20 final size:20
Alignment explanation
Indices: 1390359--1390416 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
1390349 GTGAAAAGAC
1390359 AAAATGTATTGATACATT-G
1 AAAATGTATTGATACATTCG
**
1390378 AAGAATGTAACGATACATTCG
1 AA-AATGTATTGATACATTCG
* *
1390399 TACATGTATTGATACATT
1 AAAATGTATTGATACATT
1390417 TTCAATGTAT
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
19 2 0.06
20 27 0.87
21 2 0.06
ACGTcount: A:0.40, C:0.10, G:0.16, T:0.34
Consensus pattern (20 bp):
AAAATGTATTGATACATTCG
Done.