Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004693.1 Hibiscus syriacus cultivar Beakdansim tig00010533_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2620943
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
File 5 of 12
Found at i:937276 original size:19 final size:19
Alignment explanation
Indices: 937220--937277 Score: 55
Period size: 19 Copynumber: 3.0 Consensus size: 19
937210 TAAGATACAT
937220 AACTTAAAATATTATATT-
1 AACTTAAAATATTATATTC
* * * *
937238 ATTTCTTAATATTTTTTATTC
1 A--ACTTAAAATATTATATTC
937259 AACTTAAAATATTATATTC
1 AACTTAAAATATTATATTC
937278 TTTATAATAT
Statistics
Matches: 29, Mismatches: 8, Indels: 5
0.69 0.19 0.12
Matches are distributed among these distances:
18 1 0.03
19 14 0.48
20 13 0.45
21 1 0.03
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.52
Consensus pattern (19 bp):
AACTTAAAATATTATATTC
Found at i:946949 original size:14 final size:14
Alignment explanation
Indices: 946909--946950 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
946899 CATAGCTCGC
* *
946909 TCGGATAGCCTCGG
1 TCGGATGGCCTCAG
*
946923 TCGGATGCCCTCAG
1 TCGGATGGCCTCAG
946937 TCGGATGGCCTCAG
1 TCGGATGGCCTCAG
946951 ATGCCCAGCG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.14, C:0.31, G:0.33, T:0.21
Consensus pattern (14 bp):
TCGGATGGCCTCAG
Found at i:949408 original size:20 final size:20
Alignment explanation
Indices: 949379--949417 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
949369 TATCCGGTAT
949379 GATTCAAACGATTCAAATCC
1 GATTCAAACGATTCAAATCC
* *
949399 GATTCGAACGGTTCAAATC
1 GATTCAAACGATTCAAATC
949418 TGTTCACTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (20 bp):
GATTCAAACGATTCAAATCC
Found at i:950830 original size:42 final size:42
Alignment explanation
Indices: 950771--950901 Score: 244
Period size: 42 Copynumber: 3.1 Consensus size: 42
950761 CAAAACGTAT
*
950771 CACCGATGGCTGCACATGGCAATCAAGGACAGAAACCGGCTA
1 CACCGATGGCTGCACATGGTAATCAAGGACAGAAACCGGCTA
*
950813 CACCGATGGCTGCACATGTTAATCAAGGACAGAAACCGGCTA
1 CACCGATGGCTGCACATGGTAATCAAGGACAGAAACCGGCTA
950855 CACCGATGGCTGCACATGGTAATCAAGGACAGAAACCGGCTA
1 CACCGATGGCTGCACATGGTAATCAAGGACAGAAACCGGCTA
950897 CACCG
1 CACCG
950902 GTGGTGGATG
Statistics
Matches: 86, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 86 1.00
ACGTcount: A:0.33, C:0.28, G:0.25, T:0.14
Consensus pattern (42 bp):
CACCGATGGCTGCACATGGTAATCAAGGACAGAAACCGGCTA
Found at i:963778 original size:30 final size:29
Alignment explanation
Indices: 963725--963857 Score: 105
Period size: 29 Copynumber: 4.7 Consensus size: 29
963715 AAATTTCAAA
* * * *
963725 AATATCTTTTGTTTTTGTTTTAACTTATT
1 AATATATTTTATTTTTATATTAACTTATT
963754 AGATATATTTTATTTTTATATTAACTTATT
1 A-ATATATTTTATTTTTATATTAACTTATT
* * *
963784 AATATATTTTATTTTAATA-TAA--AAAT
1 AATATATTTTATTTTTATATTAACTTATT
* * * * **
963810 -ATATATTTTATTCTTATCTTCACTCAAA
1 AATATATTTTATTTTTATATTAACTTATT
963838 AATATATTTTATTTTT-TATT
1 AATATATTTTATTTTTATATT
963858 TTAAATTAAT
Statistics
Matches: 84, Mismatches: 15, Indels: 11
0.76 0.14 0.10
Matches are distributed among these distances:
25 15 0.18
26 4 0.05
28 8 0.10
29 32 0.38
30 25 0.30
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.59
Consensus pattern (29 bp):
AATATATTTTATTTTTATATTAACTTATT
Found at i:963789 original size:29 final size:29
Alignment explanation
Indices: 963725--963871 Score: 113
Period size: 30 Copynumber: 5.1 Consensus size: 29
963715 AAATTTCAAA
* * * * *
963725 AATATCTTTTGTTTTTGTTTTAACTTATT
1 AATATATTTTATTTTTATATTAACTTAAT
*
963754 AGATATATTTTATTTTTATATTAACTTATT
1 A-ATATATTTTATTTTTATATTAACTTAAT
* *
963784 AATATATTTTATTTTAATA-TAA--AAAT
1 AATATATTTTATTTTTATATTAACTTAAT
* * * * *
963810 -ATATATTTTATTCTTATCTTCACTCAAA
1 AATATATTTTATTTTTATATTAACTTAAT
* *
963838 AATATATTTTATTTTTTATTTTAAATTAAT
1 AATATATTTTA-TTTTTATATTAACTTAAT
963868 AATA
1 AATA
963872 AAATATTTAA
Statistics
Matches: 93, Mismatches: 19, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
25 15 0.16
26 4 0.04
28 5 0.05
29 28 0.30
30 41 0.44
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.57
Consensus pattern (29 bp):
AATATATTTTATTTTTATATTAACTTAAT
Found at i:963919 original size:15 final size:15
Alignment explanation
Indices: 963881--963919 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
963871 AAAATATTTA
*
963881 AATATA-TTTAAATT
1 AATATATTTTAAAAT
963895 AATATATTTTAAAAT
1 AATATATTTTAAAAT
963910 AATATATTTT
1 AATATATTTT
963920 TAAGTGATGA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 6 0.26
15 17 0.74
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
AATATATTTTAAAAT
Found at i:963970 original size:31 final size:32
Alignment explanation
Indices: 963904--964009 Score: 83
Period size: 31 Copynumber: 3.2 Consensus size: 32
963894 TAATATATTT
* * *
963904 TAAAATAATATATTTTTAAGTGATGATAAAGA
1 TAAAATAATATATTTTTAAGTAAAGATAAAAA
*
963936 TAAAAT-ATATATTTTTATATTAAAG-TAAAAA
1 TAAAATAATATATTTTTA-AGTAAAGATAAAAA
* *
963967 TAAAAATAAAATATATTTAATAAGTTAAA-ACAAAAA
1 T-AAAAT--AATATATTT-TTAAG-TAAAGATAAAAA
964003 TAAAATA
1 TAAAATA
964010 CTCTCCCTGT
Statistics
Matches: 59, Mismatches: 7, Indels: 15
0.73 0.09 0.19
Matches are distributed among these distances:
31 17 0.29
32 15 0.25
33 1 0.02
35 14 0.24
36 12 0.20
ACGTcount: A:0.58, C:0.01, G:0.06, T:0.35
Consensus pattern (32 bp):
TAAAATAATATATTTTTAAGTAAAGATAAAAA
Found at i:964196 original size:20 final size:20
Alignment explanation
Indices: 964173--964224 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
964163 AACGCGATCC
964173 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
964193 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
*
964213 CCAAAATCGCAA
1 CCAGAATCGCAA
964225 CGCGATTCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.38, C:0.27, G:0.13, T:0.21
Consensus pattern (20 bp):
CCAGAATCGCAAATCAGTTT
Found at i:964305 original size:20 final size:20
Alignment explanation
Indices: 964280--964473 Score: 74
Period size: 20 Copynumber: 9.7 Consensus size: 20
964270 GATTTTCCAT
* *
964280 AATCGCAACGCGAATATGA-A
1 AATCGCAACGCGAACA-CATA
964300 AATCGCAACGCGAACACATA
1 AATCGCAACGCGAACACATA
* *
964320 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
964340 AATCGCAACGTGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* ****
964360 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGAACACATA
* * * *
964380 AATCGCAATGCGTATC-CGTT
1 AATCGCAACGCG-AACACATA
* * *
964400 TATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
** *
964420 AATCGCAACGATAATACATAA
1 AATCGCAACGCGAACACAT-A
* * *
964441 AATCGCAACGCGTACCCGTA
1 AATCGCAACGCGAACACATA
964461 AATCGCAACGCGA
1 AATCGCAACGCGA
964474 TATTTAAAGC
Statistics
Matches: 136, Mismatches: 32, Indels: 12
0.76 0.18 0.07
Matches are distributed among these distances:
19 2 0.01
20 118 0.87
21 16 0.12
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGAACACATA
Found at i:964325 original size:40 final size:40
Alignment explanation
Indices: 964276--964472 Score: 121
Period size: 40 Copynumber: 4.9 Consensus size: 40
964266 TTGCGATTTT
*
964276 CCAT-AATCGCAACGCGAATATGAAAATCGCAACGCG-AA
1 CCATAAATCGCAACGCGAATACGAAAATCGCAACGCGTAA
* * * * *
964314 CACATAAATCGCAACGCGTATCCGTAAATCGCAACGTGTAT
1 C-CATAAATCGCAACGCGAATACGAAAATCGCAACGCGTAA
* * ** * * *
964355 CCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTAT
1 CCATAAATCGCAACGCGAATACGAAAATCGCAACGCGTAA
* ** * * * *
964395 CCGTTTATCGCAACGCGTATCCGTAAATCGCAACG-ATAA
1 CCATAAATCGCAACGCGAATACGAAAATCGCAACGCGTAA
* * ** *
964434 TACATAAAATCGCAACGCGTACCCGTAAATCGCAACGCG
1 -CCAT-AAATCGCAACGCGAATACGAAAATCGCAACGCG
964473 ATATTTAAAG
Statistics
Matches: 129, Mismatches: 24, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
38 1 0.01
39 5 0.04
40 93 0.72
41 30 0.23
ACGTcount: A:0.35, C:0.27, G:0.19, T:0.19
Consensus pattern (40 bp):
CCATAAATCGCAACGCGAATACGAAAATCGCAACGCGTAA
Found at i:964363 original size:60 final size:60
Alignment explanation
Indices: 964280--964472 Score: 233
Period size: 60 Copynumber: 3.2 Consensus size: 60
964270 GATTTTCCAT
* ** * *
964280 AATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
* * *** * *
964340 AATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGTT
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
* ** *
964400 TATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTACCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGTA
964461 AATCGCAACGCG
1 AATCGCAACGCG
964473 ATATTTAAAG
Statistics
Matches: 108, Mismatches: 24, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
60 79 0.73
61 29 0.27
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.19
Consensus pattern (60 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
Found at i:964893 original size:33 final size:33
Alignment explanation
Indices: 964854--964924 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
964844 TTCACTTAGA
*
964854 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
964887 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
964920 TTTCA
1 TTTCA
964925 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:965064 original size:14 final size:14
Alignment explanation
Indices: 965045--965099 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
965035 AGAATGACTG
965045 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
*
965059 TCGCAACGCGAAATGAAAA
1 TCGCAA--CG--A-GAGAA
965078 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
965092 TCGCAACG
1 TCGCAACG
965100 CGAAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.42, C:0.24, G:0.25, T:0.09
Consensus pattern (14 bp):
TCGCAACGAGAGAA
Found at i:965082 original size:33 final size:33
Alignment explanation
Indices: 965045--965115 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
965035 AGAATGACTG
**
965045 TCGCAACGAGAGAATCGCAACGCGAAATGAAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
965078 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
965111 TCGCA
1 TCGCA
965116 TTGCGATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.44, C:0.25, G:0.23, T:0.08
Consensus pattern (33 bp):
TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
Found at i:965133 original size:19 final size:19
Alignment explanation
Indices: 965111--965208 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
965101 GAAACCAAAA
*
965111 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
965130 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
965144 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
965163 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * *
965177 TCTCGTTGCGATTGTCATC
1 TCGCGTTGCGATTTTCATT
965196 TCGCGTTGCGATT
1 TCGCGTTGCGATT
965209 CTCTCGTTGC
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
14 20 0.32
16 5 0.08
17 6 0.10
19 32 0.51
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:965152 original size:14 final size:14
Alignment explanation
Indices: 965133--965222 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
965123 TTTCATTTCG
965133 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
965147 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
965166 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
965180 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
965197 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
965213 CGTTGCGATT
1 CGTTGCGATT
965223 TTCATTTCAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.09, C:0.26, G:0.23, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:965158 original size:33 final size:33
Alignment explanation
Indices: 965116--965230 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
965106 CAAAATCGCA
965116 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
965149 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
965182 TTGCGATTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
965215 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
965231 AACCAAAAGA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.10, C:0.24, G:0.21, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:967157 original size:185 final size:186
Alignment explanation
Indices: 966927--967399 Score: 921
Period size: 185 Copynumber: 2.5 Consensus size: 186
966917 TAGATTGCTT
*
966927 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
966992 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
967057 GTGTATTCTTTAACACTGTGAAATA-TATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
967112 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
967177 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
967242 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
967298 AGTATATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
967363 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTT
967400 ATCCATTCAA
Statistics
Matches: 285, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
185 154 0.54
186 131 0.46
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.47
Consensus pattern (186 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:967241 original size:93 final size:93
Alignment explanation
Indices: 966927--967399 Score: 921
Period size: 93 Copynumber: 5.1 Consensus size: 93
966917 TAGATTGCTT
*
966927 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
966992 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
967020 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
967084 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
967112 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
967177 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
967205 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
967270 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
967298 AGTATATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
967363 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
967391 AGTAAATTT
1 AGTAAATTT
967400 ATCCATTCAA
Statistics
Matches: 376, Mismatches: 3, Indels: 2
0.99 0.01 0.01
Matches are distributed among these distances:
92 92 0.24
93 284 0.76
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.47
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:967483 original size:19 final size:19
Alignment explanation
Indices: 967443--967557 Score: 132
Period size: 19 Copynumber: 6.3 Consensus size: 19
967433 TAGTTTACTT
* *
967443 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
967463 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
967482 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
967501 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
* *
967520 TCGCAA----AGA-CAAGA
1 TCGCAACGCGAAACCAAAA
967534 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
967553 TCGCA
1 TCGCA
967558 TTGCGATTTT
Statistics
Matches: 80, Mismatches: 10, Indels: 11
0.79 0.10 0.11
Matches are distributed among these distances:
14 10 0.12
15 2 0.03
18 2 0.03
19 53 0.66
20 13 0.16
ACGTcount: A:0.47, C:0.28, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:967575 original size:19 final size:18
Alignment explanation
Indices: 967553--967652 Score: 90
Period size: 19 Copynumber: 5.8 Consensus size: 18
967543 GAAACCAAAA
*
967553 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTC-TT
967572 TCGCGTTGCGA--TTCTT
1 TCGCGTTGCGATTTTCTT
*
967588 T--CGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTT-CTT
*
967605 TCGCGTTGCGA--TTCTG
1 TCGCGTTGCGATTTTCTT
967621 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTC-TT
967638 TCGCGTTGCGATTTT
1 TCGCGTTGCGATTTT
967653 AAGTTTCGTG
Statistics
Matches: 66, Mismatches: 5, Indels: 20
0.73 0.05 0.22
Matches are distributed among these distances:
14 16 0.24
16 10 0.15
17 10 0.15
19 30 0.45
ACGTcount: A:0.09, C:0.20, G:0.24, T:0.47
Consensus pattern (18 bp):
TCGCGTTGCGATTTTCTT
Found at i:967594 original size:14 final size:14
Alignment explanation
Indices: 967575--967631 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
967565 TTTCATTTCG
967575 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
*
967589 CGTTGCGATTTTGGTTT
1 CGTTGCGA--TT-CTTT
*
967606 CGCGTTGCGATTCTGT
1 --CGTTGCGATTCTTT
967622 CGTTGCGATT
1 CGTTGCGATT
967632 TTCATTTCGC
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 18 0.51
16 4 0.11
17 5 0.14
19 8 0.23
ACGTcount: A:0.07, C:0.19, G:0.28, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:967600 original size:33 final size:33
Alignment explanation
Indices: 967558--967650 Score: 159
Period size: 33 Copynumber: 2.8 Consensus size: 33
967548 CAAAATCGCA
*
967558 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
**
967591 TTGCGATTTTGGTTTCGCGTTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
967624 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
967651 TTAAGTTTCG
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 55 1.00
ACGTcount: A:0.09, C:0.19, G:0.25, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:967665 original size:20 final size:19
Alignment explanation
Indices: 967553--967668 Score: 72
Period size: 19 Copynumber: 6.6 Consensus size: 19
967543 GAAACCAAAA
* *
967553 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTAATT
*
967572 TCGCGTTGCGA--TT-CTT
1 TCGCGTTGCGATTTTAATT
**
967588 T--CGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTAATT
* *
967605 TCGCGTTGCGA--TT-CTG
1 TCGCGTTGCGATTTTAATT
*
967621 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTAATT
967638 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTAA-TT
*
967658 TCGTGTTGCGA
1 TCGCGTTGCGA
967669 AAGTAAACTA
Statistics
Matches: 77, Mismatches: 9, Indels: 21
0.72 0.08 0.20
Matches are distributed among these distances:
14 16 0.21
16 9 0.12
17 9 0.12
19 31 0.40
20 12 0.16
ACGTcount: A:0.10, C:0.19, G:0.25, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTAATT
Found at i:969610 original size:14 final size:14
Alignment explanation
Indices: 969591--969626 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
969581 ATTGTTTAAT
969591 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
969605 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
969619 TGATTTGT
1 TGATTTGT
969627 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:969809 original size:20 final size:19
Alignment explanation
Indices: 969733--969815 Score: 113
Period size: 19 Copynumber: 4.6 Consensus size: 19
969723 AAAAATGACT
969733 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
969752 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
969771 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
969785 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
969805 ATCGCAATGCG
1 ATCGCAATGCG
969816 TTTATATTTT
Statistics
Matches: 56, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
14 10 0.18
15 1 0.02
16 1 0.02
17 3 0.05
19 28 0.50
20 13 0.23
ACGTcount: A:0.43, C:0.18, G:0.24, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:969868 original size:19 final size:19
Alignment explanation
Indices: 969844--970150 Score: 376
Period size: 19 Copynumber: 17.4 Consensus size: 19
969834 GATTATCTCG
969844 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
969863 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
969882 TTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCA
969896 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
969915 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
969934 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
969953 TTGCGATTTTAATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
969972 TTGCGA--TTC-TGTCG--
1 TTGCGATTTTCATTTCGCA
969986 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
970005 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
970024 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
970038 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
970057 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
970076 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
970090 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
970110 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
* *
970124 TTGGGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
970143 TTGCGATT
1 TTGCGATT
970151 GTATTTTCCG
Statistics
Matches: 252, Mismatches: 10, Indels: 52
0.80 0.03 0.17
Matches are distributed among these distances:
14 35 0.14
16 31 0.12
17 27 0.11
18 3 0.01
19 144 0.57
20 12 0.05
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:969919 original size:71 final size:71
Alignment explanation
Indices: 969844--970083 Score: 373
Period size: 71 Copynumber: 3.4 Consensus size: 71
969834 GATTATCTCG
969844 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCAT
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCAT
969909 TTCGCA
66 TTCGCA
*
969915 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTAATTTCGCATTGCGA--
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TT-CTTTCG--TTGCGATT
*
969978 TTC-TGTCG--
61 TTCATTTCGCA
*
969986 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCAT
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCAT
970051 TTCGCA
66 TTCGCA
970057 TTGCGATTTTCATTTCGCATTGCGATT
1 TTGCGATTTTCATTTCGCATTGCGATT
970084 CTCTCGTTGC
Statistics
Matches: 154, Mismatches: 5, Indels: 20
0.86 0.03 0.11
Matches are distributed among these distances:
66 6 0.04
68 7 0.05
69 6 0.04
71 115 0.75
73 6 0.04
74 8 0.05
76 6 0.04
ACGTcount: A:0.15, C:0.21, G:0.17, T:0.47
Consensus pattern (71 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCAT
TTCGCA
Found at i:969992 original size:142 final size:137
Alignment explanation
Indices: 969806--970150 Score: 507
Period size: 142 Copynumber: 2.5 Consensus size: 137
969796 GAAATGAAAA
* *
969806 TCGCAATGCG-TTTATATTTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGAT
1 TCGCATTGCGATTT-TAATTTCGCATTGCGATT-T-TCGTTGCGATTTTCATTTCGCATTGCGAT
*
969870 TTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCAT
63 TTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCAT
*
969935 TGCGATTTTCATT
128 TGCGA--TTC-TC
969948 TCGCATTGCGATTTTAATTTCGCATTGCGATTCTGTCGTTGCGATTTTCATTTCGCATTGCGATT
1 TCGCATTGCGATTTTAATTTCGCATTGCGATT-T-TCGTTGCGATTTTCATTTCGCATTGCGATT
970013 TTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATT
64 TTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATT
970078 GCGATTCTC
129 GCGATTCTC
* * *
970087 TCG--TTGCGATTTTCATTTCCGCATTGCGATTTTCATGTTGGGATTTTCATTTCGCGTTGCGAT
1 TCGCATTGCGATTTTAATTT-CGCATTGCGATTTTC--GTTGCGATTTTCATTTCGCATTGCGAT
970150 T
63 T
970151 GTATTTTCCG
Statistics
Matches: 190, Mismatches: 9, Indels: 12
0.90 0.04 0.06
Matches are distributed among these distances:
136 2 0.01
137 15 0.08
138 38 0.20
139 4 0.02
140 3 0.02
142 125 0.66
143 3 0.02
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.46
Consensus pattern (137 bp):
TCGCATTGCGATTTTAATTTCGCATTGCGATTTTCGTTGCGATTTTCATTTCGCATTGCGATTTT
CATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGC
GATTCTC
Found at i:970089 original size:52 final size:52
Alignment explanation
Indices: 969844--970122 Score: 388
Period size: 52 Copynumber: 5.2 Consensus size: 52
969834 GATTATCTCG
*
969844 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCGCA
*
969896 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCGCA
* *
969953 TTGCGATTTTAATTTCGCATTGCGATTCTGTCGTTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
970005 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
970057 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCA
970110 TTGCGATTTTCAT
1 TTGCGATTTTCAT
970123 GTTGGGATTT
Statistics
Matches: 217, Mismatches: 4, Indels: 11
0.94 0.02 0.05
Matches are distributed among these distances:
52 161 0.74
53 17 0.08
54 7 0.03
55 8 0.04
57 24 0.11
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.47
Consensus pattern (52 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
Found at i:972450 original size:12 final size:12
Alignment explanation
Indices: 972433--972457 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
972423 TCTTCGGGGA
972433 CTTTTTCTTCTT
1 CTTTTTCTTCTT
972445 CTTTTTCTTCTT
1 CTTTTTCTTCTT
972457 C
1 C
972458 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:972666 original size:24 final size:24
Alignment explanation
Indices: 972632--972678 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
972622 CTGAAACATC
972632 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
972656 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
972679 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:973389 original size:20 final size:20
Alignment explanation
Indices: 973361--973729 Score: 458
Period size: 20 Copynumber: 18.4 Consensus size: 20
973351 AAATTTCAGT
* * * *
973361 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
973381 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
* * *
973401 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
973421 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
973441 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
973461 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
973481 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
973501 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
973521 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
973541 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
*
973561 GTTGCGGTTTACGGATACGC
1 GTTGCGATTTACGGATACGC
973581 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
973601 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
* **
973621 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATACGC
*
973641 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
973661 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
973681 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATACGC
* ** *
973701 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATACGC
973721 GTTGCGATT
1 GTTGCGATT
973730 ATGGAAAATC
Statistics
Matches: 309, Mismatches: 32, Indels: 16
0.87 0.09 0.04
Matches are distributed among these distances:
19 5 0.02
20 299 0.97
21 5 0.02
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:974435 original size:25 final size:25
Alignment explanation
Indices: 974407--974457 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
974397 TGTATTGAAT
*
974407 ATCTTAAT-GATTGTTTATATTTTTA
1 ATCTAAATAGATTGTTTA-ATTTTTA
* *
974432 ATCTAAATATATTTTTTAATTTTTA
1 ATCTAAATAGATTGTTTAATTTTTA
974457 A
1 A
974458 AAAATTAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.59
Consensus pattern (25 bp):
ATCTAAATAGATTGTTTAATTTTTA
Found at i:975397 original size:2 final size:2
Alignment explanation
Indices: 975390--975441 Score: 70
Period size: 2 Copynumber: 26.5 Consensus size: 2
975380 GAAGGACTCA
* * *
975390 AT AT AT AT AC AC AT AT AT AT AT AT AT AT AT AT AT AT A- AA AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
975431 AT AT AT AT AT A
1 AT AT AT AT AT A
975442 CACACTAATT
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
1 1 0.02
2 45 0.98
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (2 bp):
AT
Found at i:983998 original size:21 final size:21
Alignment explanation
Indices: 983974--984069 Score: 69
Period size: 21 Copynumber: 4.7 Consensus size: 21
983964 AGGTTTAGAG
*
983974 TTTAGAGTTTATGTGATAGGA
1 TTTAGAGTTTATGTGTTAGGA
*
983995 TTTA-AGGTTTAAAGT-TTA-GA
1 TTTAGA-GTTT-ATGTGTTAGGA
*
984015 GTTTAGGGTTTATGTGTTAAGG-
1 -TTTAGAGTTTATGTGTT-AGGA
* *
984037 TTTAGGGTTTATGTGTTAGGG
1 TTTAGAGTTTATGTGTTAGGA
984058 TTTA-AG-TTATGT
1 TTTAGAGTTTATGT
984070 CATGAAGGTA
Statistics
Matches: 62, Mismatches: 5, Indels: 18
0.73 0.06 0.21
Matches are distributed among these distances:
19 6 0.10
20 10 0.16
21 41 0.66
22 4 0.06
23 1 0.02
ACGTcount: A:0.24, C:0.00, G:0.29, T:0.47
Consensus pattern (21 bp):
TTTAGAGTTTATGTGTTAGGA
Found at i:983999 original size:35 final size:35
Alignment explanation
Indices: 983947--984019 Score: 121
Period size: 35 Copynumber: 2.1 Consensus size: 35
983937 TCATAACTAA
*
983947 TTATGTGATAAGGTTTAAGGTTTAGAGTTTAGAGT
1 TTATGTGATAAGGTTTAAGGTTTAAAGTTTAGAGT
983982 TTATGTGAT-AGGATTTAAGGTTTAAAGTTTAGAGT
1 TTATGTGATAAGG-TTTAAGGTTTAAAGTTTAGAGT
984017 TTA
1 TTA
984020 GGGTTTATGT
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
34 3 0.08
35 33 0.92
ACGTcount: A:0.30, C:0.00, G:0.26, T:0.44
Consensus pattern (35 bp):
TTATGTGATAAGGTTTAAGGTTTAAAGTTTAGAGT
Found at i:984014 original size:42 final size:42
Alignment explanation
Indices: 983955--984047 Score: 134
Period size: 42 Copynumber: 2.2 Consensus size: 42
983945 AATTATGTGA
*
983955 TAAGGTTTAAGGTTTAGAGTTTAGAGTTTATGTGAT-AGGATT
1 TAAGGTTTAAAGTTTAGAGTTTAGAGTTTATGTGATAAGG-TT
* *
983997 TAAGGTTTAAAGTTTAGAGTTTAGGGTTTATGTGTTAAGGTT
1 TAAGGTTTAAAGTTTAGAGTTTAGAGTTTATGTGATAAGGTT
*
984039 TAGGGTTTA
1 TAAGGTTTA
984048 TGTGTTAGGG
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
42 43 0.93
43 3 0.07
ACGTcount: A:0.27, C:0.00, G:0.29, T:0.44
Consensus pattern (42 bp):
TAAGGTTTAAAGTTTAGAGTTTAGAGTTTATGTGATAAGGTT
Found at i:984047 original size:35 final size:35
Alignment explanation
Indices: 983960--984061 Score: 102
Period size: 35 Copynumber: 2.9 Consensus size: 35
983950 TGTGATAAGG
* *
983960 TTTAAGGTTTAGAGTTTAGAGTTTA-TGTGATAGGA
1 TTTAAGGTTTAGAGTTTAGAGTTTAGGGT-TTAGGA
* *
983995 TTTAAGGTTTAAAGTTTAGAGTTTAGGGTTTATG-
1 TTTAAGGTTTAGAGTTTAGAGTTTAGGGTTTAGGA
* *
984029 TGTTAAGGTTTAGGGTTTA-TGTGTTAGGGTTTA
1 T-TTAAGGTTTAGAGTTTAGAGT-TTAGGGTTTA
984062 AGTTATGTCA
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
34 3 0.05
35 52 0.91
36 2 0.04
ACGTcount: A:0.25, C:0.00, G:0.29, T:0.46
Consensus pattern (35 bp):
TTTAAGGTTTAGAGTTTAGAGTTTAGGGTTTAGGA
Found at i:984362 original size:17 final size:17
Alignment explanation
Indices: 984340--984376 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
984330 ATTCGAGTTT
*
984340 GAGTTCGAGCTTTAATC
1 GAGTTCGAGCTTGAATC
984357 GAGTTCGAGCTTGAATC
1 GAGTTCGAGCTTGAATC
984374 GAG
1 GAG
984377 CTCAAAATCG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.30
Consensus pattern (17 bp):
GAGTTCGAGCTTGAATC
Found at i:984375 original size:11 final size:11
Alignment explanation
Indices: 984361--984425 Score: 53
Period size: 11 Copynumber: 5.6 Consensus size: 11
984351 TTAATCGAGT
*
984361 TCGAGCTTGAA
1 TCGAGCTTCAA
984372 TCGAGC-TCAAAA
1 TCGAGCTTC--AA
984384 TCGAGCTTCAA
1 TCGAGCTTCAA
*
984395 TCGAGC-TCGAGTC
1 TCGAGCTTC-A--A
984408 TCGAGCTTCAA
1 TCGAGCTTCAA
984419 TCGAGCT
1 TCGAGCT
984426 CTTGAATTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 14
0.72 0.05 0.23
Matches are distributed among these distances:
10 3 0.07
11 22 0.50
12 8 0.18
13 9 0.20
14 2 0.05
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (11 bp):
TCGAGCTTCAA
Found at i:984416 original size:24 final size:23
Alignment explanation
Indices: 984355--984426 Score: 99
Period size: 23 Copynumber: 3.1 Consensus size: 23
984345 CGAGCTTTAA
*
984355 TCGAGTTCGAGCTTGAATCGAGC
1 TCGAGTTCGAGCTTCAATCGAGC
* **
984378 TCAAAATCGAGCTTCAATCGAGC
1 TCGAGTTCGAGCTTCAATCGAGC
984401 TCGAGTCTCGAGCTTCAATCGAGC
1 TCGAGT-TCGAGCTTCAATCGAGC
984425 TC
1 TC
984427 TTGAATTTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
23 22 0.54
24 19 0.46
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (23 bp):
TCGAGTTCGAGCTTCAATCGAGC
Found at i:985812 original size:13 final size:13
Alignment explanation
Indices: 985790--985822 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
985780 TATTTTTCGA
985790 ATCGTATAATCGT
1 ATCGTATAATCGT
*
985803 ATCGTGTAATCGT
1 ATCGTATAATCGT
985816 ATCGTAT
1 ATCGTAT
985823 TTAATGTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.39
Consensus pattern (13 bp):
ATCGTATAATCGT
Found at i:989530 original size:61 final size:60
Alignment explanation
Indices: 989457--989582 Score: 148
Period size: 60 Copynumber: 2.1 Consensus size: 60
989447 TAGTCCCTTA
* * * *
989457 ACTATAAGGTATTAATATTT-TTAAGTCATTTGACTATTAAAAGTTATAAGATGATCATTTG
1 ACTATAAGGTATT-AT-TTTATTAAGTCAGTTGACTATTAAAAGTTATAAAATGATCACTCG
* * *
989518 ACTATATA-GTATTGTTTTATTGAGTCCGTTGACTATTAAAAGTTATAAAATGATCACTCG
1 ACTATA-AGGTATTATTTTATTAAGTCAGTTGACTATTAAAAGTTATAAAATGATCACTCG
989578 ACTAT
1 ACTAT
989583 TCATAGTTCT
Statistics
Matches: 56, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
59 3 0.05
60 41 0.73
61 11 0.20
62 1 0.02
ACGTcount: A:0.36, C:0.10, G:0.13, T:0.41
Consensus pattern (60 bp):
ACTATAAGGTATTATTTTATTAAGTCAGTTGACTATTAAAAGTTATAAAATGATCACTCG
Found at i:991848 original size:2 final size:2
Alignment explanation
Indices: 991813--991838 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
991803 ATATGCAGGG
991813 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
991839 TACAATATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:993684 original size:20 final size:20
Alignment explanation
Indices: 993629--993686 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
993619 ACTTGTTTGG
*
993629 AAGACCTGTAAATCGATTGT
1 AAGACCTGTAAATCGGTTGT
993649 AAGACCTGTAAATCGGTTGT
1 AAGACCTGTAAATCGGTTGT
*
993669 AAGACCTGAAAATCGGTT
1 AAGACCTGTAAATCGGTT
993687 CCTAATCCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (20 bp):
AAGACCTGTAAATCGGTTGT
Found at i:1001840 original size:18 final size:18
Alignment explanation
Indices: 1001798--1001833 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
1001788 TTAAGATTGA
1001798 ATAAAATTATATTCTATT
1 ATAAAATTATATTCTATT
1001816 ATAAAATTATATTC-ATT
1 ATAAAATTATATTCTATT
1001833 A
1 A
1001834 ATTAAATAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (18 bp):
ATAAAATTATATTCTATT
Found at i:1010899 original size:16 final size:16
Alignment explanation
Indices: 1010878--1010910 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
1010868 TAATAAATAA
1010878 ACGAACATAAAAGAAC
1 ACGAACATAAAAGAAC
*
1010894 ACGAACATAAACGAAC
1 ACGAACATAAAAGAAC
1010910 A
1 A
1010911 AATTTTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.61, C:0.21, G:0.12, T:0.06
Consensus pattern (16 bp):
ACGAACATAAAAGAAC
Found at i:1010989 original size:10 final size:10
Alignment explanation
Indices: 1010976--1011053 Score: 83
Period size: 10 Copynumber: 8.1 Consensus size: 10
1010966 CATGTAAATG
1010976 ATAAACGAAC
1 ATAAACGAAC
1010986 ATAAACGAAC
1 ATAAACGAAC
*
1010996 GTAAACGAAC
1 ATAAACGAAC
*
1011006 ACAAACGAAC
1 ATAAACGAAC
*
1011016 --GAAC-ATA-
1 ATAAACGA-AC
*
1011023 ATAAATGAAC
1 ATAAACGAAC
1011033 ATAAACGAAC
1 ATAAACGAAC
1011043 ATAAACGAAC
1 ATAAACGAAC
1011053 A
1 A
1011054 ACACAAACAC
Statistics
Matches: 56, Mismatches: 7, Indels: 10
0.77 0.10 0.14
Matches are distributed among these distances:
7 1 0.02
8 4 0.07
9 3 0.05
10 48 0.86
ACGTcount: A:0.59, C:0.19, G:0.12, T:0.10
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:1011038 original size:37 final size:36
Alignment explanation
Indices: 1010986--1011056 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 36
1010976 ATAAACGAAC
*
1010986 ATAAACGAACGTAAACGAACACAAACGAACGAACATA
1 ATAAACGAACATAAACGAACACAAACGAAC-AACATA
* *
1011023 ATAAATGAACATAAACGAACATAAACGAACAACA
1 ATAAACGAACATAAACGAACACAAACGAACAACA
1011057 CAAACACAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
36 4 0.13
37 27 0.87
ACGTcount: A:0.59, C:0.20, G:0.11, T:0.10
Consensus pattern (36 bp):
ATAAACGAACATAAACGAACACAAACGAACAACATA
Found at i:1011551 original size:57 final size:58
Alignment explanation
Indices: 1011462--1011579 Score: 202
Period size: 57 Copynumber: 2.1 Consensus size: 58
1011452 TGCTATTTAT
1011462 GGTGTTGGGGACAGCCTACTATCCTACCTCCCCTTACCTCATTACATATAGGAATAAG
1 GGTGTTGGGGACAGCCTACTATCCTACCTCCCCTTACCTCATTACATATAGGAATAAG
* * *
1011520 GGTGTTGGGG-CAGCCTACTATCCTATCTCCCCTTACCTCATTACATATGGGAATATG
1 GGTGTTGGGGACAGCCTACTATCCTACCTCCCCTTACCTCATTACATATAGGAATAAG
1011577 GGT
1 GGT
1011580 CAGTTAATTT
Statistics
Matches: 57, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
57 47 0.82
58 10 0.18
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.30
Consensus pattern (58 bp):
GGTGTTGGGGACAGCCTACTATCCTACCTCCCCTTACCTCATTACATATAGGAATAAG
Found at i:1013513 original size:47 final size:44
Alignment explanation
Indices: 1013423--1013514 Score: 114
Period size: 47 Copynumber: 2.0 Consensus size: 44
1013413 ATAATATCAT
* * *
1013423 AATAATAATAAAATAAAATAATAGAGAAAAAAATGAAATAATAA
1 AATAATAATAAAATAAAATAAAAAACAAAAAAATGAAATAATAA
1013467 AATAATAATAACAATGAAAATAAAAAACCAAAAAAATG-AATAAATAA
1 AATAATAATAA-AAT-AAAATAAAAAA-CAAAAAAATGAAAT-AATAA
1013514 A
1 A
1013515 TAAAAGGTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
44 11 0.27
45 3 0.07
46 12 0.29
47 15 0.37
ACGTcount: A:0.73, C:0.03, G:0.05, T:0.18
Consensus pattern (44 bp):
AATAATAATAAAATAAAATAAAAAACAAAAAAATGAAATAATAA
Found at i:1015424 original size:106 final size:106
Alignment explanation
Indices: 1015239--1016375 Score: 1798
Period size: 106 Copynumber: 10.8 Consensus size: 106
1015229 GTGAAGTTGA
* *
1015239 AAGTTATTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGAGTCCA
1 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* *
1015304 ATATCATTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGG
66 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGG
* * * * * *
1015345 AAGTTATTTATTGACAACCAGCGATCCCTTCTTCATGAAGTTGAACTTGCGTTGTCTTGAGTCTA
1 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* *
1015410 ATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAAATTGGG
66 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGG
*
1015451 AAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
1 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* *
1015516 ATATCCTTCGTTGTGAAGTTGGAATTGGCTCTGAAATTGAG
66 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGG
*
1015557 AAGTTGTTTATTGACAACCAGCGGTTCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
1 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
*
1015622 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAG
66 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGG
* * *
1015663 AAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTAAACTTGTGTTGTCTGGAGTCCA
1 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* * * * *
1015728 CTATCCTTCGCTGTGAAGTTGAATTTGACTCT-AGAATTGGA
66 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA-AATTGGG
* *
1015769 AAATTGTTTATTGACAACCAGCGATCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
1 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
*
1015834 ATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGGG
66 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGG
1015875 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
1 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
1015940 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGG
66 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGG
1015981 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
1 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
**
1016046 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAA
66 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGG
*
1016087 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGGAGTCCA
1 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* * * *
1016152 CTATCCTTCGCTGTGAAGTTGAAATTGACTCT-AGAATTGGA
66 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA-AATTGGG
* *
1016193 AAATTGTTTATTGACAACCAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTGGAGTCCA
1 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
1016258 ATATCCTTCGTTGTGAAGTTGAAATTGG----G--A-----
66 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGG
* *
1016288 AA-TTGTTTATTGACAACCAGCGGTCCCCTCGTCGTGAAGTTGAACTTGTGTTGTCTGGAGTCCA
1 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
*
1016352 ATATCCTTCGCTGTGAAGTTGAAA
66 ATATCCTTCGTTGTGAAGTTGAAA
1016376 GTTATTTATT
Statistics
Matches: 966, Mismatches: 61, Indels: 20
0.92 0.06 0.02
Matches are distributed among these distances:
94 82 0.08
95 2 0.00
100 1 0.00
105 2 0.00
106 878 0.91
107 1 0.00
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.34
Consensus pattern (106 bp):
AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGG
Found at i:1015499 original size:212 final size:212
Alignment explanation
Indices: 1015239--1017637 Score: 3645
Period size: 212 Copynumber: 11.5 Consensus size: 212
1015229 GTGAAGTTGA
* *
1015239 AAGTTATTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGAGTCCA
1 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* * *
1015304 ATATCATTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTATTTATTGACAACCAGCGA
66 ATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGCGG
* * * * *
1015369 TCCCTTCTTCATGAAGTTGAACTTGCGTTGTCTTGAGTCTAATATCCTTCGCTGTGAAGTTGAAA
131 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAA
*
1015434 TTGACTCTGAAATTGGG
196 TTGGCTCTGAAATTGGG
*
1015451 AAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
1 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* * *
1015516 ATATCCTTCGTTGTGAAGTTGGAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAACCAGCGG
66 ATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGCGG
*
1015581 TTCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAA
131 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAA
*
1015646 TTGGCTCTGAAATTGAG
196 TTGGCTCTGAAATTGGG
* * *
1015663 AAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTAAACTTGTGTTGTCTGGAGTCCA
1 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* * * * *
1015728 CTATCCTTCGCTGTGAAGTTGAATTTGACTCT-AGAATTGGAAAATTGTTTATTGACAACCAGCG
66 ATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGA-AATTGGGAAGTTGTTTATTGACAACCAGCG
* *
1015792 ATCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCATTGTGAAGTTGAA
130 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAA
1015857 ATTGGCTCTGAAATTGGG
195 ATTGGCTCTGAAATTGGG
1015875 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
1 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
*
1015940 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGCGG
66 ATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGCGG
1016005 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAA
131 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAA
**
1016070 TTGGCTCTGAAATTGAA
196 TTGGCTCTGAAATTGGG
*
1016087 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGGAGTCCA
1 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* * * *
1016152 CTATCCTTCGCTGTGAAGTTGAAATTGACTCT-AGAATTGGAAAATTGTTTATTGACAACCAGCG
66 ATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGA-AATTGGGAAGTTGTTTATTGACAACCAGCG
*
1016216 GTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAA
130 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAA
1016281 ATTGG----G--A-----
195 ATTGGCTCTGAAATTGGG
* *
1016288 AA-TTGTTTATTGACAACCAGCGGTCCCCTCGTCGTGAAGTTGAACTTGTGTTGTCTGGAGTCCA
1 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
1016352 ATATCCTTCGCTGTGAAGTTGAAA--------G---TT----A----TTTATTGACAACCAGCGG
66 ATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGCGG
* * *
1016398 TCCCTTCGTCGTGAAGTTGAACTTGCGTTTTCTTGAGTCCAATATCCTTCGCTGTGAAGTTGAAA
131 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAA
*
1016463 TTAGCTCTGAAATTGGG
196 TTGGCTCTGAAATTGGG
* * *
1016480 AAGTTGTTTATTGATAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGAGTCTA
1 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* * * *
1016545 ATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAAATTGGGAAATTATTTATTGACAACCAACGG
66 ATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGCGG
*
1016610 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGGAA
131 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAA
*
1016675 TTGGCTCTGAAATTGAG
196 TTGGCTCTGAAATTGGG
1016692 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
1 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* * * *
1016757 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTAACAACCAGCGG
66 ATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGCGG
* * * *
1016822 TCCCTTCATCATGAAGTTGAACTTGTGTTGTCTGGAGTCCACTATCCTTCGTTGTGAAGTTGAAA
131 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAA
* *
1016887 TTGACTCT-AGAATTGGA
196 TTGGCTCTGA-AATTGGG
*
1016904 AAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGT-AATGTTGAACTTGCGTTGTCTGGAGTCC
1 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAA-GTTGAACTTGCGTTGTCTGGAGTCC
** ** *
1016968 AATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGACAAGTTGTTTGTTGACAACCAGCG
65 AATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGCG
* * *
1017033 GTCCCTTCGTCGTGAAGTTGAACATACGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAA
130 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAA
1017098 ATTGGCTCTGAAATTGGG
195 ATTGGCTCTGAAATTGGG
*
1017116 AAGTTATTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
1 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
*
1017181 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGCGG
66 ATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGCGG
* *
1017246 TCCCTTCTTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCATTCGTTGTGAAGTTGAAA
131 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAA
*
1017311 TTGGCTCTGAAATTGAG
196 TTGGCTCTGAAATTGGG
* *
1017328 AAGTTGTTTATTGACAACCAGTGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGGAGTCCA
1 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* * * *
1017393 CTATCCTTCGCTGTGAAGTTGAAAATTGACTCT-AGAATTGGAAAATTGTTTATTGACAACCAGC
66 ATATCCTTCGCTGTGAAGTTG-AAATTGGCTCTGA-AATTGGGAAGTTGTTTATTGACAACCAGC
1017457 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGA
129 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGA
1017522 AATTGG----G--A-----
194 AATTGGCTCTGAAATTGGG
* *
1017530 AA-TTGTTTATTGACAACCAGCGGTCCCCTCGTCGTGAAGTTGAACTTGTGTTGTCTGGAGTCCA
1 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
1017594 ATATCCTTCGCTGTGAAGTTGAAATTGGCTCT-AGAATTGGGAAG
66 ATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGA-AATTGGGAAG
1017638 CCCCTTCGTC
Statistics
Matches: 2014, Mismatches: 132, Indels: 94
0.90 0.06 0.04
Matches are distributed among these distances:
181 82 0.04
185 2 0.00
187 1 0.00
189 2 0.00
192 2 0.00
193 81 0.04
200 104 0.05
201 83 0.04
202 2 0.00
204 2 0.00
206 1 0.00
207 1 0.00
208 2 0.00
209 1 0.00
211 5 0.00
212 1533 0.76
213 110 0.05
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.34
Consensus pattern (212 bp):
AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
ATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGCGG
TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAA
TTGGCTCTGAAATTGGG
Found at i:1015822 original size:318 final size:317
Alignment explanation
Indices: 1015230--1017625 Score: 3605
Period size: 318 Copynumber: 7.7 Consensus size: 317
1015220 TCCTCCGTCG
* *
1015230 TGAAGTTGA-AAGTTATTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
* * * *
1015294 CTTGAGTCCAATATCATTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTATTTATTGA
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGA
* * * * *
1015359 CAACCAGCGATCCCTTCTTCATGAAGTTGAACTTGCGTTGTCTTGAGTCTAATATCCTTCGCTGT
131 CAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGT
* *
1015424 GAAGTTGAAATTGACTCTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGA
196 GAAGTTGAAATTGGCTCTGAAATT-GAAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGA
* *
1015489 AGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGGAATTGGCTC
260 AGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC
*
1015547 TGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTTCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
* *
1015612 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGA
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGA
* * *
1015677 CAACCAGCGGTCCCTTCGTCGTGAAGTTAAACTTGTGTTGTCTGGAGTCCACTATCCTTCGCTGT
131 CAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGT
* * *
1015742 GAAGTTGAATTTGACTCT-AGAATTGGAAAATTGTTTATTGACAACCAGCGATCCCTTCGTCGTG
196 GAAGTTGAAATTGGCTCTGA-AATT-GAAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTG
**
1015806 AAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTC
259 AAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC
*
1015865 TGAAATTGGGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1015930 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGA
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGA
*
1015995 CAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGT
131 CAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGT
1016060 GAAGTTGAAATTGGCTCTGAAATTGAAAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGA
196 GAAGTTGAAATTGGCTCTGAAATTGAAAA-TTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGA
* * *
1016125 AGTTGAACTTGTGTTGTCTGGAGTCCACTATCCTTCGCTGTGAAGTTGAAATTGACTC
260 AGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC
* *
1016183 T-AGAATTG-GAAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTT
1 TGA-AATTGAG-AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTT
1016246 GTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG----G--A-----AA-TTGTTTATT
64 GTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATT
* *
1016299 GACAACCAGCGGTCCCCTCGTCGTGAAGTTGAACTTGTGTTGTCTGGAGTCCAATATCCTTCGCT
129 GACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCT
1016364 GTGAAGTTGAAA--------G---TT----A---TTTATTGACAACCAGCGGTCCCTTCGTCGTG
194 GTGAAGTTGAAATTGGCTCTGAAATTGAAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTG
* * *
1016411 AAGTTGAACTTGCGTTTTCTTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTAGCTC
259 AAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC
* *
1016470 TGAAATTGGGAAGTTGTTTATTGATAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
* * * * * *
1016535 CTTGAGTCTAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAAATTGGGAAATTATTTATTGA
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGA
* *
1016600 CAACCAACGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGT
131 CAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGT
* *
1016665 GAAGTTGGAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGA
196 GAAGTTGAAATTGGCTCTGAAATTGA-AAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGA
*
1016730 AGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
260 AGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC
* * * * *
1016788 TGAAATTGAGAAGTTGTTTGTTAACAACCAGCGGTCCCTTCATCATGAAGTTGAACTTGTGTTGT
1 TGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
* * * *
1016853 CTGGAGTCCACTATCCTTCGTTGTGAAGTTGAAATTGACTCT-AGAATTGGAAAATTGTTTATTG
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA-AATTGGGAAGTTGTTTATTG
**
1016917 ACAACCAGCGGTCCCTTCGTCGT-AATGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCATT
130 ACAACCAGCGGTCCCTTCGTCGTGAA-GTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCT
* *
1016981 GTGAAGTTGAAATTGGCTCTGAAATTGACAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGT
194 GTGAAGTTGAAATTGGCTCTGAAATTGA-AAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGT
* *
1017046 GAAGTTGAACATACGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC
258 GAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC
* *
1017106 TGAAATTGGGAAGTTATTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1017171 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGA
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGA
* * *
1017236 CAACCAGCGGTCCCTTCTTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCATTCGTTGT
131 CAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGT
* *
1017301 GAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAACCAGTGGTCCCTTCGTCGTGA
196 GAAGTTGAAATTGGCTCTGAAATTGA-AAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGA
* * *
1017366 AGTTGAACTTGTGTTGTCTGGAGTCCACTATCCTTCGCTGTGAAGTTGAAAATTGACTC
260 AGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTG-AAATTGGCTC
*
1017425 T-AGAATTG-GAAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTT
1 TGA-AATTGAG-AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTT
1017488 GTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG----G--A-----AA-TTGTTTATT
64 GTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATT
* *
1017541 GACAACCAGCGGTCCCCTCGTCGTGAAGTTGAACTTGTGTTGTCTGGAGTCCAATATCCTTCGCT
129 GACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCT
1017606 GTGAAGTTGAAATTGGCTCT
194 GTGAAGTTGAAATTGGCTCT
1017626 AGAATTGGGA
Statistics
Matches: 1916, Mismatches: 117, Indels: 102
0.90 0.05 0.05
Matches are distributed among these distances:
287 176 0.09
288 2 0.00
291 2 0.00
293 1 0.00
295 2 0.00
298 3 0.00
299 80 0.04
306 83 0.04
307 92 0.05
308 2 0.00
310 2 0.00
312 1 0.00
313 1 0.00
314 1 0.00
315 1 0.00
317 19 0.01
318 1338 0.70
319 110 0.06
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.34
Consensus pattern (317 bp):
TGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGA
CAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGT
GAAGTTGAAATTGGCTCTGAAATTGAAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAA
GTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC
Found at i:1016439 original size:87 final size:87
Alignment explanation
Indices: 1016293--1016462 Score: 304
Period size: 87 Copynumber: 2.0 Consensus size: 87
1016283 TGGGAAATTG
*
1016293 TTTATTGACAACCAGCGGTCCCCTCGTCGTGAAGTTGAACTTGTGTTGTCTGGAGTCCAATATCC
1 TTTATTGACAACCAGCGGTCCCCTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCC
1016358 TTCGCTGTGAAGTTGAAAGTTA
66 TTCGCTGTGAAGTTGAAAGTTA
* * *
1016380 TTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTTTCTTGAGTCCAATATCC
1 TTTATTGACAACCAGCGGTCCCCTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCC
1016445 TTCGCTGTGAAGTTGAAA
66 TTCGCTGTGAAGTTGAAA
1016463 TTAGCTCTGA
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
87 79 1.00
ACGTcount: A:0.22, C:0.21, G:0.23, T:0.34
Consensus pattern (87 bp):
TTTATTGACAACCAGCGGTCCCCTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCC
TTCGCTGTGAAGTTGAAAGTTA
Found at i:1016455 original size:43 final size:42
Alignment explanation
Indices: 1016321--1016461 Score: 108
Period size: 43 Copynumber: 3.3 Consensus size: 42
1016311 TCCCCTCGTC
* *
1016321 GTGAAGTTGAACTTGTGTTGTCTGGAGTCCAATATCCTTCGCT
1 GTGAAGTTGAACTTG-GTTTTCTTGAGTCCAATATCCTTCGCT
* * * ** ***
1016364 GTGAAGTTGAAAGTT--ATTTATTGACAACCAGCGGTCCCTTCG-T
1 GTGAAGTTG-AACTTGGTTTTCTTGA-GTCCA-ATAT-CCTTCGCT
1016407 CGTGAAGTTGAACTTGCGTTTTCTTGAGTCCAATATCCTTCGCT
1 -GTGAAGTTGAACTTG-GTTTTCTTGAGTCCAATATCCTTCGCT
1016451 GTGAAGTTGAA
1 GTGAAGTTGAA
1016462 ATTAGCTCTG
Statistics
Matches: 71, Mismatches: 18, Indels: 18
0.66 0.17 0.17
Matches are distributed among these distances:
41 5 0.07
42 3 0.04
43 32 0.45
44 21 0.30
45 3 0.04
46 7 0.10
ACGTcount: A:0.22, C:0.18, G:0.24, T:0.35
Consensus pattern (42 bp):
GTGAAGTTGAACTTGGTTTTCTTGAGTCCAATATCCTTCGCT
Found at i:1016559 original size:106 final size:106
Alignment explanation
Indices: 1016374--1017637 Score: 1957
Period size: 106 Copynumber: 12.0 Consensus size: 106
1016364 GTGAAGTTGA
* * *
1016374 AAGTTATTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTTTCTTGAGTCCA
1 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* *
1016439 ATATCCTTCGCTGTGAAGTTGAAATTAGCTCTGAAATTGGG
66 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGG
* * *
1016480 AAGTTGTTTATTGATAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGAGTCTA
1 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* *
1016545 ATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAAATTGGG
66 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGG
* * *
1016586 AAATTATTTATTGACAACCAACGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
1 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* *
1016651 ATATCCTTCGTTGTGAAGTTGGAATTGGCTCTGAAATTGAG
66 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGG
1016692 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
1 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
*
1016757 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAG
66 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGG
* * * * *
1016798 AAGTTGTTTGTTAACAACCAGCGGTCCCTTCATCATGAAGTTGAACTTGTGTTGTCTGGAGTCCA
1 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* * *
1016863 CTATCCTTCGTTGTGAAGTTGAAATTGACTCT-AGAATTGGA
66 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA-AATTGGG
*
1016904 AAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGT-AATGTTGAACTTGCGTTGTCTGGAGTCC
1 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAA-GTTGAACTTGCGTTGTCTGGAGTCC
* **
1016968 AATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGAC
65 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGG
* * *
1017010 AAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATACGTTGTCTGGAGTCCA
1 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
*
1017075 ATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGG
66 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGG
*
1017116 AAGTTATTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
1 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
1017181 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGG
66 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGG
*
1017222 AAGTTGTTTATTGACAACCAGCGGTCCCTTCTTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
1 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* *
1017287 ATATCATTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAG
66 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGG
* *
1017328 AAGTTGTTTATTGACAACCAGTGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGGAGTCCA
1 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* * * *
1017393 CTATCCTTCGCTGTGAAGTTGAAAATTGACTCT-AGAATTGGA
66 ATATCCTTCGTTGTGAAGTTG-AAATTGGCTCTGA-AATTGGG
*
1017435 AAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
1 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
1017500 ATATCCTTCGTTGTGAAGTTGAAATTGG----G--A-----
66 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGG
* *
1017530 AA-TTGTTTATTGACAACCAGCGGTCCCCTCGTCGTGAAGTTGAACTTGTGTTGTCTGGAGTCCA
1 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
*
1017594 ATATCCTTCGCTGTGAAGTTGAAATTGGCTCT-AGAATTGGG
66 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA-AATTGGG
1017635 AAG
1 AAG
1017638 CCCCTTCGTC
Statistics
Matches: 1063, Mismatches: 75, Indels: 40
0.90 0.06 0.03
Matches are distributed among these distances:
94 87 0.08
95 2 0.00
100 2 0.00
105 5 0.00
106 868 0.82
107 99 0.09
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.34
Consensus pattern (106 bp):
AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGG
Found at i:1020769 original size:16 final size:17
Alignment explanation
Indices: 1020733--1020776 Score: 81
Period size: 17 Copynumber: 2.6 Consensus size: 17
1020723 ATAAAAGTCC
1020733 TACCCCACATGATGTTT
1 TACCCCACATGATGTTT
1020750 TACCCCACATGATG-TT
1 TACCCCACATGATGTTT
1020766 TACCCCACATG
1 TACCCCACATG
1020777 CTTTAATTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 13 0.48
17 14 0.52
ACGTcount: A:0.25, C:0.34, G:0.11, T:0.30
Consensus pattern (17 bp):
TACCCCACATGATGTTT
Found at i:1021851 original size:17 final size:17
Alignment explanation
Indices: 1021828--1021874 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
1021818 AGGATAAACC
* *
1021828 AAAAAAAAGAAGATTAAT
1 AAAAAAATGAA-ATAAAT
1021846 AAAAAAATGAAATAAAT
1 AAAAAAATGAAATAAAT
*
1021863 AAATAAAT-AAAT
1 AAAAAAATGAAAT
1021875 GTCGAAAGGG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
16 4 0.15
17 12 0.46
18 10 0.38
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.19
Consensus pattern (17 bp):
AAAAAAATGAAATAAAT
Found at i:1021934 original size:19 final size:18
Alignment explanation
Indices: 1021912--1021967 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 18
1021902 AAATAATATC
1021912 ATAATAATAATAAAATAAA
1 ATAATAA-AATAAAATAAA
*
1021931 ATAATAGAGAA-AAAATGAA
1 ATAATA-A-AATAAAATAAA
1021950 ATAATAAAATAATAATAA
1 ATAATAAAATAA-AATAA
1021968 CAATGAAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
17 2 0.06
18 3 0.10
19 23 0.74
20 3 0.10
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.23
Consensus pattern (18 bp):
ATAATAAAATAAAATAAA
Found at i:1030272 original size:54 final size:54
Alignment explanation
Indices: 1030213--1030347 Score: 175
Period size: 54 Copynumber: 2.5 Consensus size: 54
1030203 TGCTTGATAA
* * *
1030213 TGGATTTGTGTGATTATGTTTTAATGTCACTGTAGG-GTTTGTTTGAGATTTATT
1 TGGATTTATGTGATTATGTTTCAATGTCACTGT-GGAGTTTGTTTAAGATTTATT
*
1030267 TGGATTTATGTGATTATGTTTCAATGTCACTGTGGAGTTTGTTTAAGATTTGTT
1 TGGATTTATGTGATTATGTTTCAATGTCACTGTGGAGTTTGTTTAAGATTTATT
* * *
1030321 TGAATTTTTATGATT-TGATTTCAATGT
1 TGGATTTATGTGATTATG-TTTCAATGT
1030348 TACTTTAAGG
Statistics
Matches: 72, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
53 4 0.06
54 68 0.94
ACGTcount: A:0.21, C:0.04, G:0.23, T:0.52
Consensus pattern (54 bp):
TGGATTTATGTGATTATGTTTCAATGTCACTGTGGAGTTTGTTTAAGATTTATT
Found at i:1031440 original size:304 final size:304
Alignment explanation
Indices: 1030876--1031452 Score: 688
Period size: 304 Copynumber: 1.9 Consensus size: 304
1030866 AAGCCACATT
* * *
1030876 TTTCCTTTTTCATTGTGAAATTTTCAAATTAAAAAAAAAACACTTAAGATGATTCAGAATGATTT
1 TTTCCTTTTTCATTATGAAATTTTCAAATTAAAAAAAAAACACTTAAGATGATTCAGAATAATTC
* * *
1030941 GCACTGAGCAATAAGAAATGTGCAAAAACAAAAACCTTTTGTTGTCAATCCCCTCCTTGGATTGG
66 GCACTAAGCAATAAGAAATGTG----AACAAAAACCTTTTGTTGTCAATCCCCTCCTTGGACTCG
* * * **
1031006 ACTGGTTTGATACAAGGACCACTCTCATACACCTTATCATCACTGGTTGAAGAAACAAGAAATCT
127 AATGGTTTGATACAAGGACCACACTCATAAACCTTATCATCACTGGAAGAAGAAACAAGAAATCT
* * * * * *
1031071 CTTTTTATCTACCTCAAATACATTTTCAGTTGCTTCTGGTTCTCTGGCTTTATGCCTAACAGATT
192 CTTATCATCTAACGCAAATACATCTTCAGTTGCTTCTGGTTCTCTGGCTTTAAGCCTAACAGATT
* *
1031136 GTCTTCTTGAACATAACTTGCTGGATAAAACATAAAGGAAATTTATAG
257 GCCTTCTTAAACATAACTTGCTGGATAAAACATAAAGGAAATTTATAG
* *
1031184 TTTCCTTTTTCATTATGAAGTTTTCAAATTAAAAAAAAAA-AC-TAACGATGATT-GGAAATAAT
1 TTTCCTTTTTCATTATGAAATTTTCAAATTAAAAAAAAAACACTTAA-GATGATTCAG-AATAAT
* ** *
1031246 TCGCACTAA-CGAATAAGAAATG-G-ACAAAAACCTTTTGTTTTTGATCCCCTCCTTGGCCTCGA
64 TCGCACTAAGC-AATAAGAAATGTGAACAAAAACCTTTTGTTGTCAATCCCCTCCTTGGACTCGA
* *
1031308 ATGGTTTGATACTAGAAGGGCCACACTCA-AGAACCTTATCATCACTGGAAGAAGAAGCAAGAAA
128 ATGGTTTGATAC---AAGGACCACACTCATA-AACCTTATCATCACTGGAAGAAGAAACAAGAAA
* * *
1031372 T-T-TTGAATCATCTAACGCAAATGCATCTTCAGTTGTTTCTGGTTCT-TGTGCTTTAAGCCTAG
189 TCTCTT--ATCATCTAACGCAAATACATCTTCAGTTGCTTCTGGTTCTCTG-GCTTTAAGCCTAA
1031434 CAGATTGCCTTCTTAAACA
251 CAGATTGCCTTCTTAAACA
1031453 AACCCTCCTT
Statistics
Matches: 229, Mismatches: 30, Indels: 24
0.81 0.11 0.08
Matches are distributed among these distances:
301 44 0.19
302 2 0.01
303 4 0.02
304 103 0.45
306 6 0.03
307 32 0.14
308 38 0.17
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (304 bp):
TTTCCTTTTTCATTATGAAATTTTCAAATTAAAAAAAAAACACTTAAGATGATTCAGAATAATTC
GCACTAAGCAATAAGAAATGTGAACAAAAACCTTTTGTTGTCAATCCCCTCCTTGGACTCGAATG
GTTTGATACAAGGACCACACTCATAAACCTTATCATCACTGGAAGAAGAAACAAGAAATCTCTTA
TCATCTAACGCAAATACATCTTCAGTTGCTTCTGGTTCTCTGGCTTTAAGCCTAACAGATTGCCT
TCTTAAACATAACTTGCTGGATAAAACATAAAGGAAATTTATAG
Found at i:1034105 original size:34 final size:34
Alignment explanation
Indices: 1034050--1034115 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
1034040 CTTTTTTCGA
* * * *
1034050 TCATTTATGTTCGTTCGTTTGTGTTTGTTTATAT
1 TCATGTATGTTAGTTCATTTGTGTTTATTTATAT
1034084 TCATGTATGTTAGTTCATTTGTGTTTATTTAT
1 TCATGTATGTTAGTTCATTTGTGTTTATTTAT
1034116 CATTTTAACG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.15, C:0.08, G:0.17, T:0.61
Consensus pattern (34 bp):
TCATGTATGTTAGTTCATTTGTGTTTATTTATAT
Found at i:1041700 original size:92 final size:92
Alignment explanation
Indices: 1041543--1041722 Score: 315
Period size: 92 Copynumber: 2.0 Consensus size: 92
1041533 TAAAGAGAGA
** * * *
1041543 ACAAAGAATATTTATATTTTCATATAATTTAATCAAAATTATGAATACTTGGAATATCACATCAG
1 ACAAAGAATATACATATTTTCATATAACTTAATCAAAACTATGAATACTTGGAATATAACATCAG
1041608 TGATATCCGTTTGATCGTTAATCGAGG
66 TGATATCCGTTTGATCGTTAATCGAGG
1041635 ACAAAGAATATACATATTTTCATATAACTTAATCAAAACTATGAATACTTGGAATATAACATCAG
1 ACAAAGAATATACATATTTTCATATAACTTAATCAAAACTATGAATACTTGGAATATAACATCAG
1041700 TGATATCCGTTTGATCGTTAATC
66 TGATATCCGTTTGATCGTTAATC
1041723 AACCAACTGT
Statistics
Matches: 83, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
92 83 1.00
ACGTcount: A:0.39, C:0.13, G:0.12, T:0.36
Consensus pattern (92 bp):
ACAAAGAATATACATATTTTCATATAACTTAATCAAAACTATGAATACTTGGAATATAACATCAG
TGATATCCGTTTGATCGTTAATCGAGG
Found at i:1041838 original size:13 final size:13
Alignment explanation
Indices: 1041820--1041844 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1041810 TATATCTCAC
1041820 AATAATTCAAAAA
1 AATAATTCAAAAA
1041833 AATAATTCAAAA
1 AATAATTCAAAA
1041845 GAAAATCCAT
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:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (13 bp):
AATAATTCAAAAA
Found at i:1042458 original size:23 final size:25
Alignment explanation
Indices: 1042405--1042458 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 25
1042395 GTTATGGCCA
1042405 CACACAGGACAGCCGAAGTACATCGT
1 CACACAGGACAGCCGAAGTACA-CGT
1042431 CACACAGGACAGCCGAAGT-C-CGT
1 CACACAGGACAGCCGAAGTACACGT
1042454 CACAC
1 CACAC
1042459 CACGAAGTAC
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
23 8 0.29
25 1 0.04
26 19 0.68
ACGTcount: A:0.33, C:0.35, G:0.22, T:0.09
Consensus pattern (25 bp):
CACACAGGACAGCCGAAGTACACGT
Found at i:1042811 original size:60 final size:60
Alignment explanation
Indices: 1042742--1042854 Score: 154
Period size: 60 Copynumber: 1.9 Consensus size: 60
1042732 AATGATCTTC
* * *
1042742 CGATTATAGAGTACGACTTTATTAAGTCCCTCAACTGTTAAAAGTTACAAAATAGTCCTT
1 CGATTATAGAGTACGACTTTATTAAGTCACTCAACTATCAAAAGTTACAAAATAGTCCTT
** * * *
1042802 CGATTATAGAGTATTATTTTATTGAGTCACTCGACTATCAAAAGTTACAAAAT
1 CGATTATAGAGTACGACTTTATTAAGTCACTCAACTATCAAAAGTTACAAAAT
1042855 GGTCACCCGA
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
60 45 1.00
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.35
Consensus pattern (60 bp):
CGATTATAGAGTACGACTTTATTAAGTCACTCAACTATCAAAAGTTACAAAATAGTCCTT
Found at i:1045954 original size:39 final size:39
Alignment explanation
Indices: 1045911--1045990 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
1045901 AAGATCAGAG
1045911 TAAGATTGCCACCAATCTAATTTCCATTATATATATATA
1 TAAGATTGCCACCAATCTAATTTCCATTATATATATATA
1045950 TAAGATTGCCACCAATCTAATTTCCATTATATATATATA
1 TAAGATTGCCACCAATCTAATTTCCATTATATATATATA
1045989 TA
1 TA
1045991 TATATATATA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.39, C:0.17, G:0.05, T:0.39
Consensus pattern (39 bp):
TAAGATTGCCACCAATCTAATTTCCATTATATATATATA
Found at i:1045984 original size:2 final size:2
Alignment explanation
Indices: 1045977--1046017 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
1045967 TAATTTCCAT
1045977 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1046018 GAACCAGAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1049329 original size:250 final size:250
Alignment explanation
Indices: 1048888--1049390 Score: 961
Period size: 250 Copynumber: 2.0 Consensus size: 250
1048878 CGTTCATAAT
*
1048888 ACAGGTAAGACTTCTGTGAGTGAAGTTTCCTCCATGTCTCAGCATGTGGACTTTACTTGAGTAGC
1 ACAGGTAAGACTTCTGTGAGTGAAGTTTCCTCCATGTCTCAGCATGTGGACTTTACTTCAGTAGC
* *
1048953 AAGCAACGAAAGAACTATGAGACAAATAGCTTGCATATTGCTATTATTCTGATTAATTTGCTTCC
66 AAGCAACGAAAGAACAATGAGACAAACAGCTTGCATATTGCTATTATTCTGATTAATTTGCTTCC
1049018 ATGTTGCTTCGGCTCATTGTTTTCTCATGAAATTTAACATTCACAATCGAGTCCGAGTAACATAG
131 ATGTTGCTTCGGCTCATTGTTTTCTCATGAAATTTAACATTCACAATCGAGTCCGAGTAACATAG
1049083 ATTTGTTTGTCGAGAGTCCGACTAACATAGATTTGTTTGATTGTATTGATTACAC
196 ATTTGTTTGTCGAGAGTCCGACTAACATAGATTTGTTTGATTGTATTGATTACAC
1049138 ACAGGTAAGACTTCTGTGAGTGAAGTTTCCTCCATGTCTCAGCATGTGGACTTTACTTCAGTAGC
1 ACAGGTAAGACTTCTGTGAGTGAAGTTTCCTCCATGTCTCAGCATGTGGACTTTACTTCAGTAGC
1049203 AAGCAACGAAAGAACAATGAGACAAACAGCTTGCATATTGCTATTATTCTGATTAATTTGCTTCC
66 AAGCAACGAAAGAACAATGAGACAAACAGCTTGCATATTGCTATTATTCTGATTAATTTGCTTCC
1049268 ATGTTGCTTCGGCTCATTGTTTTCTCATGAAATTTAACATTCACAATCGAGTCCGAGTAACATAG
131 ATGTTGCTTCGGCTCATTGTTTTCTCATGAAATTTAACATTCACAATCGAGTCCGAGTAACATAG
* *
1049333 ATTTGTTTGTCGAGAGTCCGGCTAACATAGATTTGTTTGATTGTGTTGATTACAC
196 ATTTGTTTGTCGAGAGTCCGACTAACATAGATTTGTTTGATTGTATTGATTACAC
1049388 ACA
1 ACA
1049391 CGAGTCCGAG
Statistics
Matches: 248, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
250 248 1.00
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (250 bp):
ACAGGTAAGACTTCTGTGAGTGAAGTTTCCTCCATGTCTCAGCATGTGGACTTTACTTCAGTAGC
AAGCAACGAAAGAACAATGAGACAAACAGCTTGCATATTGCTATTATTCTGATTAATTTGCTTCC
ATGTTGCTTCGGCTCATTGTTTTCTCATGAAATTTAACATTCACAATCGAGTCCGAGTAACATAG
ATTTGTTTGTCGAGAGTCCGACTAACATAGATTTGTTTGATTGTATTGATTACAC
Found at i:1053305 original size:13 final size:14
Alignment explanation
Indices: 1053288--1053326 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
1053278 TCCTTTTCAA
1053288 ATTTATTTTTTTAT
1 ATTTATTTTTTTAT
*
1053302 -TTTATTTATTTAT
1 ATTTATTTTTTTAT
*
1053315 ATATATTTTTTT
1 ATTTATTTTTTT
1053327 CCGACAGATC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
13 12 0.57
14 9 0.43
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (14 bp):
ATTTATTTTTTTAT
Found at i:1054292 original size:16 final size:16
Alignment explanation
Indices: 1054271--1054303 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
1054261 TGCACAATAA
*
1054271 AAACAATAACATATTT
1 AAACAAAAACATATTT
1054287 AAACAAAAACATATTT
1 AAACAAAAACATATTT
1054303 A
1 A
1054304 CATCGTATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.61, C:0.12, G:0.00, T:0.27
Consensus pattern (16 bp):
AAACAAAAACATATTT
Found at i:1054552 original size:15 final size:17
Alignment explanation
Indices: 1054511--1054560 Score: 77
Period size: 17 Copynumber: 3.1 Consensus size: 17
1054501 ACGACCGCGC
1054511 AGGGCCCCACAAAAAAT
1 AGGGCCCCACAAAAAAT
1054528 AGGGCCCCACAAAAAAT
1 AGGGCCCCACAAAAAAT
*
1054545 -GGG-GCCACAAAAAAT
1 AGGGCCCCACAAAAAAT
1054560 A
1 A
1054561 TATATAGTGG
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
15 11 0.35
16 3 0.10
17 17 0.55
ACGTcount: A:0.48, C:0.26, G:0.20, T:0.06
Consensus pattern (17 bp):
AGGGCCCCACAAAAAAT
Found at i:1057719 original size:22 final size:22
Alignment explanation
Indices: 1057688--1057731 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
1057678 AAATTAAAAA
*
1057688 TATTTTAAAATATTAAAATATT
1 TATTTAAAAATATTAAAATATT
*
1057710 TATTTAAAAATTTTAAAATATT
1 TATTTAAAAATATTAAAATATT
1057732 ACAATTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
TATTTAAAAATATTAAAATATT
Found at i:1059029 original size:2 final size:2
Alignment explanation
Indices: 1059022--1059100 Score: 142
Period size: 2 Copynumber: 40.0 Consensus size: 2
1059012 AGCCGTCTAA
*
1059022 AT AT AT AT -T AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1059063 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1059101 GTGTGTGTGT
Statistics
Matches: 74, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
1 1 0.01
2 73 0.99
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (2 bp):
AT
Found at i:1062058 original size:13 final size:13
Alignment explanation
Indices: 1062040--1062065 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1062030 TGGTTTATTC
1062040 GGTTAATTCAGTT
1 GGTTAATTCAGTT
1062053 GGTTAATTCAGTT
1 GGTTAATTCAGTT
1062066 AAAATTGAAG
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:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (13 bp):
GGTTAATTCAGTT
Found at i:1063036 original size:36 final size:35
Alignment explanation
Indices: 1062996--1063063 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
1062986 TAGACTCGGG
*
1062996 TCAAATCGGTTAAACTTTAAATAATAATTTAATTAT
1 TCAAATAGGTTAAA-TTTAAATAATAATTTAATTAT
** *
1063032 TCAAATAGGTTCGATTTAAATTATAATTTAAT
1 TCAAATAGGTTAAATTTAAATAATAATTTAAT
1063064 AATATTTTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
35 17 0.61
36 11 0.39
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (35 bp):
TCAAATAGGTTAAATTTAAATAATAATTTAATTAT
Found at i:1063465 original size:16 final size:17
Alignment explanation
Indices: 1063434--1063467 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
1063424 AAATATTATT
*
1063434 TTATTATTTATTTTAAA
1 TTATTATTTATATTAAA
1063451 TTATT-TTTATATTAAA
1 TTATTATTTATATTAAA
1063467 T
1 T
1063468 AATAATAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTATTATTTATATTAAA
Found at i:1065761 original size:5 final size:5
Alignment explanation
Indices: 1065751--1065778 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
1065741 TATCATTATT
1065751 TTTTA TTTTA TTTTA TTTTA TTTTA TTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTT
1065779 CACGAAGTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:1068417 original size:21 final size:21
Alignment explanation
Indices: 1068391--1068432 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
1068381 CCAGAATGGG
*
1068391 GGGAATCGGTACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
1068412 GGGAATCGATACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
1068433 AATTCAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:1068566 original size:15 final size:15
Alignment explanation
Indices: 1068546--1068601 Score: 60
Period size: 15 Copynumber: 3.5 Consensus size: 15
1068536 ACCATGCAAG
1068546 GGGGAATCTGTACCC
1 GGGGAATCTGTACCC
1068561 GGGGAATC-GATACCCC
1 GGGGAATCTG-TA-CCC
*
1068577 TGGGGGAATCTGTTCCC
1 --GGGGAATCTGTACCC
1068594 GGGGAATC
1 GGGGAATC
1068602 GATACCCCCT
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
14 1 0.03
15 18 0.51
16 3 0.09
17 3 0.09
18 9 0.26
19 1 0.03
ACGTcount: A:0.20, C:0.25, G:0.36, T:0.20
Consensus pattern (15 bp):
GGGGAATCTGTACCC
Found at i:1068624 original size:35 final size:34
Alignment explanation
Indices: 1068544--1068628 Score: 145
Period size: 33 Copynumber: 2.5 Consensus size: 34
1068534 AAACCATGCA
*
1068544 AGGGGGAATCTGTACCCGGGGAATCGATACCCCT
1 AGGGGGAATCTGTTCCCGGGGAATCGATACCCCT
1068578 -GGGGGAATCTGTTCCCGGGGAATCGATACCCCCT
1 AGGGGGAATCTGTTCCCGGGGAATCGATA-CCCCT
1068612 AGGGGGAATCTGTTCCC
1 AGGGGGAATCTGTTCCC
1068629 CCTGGGGGGG
Statistics
Matches: 48, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
33 27 0.56
34 5 0.10
35 16 0.33
ACGTcount: A:0.20, C:0.27, G:0.33, T:0.20
Consensus pattern (34 bp):
AGGGGGAATCTGTTCCCGGGGAATCGATACCCCT
Found at i:1068637 original size:21 final size:21
Alignment explanation
Indices: 1068594--1068652 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 21
1068584 ATCTGTTCCC
*
1068594 GGGGAATC-GATACCCCCT-AG
1 GGGGAATCTG-TACCCCCTGGG
*
1068614 GGGGAATCTGTTCCCCCTGGG
1 GGGGAATCTGTACCCCCTGGG
1068635 GGGGAATCTGTACCCCCT
1 GGGGAATCTGTACCCCCT
1068653 TGACAATCTA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 15 0.44
21 19 0.56
ACGTcount: A:0.17, C:0.31, G:0.32, T:0.20
Consensus pattern (21 bp):
GGGGAATCTGTACCCCCTGGG
Found at i:1073334 original size:36 final size:36
Alignment explanation
Indices: 1073266--1073335 Score: 86
Period size: 36 Copynumber: 1.9 Consensus size: 36
1073256 GAAATGAACT
* **
1073266 TCATCATCTTCATCAGAAGCAGGTCCACCATCATCC
1 TCATCATCCTCATCAGAAGCACATCCACCATCATCC
* * *
1073302 TCATCATCCTCGTCAGAATCACATCCATCATCAT
1 TCATCATCCTCATCAGAAGCACATCCACCATCAT
1073336 GATTCTCTTC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 28 1.00
ACGTcount: A:0.29, C:0.36, G:0.09, T:0.27
Consensus pattern (36 bp):
TCATCATCCTCATCAGAAGCACATCCACCATCATCC
Found at i:1090581 original size:10 final size:10
Alignment explanation
Indices: 1090568--1090618 Score: 50
Period size: 10 Copynumber: 4.7 Consensus size: 10
1090558 ACACGCTGGG
1090568 CATCCGAGGC
1 CATCCGAGGC
1090578 CATCCGACCGAGGC
1 CAT-C--C-GAGGC
1090592 CATCCGAGAG-
1 CATCCGAG-GC
1090602 CATCCGAGGC
1 CATCCGAGGC
1090612 CATCCGA
1 CATCCGA
1090619 CCGAGGCCAT
Statistics
Matches: 35, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
9 1 0.03
10 21 0.60
11 3 0.09
13 2 0.06
14 8 0.23
ACGTcount: A:0.24, C:0.39, G:0.27, T:0.10
Consensus pattern (10 bp):
CATCCGAGGC
Found at i:1090590 original size:14 final size:14
Alignment explanation
Indices: 1090571--1090637 Score: 71
Period size: 14 Copynumber: 4.4 Consensus size: 14
1090561 CGCTGGGCAT
1090571 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
1090585 CCGAGGCCATCCGAGAGCA
1 CCGAGGCCATCC----G-A
1090604 TCCGAGGCCATCCGA
1 -CCGAGGCCATCCGA
1090619 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
*
1090633 ACGAG
1 CCGAG
1090638 TTATGCGAGG
Statistics
Matches: 46, Mismatches: 1, Indels: 12
0.78 0.02 0.20
Matches are distributed among these distances:
14 30 0.65
15 1 0.02
16 1 0.02
18 1 0.02
19 1 0.02
20 12 0.26
ACGTcount: A:0.24, C:0.39, G:0.30, T:0.07
Consensus pattern (14 bp):
CCGAGGCCATCCGA
Found at i:1090605 original size:34 final size:34
Alignment explanation
Indices: 1090567--1090632 Score: 132
Period size: 34 Copynumber: 1.9 Consensus size: 34
1090557 AACACGCTGG
1090567 GCATCCGAGGCCATCCGACCGAGGCCATCCGAGA
1 GCATCCGAGGCCATCCGACCGAGGCCATCCGAGA
1090601 GCATCCGAGGCCATCCGACCGAGGCCATCCGA
1 GCATCCGAGGCCATCCGACCGAGGCCATCCGA
1090633 ACGAGTTATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.23, C:0.39, G:0.29, T:0.09
Consensus pattern (34 bp):
GCATCCGAGGCCATCCGACCGAGGCCATCCGAGA
Found at i:1090632 original size:10 final size:10
Alignment explanation
Indices: 1090585--1090618 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
1090575 GGCCATCCGA
1090585 CCGAGGCCAT
1 CCGAGGCCAT
1090595 CCGAGAG-CAT
1 CCGAG-GCCAT
1090605 CCGAGGCCAT
1 CCGAGGCCAT
1090615 CCGA
1 CCGA
1090619 CCGAGGCCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 1 0.05
10 20 0.91
11 1 0.05
ACGTcount: A:0.24, C:0.38, G:0.29, T:0.09
Consensus pattern (10 bp):
CCGAGGCCAT
Found at i:1090655 original size:23 final size:23
Alignment explanation
Indices: 1090620--1090671 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
1090610 GCCATCCGAC
* * *
1090620 CGAGGCCATCCGAACGAGTTATG
1 CGAGGGCAACCGAACGAGCTATG
*
1090643 CGAGGGCAACCGAGCGAGCTATG
1 CGAGGGCAACCGAACGAGCTATG
1090666 CGAGGG
1 CGAGGG
1090672 AATCCGAGGG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.25, C:0.25, G:0.38, T:0.12
Consensus pattern (23 bp):
CGAGGGCAACCGAACGAGCTATG
Found at i:1090678 original size:23 final size:24
Alignment explanation
Indices: 1090627--1090679 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 24
1090617 GACCGAGGCC
* *
1090627 ATCCGAACGAGTTATGCGAGGGCA
1 ATCCGAGCGAGCTATGCGAGGGCA
1090651 A-CCGAGCGAGCTATGCGAGGG-A
1 ATCCGAGCGAGCTATGCGAGGGCA
1090673 ATCCGAG
1 ATCCGAG
1090680 GGAAGCCGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 2 0.08
23 23 0.88
24 1 0.04
ACGTcount: A:0.28, C:0.23, G:0.36, T:0.13
Consensus pattern (24 bp):
ATCCGAGCGAGCTATGCGAGGGCA
Found at i:1092198 original size:69 final size:69
Alignment explanation
Indices: 1092085--1092666 Score: 775
Period size: 69 Copynumber: 8.4 Consensus size: 69
1092075 CAAACTCACA
* * *
1092085 AGTGAATGATGGATATGAATGTGTTTGATACGAGTATATCTACACATGACCTATTGTACTCGAAC
1 AGTGAATGTTGGATACGAATGTGTTCGATACGAGTATATCTACACATGACCTATTGTACTCGAAC
1092150 TCAT
66 TCAT
* *
1092154 AGTGAATGTTGGATACGAATGTGTTCGATACGAGTATATATACACATGACCTATT-TGACTCAAA
1 AGTGAATGTTGGATACGAATGTGTTCGATACGAGTATATCTACACATGACCTATTGT-ACTCGAA
*
1092218 CCCAT
65 CTCAT
* * *
1092223 AAGTGAATGATGGATATGAATGTTTTCGATACGAGTATATCTACACATGACCTATTGTACTCGAA
1 -AGTGAATGTTGGATACGAATGTGTTCGATACGAGTATATCTACACATGACCTATTGTACTCGAA
1092288 CTCAT
65 CTCAT
* *
1092293 AGTGAATGTTGAATACGAATGTGTTCGATACGAGTATATCTACACATGACCTATTGTATTCGAAC
1 AGTGAATGTTGGATACGAATGTGTTCGATACGAGTATATCTACACATGACCTATTGTACTCGAAC
1092358 TCAT
66 TCAT
* *
1092362 AGTGAATGTTGGATACGAATATGTTCGATACGAGAATATCTACACATGACCTATTGTACTCGAAC
1 AGTGAATGTTGGATACGAATGTGTTCGATACGAGTATATCTACACATGACCTATTGTACTCGAAC
1092427 TCAT
66 TCAT
* ** * * *
1092431 AGTGAATGCTATATACAAATGTATTCGATAC------ATCTACACATGACCTGTTATTGTACTCA
1 AGTGAATGTTGGATACGAATGTGTTCGATACGAGTATATCTACACATGACC---TATTGTACTCG
1092490 AACTCAT
63 AACTCAT
* *
1092497 AGTAAATGTTGGATACGGATGTGTTCGATACGAGTATATCTACACATGACCTATTGTACTCGAAC
1 AGTGAATGTTGGATACGAATGTGTTCGATACGAGTATATCTACACATGACCTATTGTACTCGAAC
1092562 TCAT
66 TCAT
* * * * * * * *
1092566 AGTGAATATTGGATACGAATGTGTTTGATTCAAGTATATCCACATATGACCTATTTTACTCAAAC
1 AGTGAATGTTGGATACGAATGTGTTCGATACGAGTATATCTACACATGACCTATTGTACTCGAAC
1092631 TCAT
66 TCAT
*
1092635 AAGTGAATGTTAGG-TACGAATGTGTTTGATAC
1 -AGTGAATGTT-GGATACGAATGTGTTCGATAC
1092667 ATCTACTCAA
Statistics
Matches: 451, Mismatches: 48, Indels: 27
0.86 0.09 0.05
Matches are distributed among these distances:
63 14 0.03
66 41 0.09
68 1 0.00
69 291 0.65
70 87 0.19
71 3 0.01
72 14 0.03
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (69 bp):
AGTGAATGTTGGATACGAATGTGTTCGATACGAGTATATCTACACATGACCTATTGTACTCGAAC
TCAT
Found at i:1092322 original size:139 final size:140
Alignment explanation
Indices: 1092072--1092666 Score: 802
Period size: 139 Copynumber: 4.3 Consensus size: 140
1092062 TAAAAAAATC
* * *
1092072 ACTCAAACTCACAAGTGAATGATGGATATGAATGTGTTTGATACGAGTATATCTACACATGACCT
1 ACTCAAACTCATAAGTGAATGATGGATACGAATGTGTTCGATACGAGTATATCTACACATGACCT
* *
1092137 ATTGTACTCGAACTCATAGTGAATGTTGGATACGAATGTGTTCGATACGAGTATATATACACATG
66 ATTGTACTCGAACTCATAGTGAATGTTGAATACGAATGTGTTCGATACGAGTATATCTACACATG
1092202 ACCTATTTG-
131 ACCTATTTGT
* * *
1092211 ACTCAAACCCATAAGTGAATGATGGATATGAATGTTTTCGATACGAGTATATCTACACATGACCT
1 ACTCAAACTCATAAGTGAATGATGGATACGAATGTGTTCGATACGAGTATATCTACACATGACCT
1092276 ATTGTACTCGAACTCATAGTGAATGTTGAATACGAATGTGTTCGATACGAGTATATCTACACATG
66 ATTGTACTCGAACTCATAGTGAATGTTGAATACGAATGTGTTCGATACGAGTATATCTACACATG
1092341 ACCTA-TTGT
131 ACCTATTTGT
* * * * *
1092350 ATTCGAACTCAT-AGTGAATGTTGGATACGAATATGTTCGATACGAGAATATCTACACATGACCT
1 ACTCAAACTCATAAGTGAATGATGGATACGAATGTGTTCGATACGAGTATATCTACACATGACCT
* * *
1092414 ATTGTACTCGAACTCATAGTGAATGCT-ATATACAAATGTATTCGATAC------ATCTACACAT
66 ATTGTACTCGAACTCATAGTGAATGTTGA-ATACGAATGTGTTCGATACGAGTATATCTACACAT
*
1092472 GACCTGTTATTGT
130 GACCT-AT-TTGT
* * *
1092485 ACTCAAACTCAT-AGTAAATGTTGGATACGGATGTGTTCGATACGAGTATATCTACACATGACCT
1 ACTCAAACTCATAAGTGAATGATGGATACGAATGTGTTCGATACGAGTATATCTACACATGACCT
* * * * * * *
1092549 ATTGTACTCGAACTCATAGTGAATATTGGATACGAATGTGTTTGATTCAAGTATATCCACATATG
66 ATTGTACTCGAACTCATAGTGAATGTTGAATACGAATGTGTTCGATACGAGTATATCTACACATG
1092614 ACCTATTT-T
131 ACCTATTTGT
* *
1092623 ACTCAAACTCATAAGTGAATGTTAGG-TACGAATGTGTTTGATAC
1 ACTCAAACTCATAAGTGAATGAT-GGATACGAATGTGTTCGATAC
1092667 ATCTACTCAA
Statistics
Matches: 405, Mismatches: 37, Indels: 28
0.86 0.08 0.06
Matches are distributed among these distances:
132 15 0.04
135 102 0.25
137 1 0.00
138 106 0.26
139 165 0.41
140 3 0.01
141 13 0.03
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Consensus pattern (140 bp):
ACTCAAACTCATAAGTGAATGATGGATACGAATGTGTTCGATACGAGTATATCTACACATGACCT
ATTGTACTCGAACTCATAGTGAATGTTGAATACGAATGTGTTCGATACGAGTATATCTACACATG
ACCTATTTGT
Found at i:1094001 original size:51 final size:51
Alignment explanation
Indices: 1093925--1094025 Score: 148
Period size: 51 Copynumber: 2.0 Consensus size: 51
1093915 CCTCTCCTGT
* * *
1093925 GGGCTTCTTTCATCAAGCGGTGGACTCTGCTTCCTCCCTCGGGCTGGGGAG
1 GGGCTTCTTTCACCAAGCGCTGGACTCTGCTTCATCCCTCGGGCTGGGGAG
* * *
1093976 GGGCTTCTTTCACCACGCGCTGGACTCTGCTTTATCCCTCGGGTTGGGGA
1 GGGCTTCTTTCACCAAGCGCTGGACTCTGCTTCATCCCTCGGGCTGGGGA
1094026 CGGAGACCGC
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 44 1.00
ACGTcount: A:0.10, C:0.30, G:0.32, T:0.29
Consensus pattern (51 bp):
GGGCTTCTTTCACCAAGCGCTGGACTCTGCTTCATCCCTCGGGCTGGGGAG
Found at i:1109680 original size:23 final size:22
Alignment explanation
Indices: 1109649--1109694 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
1109639 ATAAGTCCCA
*
1109649 CTGAGTGACATATGAAATTTATC
1 CTGAATGACATATG-AATTTATC
* *
1109672 CTGAATGACCTATGTATTTATC
1 CTGAATGACATATGAATTTATC
1109694 C
1 C
1109695 CGAAGGACCG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.37
Consensus pattern (22 bp):
CTGAATGACATATGAATTTATC
Found at i:1112649 original size:32 final size:29
Alignment explanation
Indices: 1112610--1112674 Score: 76
Period size: 32 Copynumber: 2.1 Consensus size: 29
1112600 GGCTGGGTAT
1112610 ATATATTTAAATTAAATATATAAATATTATAA
1 ATATATTTAAATTAAAT-T-TAAAT-TTATAA
* * *
1112642 ATATATTTTAATTTAATTTAAATTTATTA
1 ATATATTTAAATTAAATTTAAATTTATAA
1112671 ATAT
1 ATAT
1112675 TATATATATA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 9 0.30
30 5 0.17
31 1 0.03
32 15 0.50
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (29 bp):
ATATATTTAAATTAAATTTAAATTTATAA
Found at i:1112802 original size:35 final size:36
Alignment explanation
Indices: 1112755--1112831 Score: 113
Period size: 35 Copynumber: 2.2 Consensus size: 36
1112745 GATTACTAAA
1112755 CCCGT-CCCGTCCCCGTTTAACATAAACG-GTTTTC
1 CCCGTCCCCGTCCCCGTTTAACATAAACGAGTTTTC
* *
1112789 CCCGTCCCCGTCCCCGTTTAGCATAAACGATTTTTC
1 CCCGTCCCCGTCCCCGTTTAACATAAACGAGTTTTC
*
1112825 ACCGTCC
1 CCCGTCC
1112832 TCGTTTAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
34 5 0.13
35 22 0.58
36 11 0.29
ACGTcount: A:0.17, C:0.40, G:0.14, T:0.29
Consensus pattern (36 bp):
CCCGTCCCCGTCCCCGTTTAACATAAACGAGTTTTC
Found at i:1117188 original size:19 final size:20
Alignment explanation
Indices: 1117148--1117218 Score: 60
Period size: 19 Copynumber: 3.7 Consensus size: 20
1117138 CTTTTTGATA
*
1117148 TTATATA-ATATA-CTTATA
1 TTATATACATATATCTTATT
*
1117166 TTATATA-ATATATTTTATT
1 TTATATACATATATCTTATT
*
1117185 TTAT-TACATATATCGTATT
1 TTATATACATATATCTTATT
* *
1117204 TACATATATATATAT
1 T-TATATACATATAT
1117219 TTGTTTTGCA
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
18 14 0.33
19 19 0.44
20 2 0.05
21 8 0.19
ACGTcount: A:0.39, C:0.06, G:0.01, T:0.54
Consensus pattern (20 bp):
TTATATACATATATCTTATT
Found at i:1118321 original size:17 final size:18
Alignment explanation
Indices: 1118293--1118326 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
1118283 CCCTACTATT
1118293 ATTATATACTATATTTTC
1 ATTATATACTATATTTTC
1118311 ATTAT-TACTATATTTT
1 ATTATATACTATATTTT
1118327 ACTCCCTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.32, C:0.09, G:0.00, T:0.59
Consensus pattern (18 bp):
ATTATATACTATATTTTC
Found at i:1118387 original size:2 final size:2
Alignment explanation
Indices: 1118375--1118409 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
1118365 TATTTTATTT
*
1118375 TA TA T- TA TA TA TA TA TA TA CA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1118410 CATAACCATA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:1129144 original size:9 final size:8
Alignment explanation
Indices: 1129142--1129195 Score: 74
Period size: 8 Copynumber: 6.6 Consensus size: 8
1129132 AAAAACCAAA
1129142 AAAAAAACC
1 AAAAAAA-C
1129151 AAAAAAAC
1 AAAAAAAC
1129159 AAAAAAAC
1 AAAAAAAC
1129167 -AAAAAAC
1 AAAAAAAC
*
1129174 AAAAAAAG
1 AAAAAAAC
1129182 ACAAAAAAC
1 A-AAAAAAC
1129191 AAAAA
1 AAAAA
1129196 GAGAAGAACG
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
7 7 0.17
8 20 0.49
9 14 0.34
ACGTcount: A:0.85, C:0.13, G:0.02, T:0.00
Consensus pattern (8 bp):
AAAAAAAC
Found at i:1129144 original size:12 final size:11
Alignment explanation
Indices: 1129127--1129194 Score: 68
Period size: 12 Copynumber: 5.9 Consensus size: 11
1129117 TCCTAAGTTG
1129127 AAAAAAAAAACC
1 AAAAAAAAAA-C
1129139 AAAAAAAAAACC
1 AAAAAAAAAA-C
1129151 AAAAAAACAAA-
1 AAAAAAA-AAAC
1129162 AAAACAAAAAAC
1 AAAA-AAAAAAC
*
1129174 -AAAAAAAGAC
1 AAAAAAAAAAC
1129184 AAAAAACAAAA
1 AAAAAA-AAAA
1129195 AGAGAAGAAC
Statistics
Matches: 49, Mismatches: 2, Indels: 10
0.80 0.03 0.16
Matches are distributed among these distances:
10 6 0.12
11 15 0.31
12 25 0.51
13 3 0.06
ACGTcount: A:0.85, C:0.13, G:0.01, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAC
Found at i:1129162 original size:17 final size:16
Alignment explanation
Indices: 1129142--1129195 Score: 74
Period size: 17 Copynumber: 3.3 Consensus size: 16
1129132 AAAAACCAAA
1129142 AAAAAAACCAAAAAAAC
1 AAAAAAA-CAAAAAAAC
1129159 AAAAAAAC-AAAAAAC
1 AAAAAAACAAAAAAAC
*
1129174 AAAAAAAGACAAAAAAC
1 AAAAAAACA-AAAAAAC
1129191 AAAAA
1 AAAAA
1129196 GAGAAGAACG
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
15 14 0.41
16 1 0.03
17 19 0.56
ACGTcount: A:0.85, C:0.13, G:0.02, T:0.00
Consensus pattern (16 bp):
AAAAAAACAAAAAAAC
Found at i:1129187 original size:24 final size:24
Alignment explanation
Indices: 1129128--1129195 Score: 86
Period size: 23 Copynumber: 2.9 Consensus size: 24
1129118 CCTAAGTTGA
* *
1129128 AAAAAAAAACCAAAAA-AAAAACC
1 AAAAAAAAACAAAAAACAAAAAAC
*
1129151 AAAAAAACA-AAAAAACAAAAAAC
1 AAAAAAAAACAAAAAACAAAAAAC
*
1129174 AAAAAAAGACAAAAAACAAAAA
1 AAAAAAAAACAAAAAACAAAAA
1129196 GAGAAGAACG
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
22 5 0.13
23 22 0.56
24 12 0.31
ACGTcount: A:0.85, C:0.13, G:0.01, T:0.00
Consensus pattern (24 bp):
AAAAAAAAACAAAAAACAAAAAAC
Found at i:1129196 original size:15 final size:15
Alignment explanation
Indices: 1129152--1129197 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
1129142 AAAAAAACCA
*
1129152 AAAAAACAAAAAAAC
1 AAAAAACAAAAAGAC
1129167 AAAAAACAAAAAAAGAC
1 AAAAAAC--AAAAAGAC
1129184 AAAAAACAAAAAGA
1 AAAAAACAAAAAGA
1129198 GAAGAACGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
15 14 0.50
17 14 0.50
ACGTcount: A:0.85, C:0.11, G:0.04, T:0.00
Consensus pattern (15 bp):
AAAAAACAAAAAGAC
Found at i:1130217 original size:105 final size:105
Alignment explanation
Indices: 1130029--1131044 Score: 1695
Period size: 105 Copynumber: 9.7 Consensus size: 105
1130019 AGGTTTTACC
* * *
1130029 CAGAGCCAATTTCAACTTCACAATGAAGG-CATTGGACTCCAGACAACGCATGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* * *
1130093 ACGAAGGGACCGCTAGTTGTCAATAAACATTTCTTAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
*
1130133 CAGAGCCAATTTCAACTCCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* *
1130198 ACGAAGGGACCGTTGGTTGTCAACAAATATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
*
1130238 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCATGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1130303 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
* *
1130343 CAGGGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCATGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* * *
1130408 ACGAAGGGACCGCTGGTTGTCGACAAATATCTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
1130448 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
1130513 ACGAAGGGACCGCTGGTTGTCACCAAACATTTCTCCAA-TT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCT-CAATTT
*
1130553 CAGAGCCAATTTCAACTCCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* *
1130618 ACGAAGGGACCGTTGGTTGTC-ACAAATATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
1130657 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
1130722 ACGAAGGGACCGCTGGTTGTCACCAAACATTTCTCCAA-TT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCT-CAATTT
* *
1130762 CAGAGCCAATTTCAACTTCACAATGAAGGATATTGGACTCCAGACAACGCAAGTTAAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
1130827 ACGAAGGGACCGCTGGTTGTCACCAAACATTTCTCCAA-TT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCT-CAATTT
*
1130867 CAGAGCCAATCTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
1130932 ACGAAGGGACCGCTGGTTGTCACCAAACATTTCTCCAA-TT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCT-CAATTT
* * *
1130972 CAGAGCCAATCTCAACTTCACAACGAAGGATATTGGACTCCAGGCAACGCAAGTTCAACTTCACT
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1131037 ACG-AGGGA
66 ACGAAGGGA
1131045 GTCATCTGTA
Statistics
Matches: 869, Mismatches: 38, Indels: 10
0.95 0.04 0.01
Matches are distributed among these distances:
103 3 0.00
104 128 0.15
105 732 0.84
106 6 0.01
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (105 bp):
CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
Found at i:1130807 original size:419 final size:420
Alignment explanation
Indices: 1130029--1131044 Score: 1767
Period size: 419 Copynumber: 2.4 Consensus size: 420
1130019 AGGTTTTACC
* * *
1130029 CAGAGCCAATTTCAACTTCACAATGAAGG-CATTGGACTCCAGACAACGCATGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* ** *
1130093 ACGAAGGGACCGCTAGTTGTCAATAAACATTTCT-TAATTTCAGAGCCAATTTCAACTCCACAAC
66 ACGAAGGGACCGCTGGTTGTCACCAAACATTTCTCCAA-TTCAGAGCCAATTTCAACTCCACAAC
1130157 GAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGTTGGTTGTCAAC
130 GAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGTTGGTTGTCAAC
1130222 AAATATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
195 AAATATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
* *
1130287 CATGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGGGCCAA
260 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGAGCCAA
* *
1130352 TTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCATGTTCAACTTCACGACGAAGGGA
325 TTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTAAACTTCACGACGAAGGGA
*
1130417 CCGCTGGTTGTCGA-CAAATATCTCT-CAATTT
390 CCGCTGGTTGTC-ACCAAACATCTCTCCAA-TT
1130448 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1130513 ACGAAGGGACCGCTGGTTGTCACCAAACATTTCTCCAATTCAGAGCCAATTTCAACTCCACAACG
66 ACGAAGGGACCGCTGGTTGTCACCAAACATTTCTCCAATTCAGAGCCAATTTCAACTCCACAACG
1130578 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGTTGGTTGTC-ACA
131 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGTTGGTTGTCAACA
1130642 AATATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGC
196 AATATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGC
*
1130707 AAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCACCAAACATTTCTCCAA-TTCAGAGCCAA
261 AAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACATTTCT-CAATTTCAGAGCCAA
*
1130771 TTTCAACTTCACAATGAAGGATATTGGACTCCAGACAACGCAAGTTAAACTTCACGACGAAGGGA
325 TTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTAAACTTCACGACGAAGGGA
*
1130836 CCGCTGGTTGTCACCAAACATTTCTCCAATT
390 CCGCTGGTTGTCACCAAACATCTCTCCAATT
*
1130867 CAGAGCCAATCTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* *
1130932 ACGAAGGGACCGCTGGTTGTCACCAAACATTTCTCCAATTCAGAGCCAATCTCAACTTCACAACG
66 ACGAAGGGACCGCTGGTTGTCACCAAACATTTCTCCAATTCAGAGCCAATTTCAACTCCACAACG
* *
1130997 AAGGATATTGGACTCCAGGCAACGCAAGTTCAACTTCACTACG-AGGGA
131 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGA
1131045 GTCATCTGTA
Statistics
Matches: 572, Mismatches: 20, Indels: 11
0.95 0.03 0.02
Matches are distributed among these distances:
418 6 0.01
419 406 0.71
420 158 0.28
421 2 0.00
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (420 bp):
CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
ACGAAGGGACCGCTGGTTGTCACCAAACATTTCTCCAATTCAGAGCCAATTTCAACTCCACAACG
AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGTTGGTTGTCAACA
AATATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGC
AAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGAGCCAAT
TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTAAACTTCACGACGAAGGGAC
CGCTGGTTGTCACCAAACATCTCTCCAATT
Found at i:1131354 original size:19 final size:20
Alignment explanation
Indices: 1131314--1131384 Score: 60
Period size: 19 Copynumber: 3.7 Consensus size: 20
1131304 CTTTTTGATA
*
1131314 TTATATA-ATATA-CTTATA
1 TTATATACATATATCTTATT
*
1131332 TTATATA-ATATATTTTATT
1 TTATATACATATATCTTATT
*
1131351 TTAT-TACATATATCGTATT
1 TTATATACATATATCTTATT
* *
1131370 TACATATATATATAT
1 T-TATATACATATAT
1131385 TTGTTTTGCA
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
18 14 0.33
19 19 0.44
20 2 0.05
21 8 0.19
ACGTcount: A:0.39, C:0.06, G:0.01, T:0.54
Consensus pattern (20 bp):
TTATATACATATATCTTATT
Found at i:1132467 original size:17 final size:18
Alignment explanation
Indices: 1132439--1132472 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
1132429 CCCTACTATT
1132439 ATTATATACTATATTTTC
1 ATTATATACTATATTTTC
1132457 ATTAT-TACTATATTTT
1 ATTATATACTATATTTT
1132473 ACTCCCTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.32, C:0.09, G:0.00, T:0.59
Consensus pattern (18 bp):
ATTATATACTATATTTTC
Found at i:1132537 original size:2 final size:2
Alignment explanation
Indices: 1132524--1132567 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
1132514 TTTATTTTAT
* *
1132524 TA TA TT TA TA TA TA TA TA TA TA CA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1132566 TA
1 TA
1132568 CATAACCATA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1138947 original size:54 final size:54
Alignment explanation
Indices: 1138861--1138965 Score: 174
Period size: 54 Copynumber: 1.9 Consensus size: 54
1138851 GGTGGCCTTG
* * * *
1138861 GGCAAGCCCGATACTCTGTCTTGACTCCTTGTCGGACACTTGCACTAATGTATT
1 GGCAAGCCCGATACTCTATCTTGACTCATTGTCGAACACTTGCACCAATGTATT
1138915 GGCAAGCCCGATACTCTATCTTGACTCATTGTCGAACACTTGCACCAATGT
1 GGCAAGCCCGATACTCTATCTTGACTCATTGTCGAACACTTGCACCAATGT
1138966 CTCGGACCCA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.30
Consensus pattern (54 bp):
GGCAAGCCCGATACTCTATCTTGACTCATTGTCGAACACTTGCACCAATGTATT
Found at i:1141366 original size:225 final size:229
Alignment explanation
Indices: 1140950--1141375 Score: 540
Period size: 225 Copynumber: 1.9 Consensus size: 229
1140940 CCCAGAAGAA
* * *
1140950 AAAGCAACATTACCGATACATCGATCTTGTCCAGCATGCTTCTGGTTTGGGAAAAAGTAGTTCTG
1 AAAGCAACATTACCGATACATCGATCTCGTCCAGCATGCTTCTGGTGTGGG-AAAAGTAGTACTG
* * * * * * *
1141015 CGAAAAGAAGACCGATAGAGAAAGCCAGTCACCTGGCTTTGGCAAAGTATTTGGAAAATGATCTC
65 C-AAAAGAACACCAATAGAGAAAACCAATCACCTGGCTTTGGCAAAGAATTTGGAAAAAGATCCC
* * * * * * *
1141080 GTGCCTGCAGTTAGTTCATCAAAATCTGTGGCTCAAAAGGCTCCTCTTACTGGTTGTGACCACGA
129 ATGCCTGCAGTTAGTTCATCAAAACCTATGACTCAAAAGGATCCTCTTACTGGTCGTGACCAAGA
1141145 TGAGAATGGGAAGTTTGTTGTCAAAACTTCGGATGG
194 TGAGAATGGGAAGTTTGTTGTCAAAACTTCGGATGG
* *
1141181 AAAGCCAA-ATTACCGATACATGGATCTCGTCCAGCATGCTTCTGGTGTGGG-ATA-TAGTACTG
1 AAAG-CAACATTACCGATACATCGATCTCGTCCAGCATGCTTCTGGTGTGGGAAAAGTAGTACTG
* *
1141243 C-AAA-AACACCAATTA-AGAAAACCAATCACCTGGCTTTGTCAAAGAATTTGGAAAAAGTTCCC
65 CAAAAGAACACCAA-TAGAGAAAACCAATCACCTGGCTTTGGCAAAGAATTTGGAAAAAGATCCC
** ** *
1141305 ATGCCTGTGGTTAGTTCATCAAAACCTATGACTCAAGCGGATCCTCTTAGTGGTCGTGACCAAGA
129 ATGCCTGCAGTTAGTTCATCAAAACCTATGACTCAAAAGGATCCTCTTACTGGTCGTGACCAAGA
1141370 TGAGAA
194 TGAGAA
1141376 AATTGTTTGG
Statistics
Matches: 167, Mismatches: 26, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
225 105 0.63
226 5 0.03
228 8 0.05
229 2 0.01
231 44 0.26
232 3 0.02
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (229 bp):
AAAGCAACATTACCGATACATCGATCTCGTCCAGCATGCTTCTGGTGTGGGAAAAGTAGTACTGC
AAAAGAACACCAATAGAGAAAACCAATCACCTGGCTTTGGCAAAGAATTTGGAAAAAGATCCCAT
GCCTGCAGTTAGTTCATCAAAACCTATGACTCAAAAGGATCCTCTTACTGGTCGTGACCAAGATG
AGAATGGGAAGTTTGTTGTCAAAACTTCGGATGG
Found at i:1142644 original size:264 final size:264
Alignment explanation
Indices: 1142174--1142705 Score: 642
Period size: 264 Copynumber: 2.0 Consensus size: 264
1142164 GAAAAACTAA
* * *
1142174 AGAATGGGAAGTACATTGTAAAAGTTTCAGATGAAACTTATGTGTGCCCCTATTGTCACGAGAAG
1 AGAATGGGAAGTACATTGCAAAAGTTTCAGACGAAACTTATATGTGCCCCTATTGTCACGAGAAG
*
1142239 AAAAAACCAAATTACCGATACATGGATCTCCTCCAGCACGCTTCTGGGTTGGGAAATAGTAGTTC
66 AAAAAACCAAATTACCGATACATGGATCTCCTCCAGCACGCTTCTGGGTTGGGAAATAGTACTTC
* * * ** * *
1142304 TGCAAAAAGATCATCACTAGTAAAAGCTAATCACCTAGCTTTGGCGAAGTATTTGGAAAAAGATC
131 TGAAAAAAGAACACCACTAGTAAAAGCTAATCACCTAGAGTTGGCAAAATATTTGGAAAAAGATC
** * * * *
1142369 TTGTACCTTTGGTTAGTTCATTGAATCCTGCTGCTCCAGTA-GATCCTCTCGGTGGCTGTGACCA
196 TCATACCTTTGGTTAGTTCATCGAAACCTG-TGCTCCAGGAGGATCCTCTCAGTGGCTGTGACCA
1142433 TAATG
260 TAATG
** * ** * *
1142438 AGAATGGGAAGTATGTTGCCAAAGTTTTGGACGAAACTTATATGTGCCCCTATTGTC-CTGGGAT
1 AGAATGGGAAGTACATTGCAAAAGTTTCAGACGAAACTTATATGTGCCCCTATTGTCAC-GAGAA
* * * * * *
1142502 GAAAAAGCCTAATTACCGATACTTGGATCTCGTCCAGCATGCTTCT-GCTGTGGGAAATAGTACT
65 GAAAAAACCAAATTACCGATACATGGATCTCCTCCAGCACGCTTCTGGGT-TGGGAAATAGTACT
*
1142566 TCTGAAAAAAGAACACCAAC-AG-AGAAAGCTAATCACCTGGAGTTGGCAAAATATTTGGAAAAA
129 TCTGAAAAAAGAACACC-ACTAGTA-AAAGCTAATCACCTAGAGTTGGCAAAATATTTGGAAAAA
* * * * *
1142629 GGTCTCATGCCTTTGGTTAGTTCATCGAAACCTGTGGTTCAGGAGGATCCTCTTAGTGGCTGTGA
192 GATCTCATACCTTTGGTTAGTTCATCGAAACCTGTGCTCCAGGAGGATCCTCTCAGTGGCTGTGA
* *
1142694 CGATGATG
257 CCATAATG
1142702 AGAA
1 AGAA
1142706 AATTGTTTGG
Statistics
Matches: 225, Mismatches: 38, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
263 11 0.05
264 212 0.94
265 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (264 bp):
AGAATGGGAAGTACATTGCAAAAGTTTCAGACGAAACTTATATGTGCCCCTATTGTCACGAGAAG
AAAAAACCAAATTACCGATACATGGATCTCCTCCAGCACGCTTCTGGGTTGGGAAATAGTACTTC
TGAAAAAAGAACACCACTAGTAAAAGCTAATCACCTAGAGTTGGCAAAATATTTGGAAAAAGATC
TCATACCTTTGGTTAGTTCATCGAAACCTGTGCTCCAGGAGGATCCTCTCAGTGGCTGTGACCAT
AATG
Found at i:1146622 original size:17 final size:18
Alignment explanation
Indices: 1146595--1146633 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
1146585 TAAACTATGG
1146595 TTTTGGAAAAATGAAAGT
1 TTTTGGAAAAATGAAAGT
*
1146613 TTTTGGAAAAATGAATGT
1 TTTTGGAAAAATGAAAGT
1146631 TTT
1 TTT
1146634 AGGTATTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.38, C:0.00, G:0.21, T:0.41
Consensus pattern (18 bp):
TTTTGGAAAAATGAAAGT
Found at i:1148654 original size:19 final size:18
Alignment explanation
Indices: 1148604--1148657 Score: 58
Period size: 19 Copynumber: 3.1 Consensus size: 18
1148594 TAATTTTTTT
1148604 ATATTATTTATTAT--AA
1 ATATTATTTATTATAAAA
** *
1148620 ATATTAAATATAATAAAA
1 ATATTATTTATTATAAAA
1148638 GATATTATTTATTATAAAA
1 -ATATTATTTATTATAAAA
1148657 A
1 A
1148658 AGTTAATATT
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
16 11 0.38
18 3 0.10
19 15 0.52
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (18 bp):
ATATTATTTATTATAAAA
Found at i:1149816 original size:30 final size:29
Alignment explanation
Indices: 1149743--1149814 Score: 135
Period size: 29 Copynumber: 2.5 Consensus size: 29
1149733 ATTAAAAATG
*
1149743 ATTTTATTGCTTTTCCAAATAAAAAATAA
1 ATTTTATTACTTTTCCAAATAAAAAATAA
1149772 ATTTTATTACTTTTCCAAATAAAAAATAA
1 ATTTTATTACTTTTCCAAATAAAAAATAA
1149801 ATTTTATTACTTTT
1 ATTTTATTACTTTT
1149815 TCAATACTAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.42, C:0.10, G:0.01, T:0.47
Consensus pattern (29 bp):
ATTTTATTACTTTTCCAAATAAAAAATAA
Found at i:1152848 original size:32 final size:32
Alignment explanation
Indices: 1152798--1152861 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
1152788 GATCGGTTAG
* * *
1152798 ATTTCGGGTCGGGTCAATATCAAATCGATTGA
1 ATTTCGGATCGAGCCAATATCAAATCGATTGA
1152830 ATTTCGGATCGAGCCAATATCAAATCGATTGA
1 ATTTCGGATCGAGCCAATATCAAATCGATTGA
1152862 TTTTAGATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (32 bp):
ATTTCGGATCGAGCCAATATCAAATCGATTGA
Found at i:1153221 original size:16 final size:16
Alignment explanation
Indices: 1153196--1153229 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
1153186 TTAGCTAAAT
1153196 TTTGAATCATGTATGG
1 TTTGAATCATGTATGG
*
1153212 TTTGATTCATGTATGG
1 TTTGAATCATGTATGG
1153228 TT
1 TT
1153230 CGAGTTTCGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.21, C:0.06, G:0.24, T:0.50
Consensus pattern (16 bp):
TTTGAATCATGTATGG
Found at i:1154792 original size:2 final size:2
Alignment explanation
Indices: 1154785--1154841 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
1154775 TACAATTCAA
1154785 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1154827 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
1154842 GCTTACACAT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Done.