Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008983.1 Hibiscus syriacus cultivar Beakdansim tig00112347_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: 1350231
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 7
Found at i:870020 original size:19 final size:19
Alignment explanation
Indices: 869969--870025 Score: 52
Period size: 19 Copynumber: 3.2 Consensus size: 19
869959 AAACCATGCA
869969 GGGGGGAATCTGTTCCC--
1 GGGGGGAATCTGTTCCCTT
*
869986 --GGGGAATC-GATACCCTT
1 GGGGGGAATCTG-TTCCCTT
870003 GGGGGGAATCTGTTCCCTCT
1 GGGGGGAATCTGTTCCCT-T
870023 GGG
1 GGG
870026 CAATCTGGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 11
0.70 0.05 0.25
Matches are distributed among these distances:
14 1 0.03
15 12 0.39
19 13 0.42
20 5 0.16
ACGTcount: A:0.14, C:0.23, G:0.39, T:0.25
Consensus pattern (19 bp):
GGGGGGAATCTGTTCCCTT
Found at i:873332 original size:21 final size:21
Alignment explanation
Indices: 873307--873348 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
873297 CCAGAATGGG
*
873307 GGGAATCGGTACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
873328 GGGAATCGATACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
873349 ATATTCAAAT
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:873508 original size:34 final size:35
Alignment explanation
Indices: 873462--873543 Score: 132
Period size: 34 Copynumber: 2.4 Consensus size: 35
873452 ACCATGCAGG
873462 GGAATCTGTTCCCGGGGAATCGATA-CCCCTGGG-
1 GGAATCTGTTCCCGGGGAATCGATACCCCCTGGGA
*
873495 GAGAATCTATTCCCGGGGAATCGATACCCCCTGGGA
1 G-GAATCTGTTCCCGGGGAATCGATACCCCCTGGGA
873531 GGAATCTGTTCCC
1 GGAATCTGTTCCC
873544 TCTGGGCAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
33 1 0.02
34 23 0.52
35 19 0.43
36 1 0.02
ACGTcount: A:0.21, C:0.28, G:0.29, T:0.22
Consensus pattern (35 bp):
GGAATCTGTTCCCGGGGAATCGATACCCCCTGGGA
Found at i:875872 original size:47 final size:47
Alignment explanation
Indices: 875804--876064 Score: 384
Period size: 47 Copynumber: 5.6 Consensus size: 47
875794 TAAAAATCTT
* * * *
875804 TTACCATTT--ATCCCATAAGCTCGTAAGCTTATTTTACCAAAATAA
1 TTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTATCAATATAC
*
875849 TTACCATTTAAATTCCATAAGCTCGTAAGCTTAATTTTATC-ATCATAT
1 TTACCATTTAAATTCCATAAGCTCGTAAGCTT-ATTTTATCAAT-ATAC
875897 TTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTATCAATATAC
1 TTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTATCAATATAC
* *
875944 TTGCCATTTAAATTCCATAAGCTTGTAAGCTTATTTTATCAATATAC
1 TTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTATCAATATAC
* *
875991 TTGCCATTTAAATTCCATAAGCTTGTAAGCTTATTTTATCAATATAC
1 TTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTATCAATATAC
* *
876038 TTGCCATTTAAAATCCATAAGCTCGTA
1 TTACCATTTAAATTCCATAAGCTCGTA
876065 GACAATAGCC
Statistics
Matches: 202, Mismatches: 9, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
45 9 0.04
47 149 0.74
48 44 0.22
ACGTcount: A:0.33, C:0.19, G:0.08, T:0.40
Consensus pattern (47 bp):
TTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTATCAATATAC
Found at i:875993 original size:25 final size:25
Alignment explanation
Indices: 875965--876040 Score: 61
Period size: 25 Copynumber: 3.2 Consensus size: 25
875955 ATTCCATAAG
875965 CTTGTAAGCTTATTTTATCAATATA
1 CTTGTAAGCTTATTTTATCAATATA
** * ** *
875990 CTTGCCA-TTTA-AAT-TCCATA-A
1 CTTGTAAGCTTATTTTATCAATATA
876011 GCTTGTAAGCTTATTTTATCAATATA
1 -CTTGTAAGCTTATTTTATCAATATA
876037 CTTG
1 CTTG
876041 CCATTTAAAA
Statistics
Matches: 34, Mismatches: 12, Indels: 10
0.61 0.21 0.18
Matches are distributed among these distances:
21 1 0.03
22 10 0.29
23 4 0.12
24 4 0.12
25 14 0.41
26 1 0.03
ACGTcount: A:0.30, C:0.16, G:0.09, T:0.45
Consensus pattern (25 bp):
CTTGTAAGCTTATTTTATCAATATA
Found at i:876246 original size:61 final size:61
Alignment explanation
Indices: 876134--876248 Score: 176
Period size: 61 Copynumber: 1.9 Consensus size: 61
876124 GTAGTGCTAA
* *
876134 ACCTGCACTAAGCTTACGCCATAGTGCTAATCCGGATATGACACATAAGGTCGTGCCCACC
1 ACCTACACTAAGCTTACGCCATAGTGCTAATCCGGACATGACACATAAGGTCGTGCCCACC
* * * *
876195 ACCTACACTAAGCTTACGCTATAGTGTTAATCCGGACATGATACATTAGGTCGT
1 ACCTACACTAAGCTTACGCCATAGTGCTAATCCGGACATGACACATAAGGTCGT
876249 ATCCACCTTA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
61 48 1.00
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (61 bp):
ACCTACACTAAGCTTACGCCATAGTGCTAATCCGGACATGACACATAAGGTCGTGCCCACC
Found at i:877282 original size:29 final size:30
Alignment explanation
Indices: 877225--877287 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 30
877215 TCTTCATCAA
* * *
877225 TTTTCCAAAATTTACGAATTGATCTCCAAC
1 TTTTCCAAAAATTACGAAATGATCCCCAAC
* *
877255 TTTT-CAAAAATTACGAAATGGTCCCCAAT
1 TTTTCCAAAAATTACGAAATGATCCCCAAC
877284 TTTT
1 TTTT
877288 TTCTAAGGCT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 24 0.86
30 4 0.14
ACGTcount: A:0.33, C:0.21, G:0.08, T:0.38
Consensus pattern (30 bp):
TTTTCCAAAAATTACGAAATGATCCCCAAC
Found at i:883813 original size:34 final size:34
Alignment explanation
Indices: 883770--883838 Score: 102
Period size: 34 Copynumber: 2.0 Consensus size: 34
883760 CAGTTAGAAT
* *
883770 TAGTTAGGTATGTCTATGGGCAGACTTTCGTGGG
1 TAGTTAGGTACGTCTATGGGCAGACCTTCGTGGG
**
883804 TAGTTAGGTACGTCTATGGGTGGACCTTCGTGGG
1 TAGTTAGGTACGTCTATGGGCAGACCTTCGTGGG
883838 T
1 T
883839 GCCAAGAGGA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.16, C:0.13, G:0.36, T:0.35
Consensus pattern (34 bp):
TAGTTAGGTACGTCTATGGGCAGACCTTCGTGGG
Found at i:888897 original size:15 final size:15
Alignment explanation
Indices: 888877--888933 Score: 78
Period size: 15 Copynumber: 3.7 Consensus size: 15
888867 AACCGGATAT
888877 CGGGTACCCGATTAC
1 CGGGTACCCGATTAC
**
888892 CGGGTACCCGTAAAATC
1 CGGGTACCCG-ATTA-C
888909 CGGGTACCCGATTAC
1 CGGGTACCCGATTAC
888924 CGGGTACCCG
1 CGGGTACCCG
888934 TAACATCCGG
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
15 21 0.58
16 4 0.11
17 11 0.31
ACGTcount: A:0.21, C:0.33, G:0.28, T:0.18
Consensus pattern (15 bp):
CGGGTACCCGATTAC
Found at i:888913 original size:17 final size:17
Alignment explanation
Indices: 888891--888945 Score: 69
Period size: 17 Copynumber: 3.4 Consensus size: 17
888881 TACCCGATTA
888891 CCGGGTACCCGTAAAAT
1 CCGGGTACCCGTAAAAT
**
888908 CCGGGTACCCG-ATTA-
1 CCGGGTACCCGTAAAAT
*
888923 CCGGGTACCCGTAACAT
1 CCGGGTACCCGTAAAAT
888940 CCGGGT
1 CCGGGT
888946 CGAGACACGG
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
15 11 0.34
16 4 0.12
17 17 0.53
ACGTcount: A:0.22, C:0.33, G:0.27, T:0.18
Consensus pattern (17 bp):
CCGGGTACCCGTAAAAT
Found at i:888918 original size:32 final size:32
Alignment explanation
Indices: 888877--888945 Score: 129
Period size: 32 Copynumber: 2.2 Consensus size: 32
888867 AACCGGATAT
888877 CGGGTACCCGATTACCGGGTACCCGTAAAATC
1 CGGGTACCCGATTACCGGGTACCCGTAAAATC
*
888909 CGGGTACCCGATTACCGGGTACCCGTAACATC
1 CGGGTACCCGATTACCGGGTACCCGTAAAATC
888941 CGGGT
1 CGGGT
888946 CGAGACACGG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.22, C:0.32, G:0.28, T:0.19
Consensus pattern (32 bp):
CGGGTACCCGATTACCGGGTACCCGTAAAATC
Found at i:891956 original size:18 final size:20
Alignment explanation
Indices: 891935--891979 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 20
891925 TCACAATTAT
*
891935 ATATTTTTAATAA-TT-TAA
1 ATATTTTTAACAATTTCTAA
891953 ATA--TTTAACAATTTCTAA
1 ATATTTTTAACAATTTCTAA
891971 ATATTTTTA
1 ATATTTTTA
891980 TTATTTATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
16 7 0.32
17 2 0.09
18 9 0.41
20 4 0.18
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.53
Consensus pattern (20 bp):
ATATTTTTAACAATTTCTAA
Found at i:892581 original size:31 final size:31
Alignment explanation
Indices: 892500--892589 Score: 107
Period size: 31 Copynumber: 2.9 Consensus size: 31
892490 ACTTGATCCG
892500 TGAATTTTAGAT--AATATTAATTT-AACCT
1 TGAATTTTAGATAAAATATTAATTTGAACCT
*
892528 TAAATTTTAGATAATAAATATTAATTTGACACC-
1 TGAATTTTAGAT-A-AAATATTAATTTGA-ACCT
*
892561 TGAACTTTAGATAAAATATTAATTTGAAC
1 TGAATTTTAGATAAAATATTAATTTGAAC
892590 TCTAAATCTA
Statistics
Matches: 53, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
28 11 0.21
30 2 0.04
31 14 0.26
32 12 0.23
33 11 0.21
34 3 0.06
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.41
Consensus pattern (31 bp):
TGAATTTTAGATAAAATATTAATTTGAACCT
Found at i:897973 original size:60 final size:59
Alignment explanation
Indices: 897903--898014 Score: 199
Period size: 59 Copynumber: 1.9 Consensus size: 59
897893 TAAAAAATTA
897903 TTACTTTATATATTTATGAATAATTGTAAT-ACACTATCAAGCCTTGTACATCTAATTTCG
1 TTACTTTATATA-TTATGAATAATTGTAATCA-ACTATCAAGCCTTGTACATCTAATTTCG
897963 TTACTTTATATATTATGAATAATTGTAATCAACTATCAAGCCTTGTACATCT
1 TTACTTTATATATTATGAATAATTGTAATCAACTATCAAGCCTTGTACATCT
898015 GGCTTGCTCT
Statistics
Matches: 51, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
59 38 0.75
60 13 0.25
ACGTcount: A:0.34, C:0.15, G:0.08, T:0.43
Consensus pattern (59 bp):
TTACTTTATATATTATGAATAATTGTAATCAACTATCAAGCCTTGTACATCTAATTTCG
Found at i:898914 original size:8 final size:8
Alignment explanation
Indices: 898890--899074 Score: 54
Period size: 8 Copynumber: 21.6 Consensus size: 8
898880 TTTGTGAATA
898890 TTTTA-AT
1 TTTTATAT
*
898897 TTTAAT-T
1 TTTTATAT
898904 TTTTATAT
1 TTTTATAT
*
898912 TTTTGTCCAT
1 TTTTAT--AT
*
898922 TCTTTAGAGT
1 T-TTTATA-T
898932 TTTTATAT
1 TTTTATAT
898940 TTTTAATAT
1 TTTT-ATAT
*
898949 TTTTTTAT
1 TTTTATAT
898957 TTTTATTGAT
1 TTTTA-T-AT
*
898967 TTCTATAAGT
1 TTTTAT-A-T
*
898977 TTTTGAATAAA
1 TTTT--AT-AT
*
898988 TTGTATAT
1 TTTTATAT
898996 TTTT-TAT
1 TTTTATAT
*
899003 TTTTCAT-G
1 TTTT-ATAT
*
899011 TTTTAAAT
1 TTTTATAT
*
899019 ACTTTATCAT
1 -TTTTAT-AT
*
899029 TTTTTTAT
1 TTTTATAT
*
899037 TTTTTTAT
1 TTTTATAT
*
899045 TTTTAAAAT
1 TTTT-ATAT
* **
899054 GTTTGGAT
1 TTTTATAT
899062 TTTTATAT
1 TTTTATAT
899070 TTTTA
1 TTTTA
899075 ATAATTTCTT
Statistics
Matches: 130, Mismatches: 30, Indels: 35
0.67 0.15 0.18
Matches are distributed among these distances:
7 18 0.14
8 52 0.40
9 33 0.25
10 17 0.13
11 6 0.05
12 4 0.03
ACGTcount: A:0.24, C:0.04, G:0.06, T:0.66
Consensus pattern (8 bp):
TTTTATAT
Found at i:898915 original size:9 final size:9
Alignment explanation
Indices: 898896--898960 Score: 53
Period size: 9 Copynumber: 7.3 Consensus size: 9
898886 AATATTTTAA
898896 TTTTA-ATT
1 TTTTATATT
898904 TTTTATATT
1 TTTTATATT
**
898913 TTTGTCCATT
1 TTT-TATATT
* * *
898923 CTTTAGAGT
1 TTTTATATT
898932 TTTTATATT
1 TTTTATATT
*
898941 TTTAATATT
1 TTTTATATT
898950 TTTT-TATT
1 TTTTATATT
898958 TTT
1 TTT
898961 ATTGATTTCT
Statistics
Matches: 44, Mismatches: 11, Indels: 4
0.75 0.19 0.07
Matches are distributed among these distances:
8 12 0.27
9 26 0.59
10 6 0.14
ACGTcount: A:0.20, C:0.05, G:0.05, T:0.71
Consensus pattern (9 bp):
TTTTATATT
Found at i:899093 original size:12 final size:12
Alignment explanation
Indices: 899078--899105 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
899068 ATTTTTAATA
899078 ATTTCTTTAAAT
1 ATTTCTTTAAAT
899090 ATTTCTTTAAAT
1 ATTTCTTTAAAT
899102 ATTT
1 ATTT
899106 AATTTTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (12 bp):
ATTTCTTTAAAT
Found at i:911228 original size:61 final size:61
Alignment explanation
Indices: 911104--911229 Score: 155
Period size: 61 Copynumber: 2.1 Consensus size: 61
911094 TAGATGATTA
* * * * *
911104 TTTTGTAACTTTTAATAGTCGGATGACTCAACAAAATAATGGCTTATAGTTAATGGACCAT
1 TTTTATAACTTTTAATAATCGGATGACTCAACAAAATAACGGCTTATACTTAAGGGACCAT
* * * *
911165 TTTTATAACTTTTAATAATCGAGA-GACTCAATAAAATAACGTCTTATACTTAGGGGACTAT
1 TTTTATAACTTTTAATAATCG-GATGACTCAACAAAATAACGGCTTATACTTAAGGGACCAT
911226 TTTT
1 TTTT
911230 GTACTTTAAC
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
61 53 0.96
62 2 0.04
ACGTcount: A:0.35, C:0.13, G:0.14, T:0.38
Consensus pattern (61 bp):
TTTTATAACTTTTAATAATCGGATGACTCAACAAAATAACGGCTTATACTTAAGGGACCAT
Found at i:914698 original size:22 final size:23
Alignment explanation
Indices: 914671--914721 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
914661 GCCAAACGAA
914671 AAAAAAAG-ACAAAAAACGTGTC
1 AAAAAAAGTACAAAAAACGTGTC
* * *
914693 -ACAAAAGTAGAGAAAACGTGTC
1 AAAAAAAGTACAAAAAACGTGTC
914715 AAAAAAA
1 AAAAAAA
914722 TAAAATTATT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
21 6 0.26
22 12 0.52
23 5 0.22
ACGTcount: A:0.63, C:0.12, G:0.16, T:0.10
Consensus pattern (23 bp):
AAAAAAAGTACAAAAAACGTGTC
Found at i:915340 original size:2 final size:2
Alignment explanation
Indices: 915333--915367 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
915323 CATACTTTAA
915333 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
915368 AAATCAATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:915678 original size:60 final size:60
Alignment explanation
Indices: 915544--915657 Score: 162
Period size: 60 Copynumber: 1.9 Consensus size: 60
915534 AATAGTCCCC
* *
915544 CGATTATAGG-TCATTGCTTTGTTGAGTCTTCCAACTATTAAAAGTTACAAAATGGCCACT
1 CGATTATAGGAT-GTTGCTTTGTTGAGTCCTCCAACTATTAAAAGTTACAAAATGGCCACT
*
915604 CGATTATAGGATGTTGCTTTTTTGAGTCCT-CAGACTATT-AAAGTTACAAAATGG
1 CGATTATAGGATGTTGCTTTGTTGAGTCCTCCA-ACTATTAAAAGTTACAAAATGG
915658 TCACCTGACT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
59 17 0.35
60 31 0.63
61 1 0.02
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (60 bp):
CGATTATAGGATGTTGCTTTGTTGAGTCCTCCAACTATTAAAAGTTACAAAATGGCCACT
Found at i:917667 original size:2 final size:2
Alignment explanation
Indices: 917660--917706 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
917650 ATTTTTAGCT
917660 TA TA TA TA TA TA TA TA TA TA TA TA 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
917702 TA TA T
1 TA TA T
917707 CATACGTGTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:918341 original size:47 final size:47
Alignment explanation
Indices: 918290--918659 Score: 490
Period size: 47 Copynumber: 7.9 Consensus size: 47
918280 TATGGCCTCT
* * * *
918290 TTTCATGCCTTAATGCATCCGTCCATGCATTTTTAGTGATGGCATAC
1 TTTCATGCCTTAATGCATCCGTTCATGCATTTTTAGTTATGACATCC
** * * ** * *
918337 TTTCATGTTTTAAAGTATCTTTTCATG-AATTTTAGTTATGTCATCC
1 TTTCATGCCTTAATGCATCCGTTCATGCATTTTTAGTTATGACATCC
* * * *
918383 TTTCATGCCTTAATGCATTCGTTCATGAATTTTTATTTATGACATCT
1 TTTCATGCCTTAATGCATCCGTTCATGCATTTTTAGTTATGACATCC
** * *
918430 TTTCAAACCTTAATGCATCCTTTCATGCATTTTTAGTTATGTCATCC
1 TTTCATGCCTTAATGCATCCGTTCATGCATTTTTAGTTATGACATCC
*
918477 TTTCATGCCTTAATGCATCCTTTCATGCATTTTTAGTTATGACATCC
1 TTTCATGCCTTAATGCATCCGTTCATGCATTTTTAGTTATGACATCC
* *
918524 TTTTATGCCTTAATACATCCGTTCATGCATTTTTAGTTATGACATCC
1 TTTCATGCCTTAATGCATCCGTTCATGCATTTTTAGTTATGACATCC
* *
918571 TTTCATGCCTTAATGCATCTGTTCATGCATTTTTAATTATGACATCC
1 TTTCATGCCTTAATGCATCCGTTCATGCATTTTTAGTTATGACATCC
* *
918618 TTTCATGCCTTAATGCACCCGTTCATGCTTTTTTAGTTATGA
1 TTTCATGCCTTAATGCATCCGTTCATGCATTTTTAGTTATGA
918660 ATTCGGTTTA
Statistics
Matches: 278, Mismatches: 44, Indels: 2
0.86 0.14 0.01
Matches are distributed among these distances:
46 35 0.13
47 243 0.87
ACGTcount: A:0.22, C:0.21, G:0.12, T:0.45
Consensus pattern (47 bp):
TTTCATGCCTTAATGCATCCGTTCATGCATTTTTAGTTATGACATCC
Found at i:918483 original size:27 final size:26
Alignment explanation
Indices: 918445--918625 Score: 130
Period size: 27 Copynumber: 7.5 Consensus size: 26
918435 AACCTTAATG
*
918445 CATCCTTTCATGCATTTTTAGTTATGT
1 CATCCTTTCATGCATTTTTA-TTATGA
*
918472 CATCCTTTCATGC---CTTA--ATG-
1 CATCCTTTCATGCATTTTTATTATGA
918492 CATCCTTTCATGCATTTTTAGTTATGA
1 CATCCTTTCATGCATTTTTA-TTATGA
* *
918519 CATCCTTTTATGC---CTTA--AT-A
1 CATCCTTTCATGCATTTTTATTATGA
*
918539 CATCCGTTCATGCATTTTTAGTTATGA
1 CATCCTTTCATGCATTTTTA-TTATGA
*
918566 CATCCTTTCATGC---CTTA--ATG-
1 CATCCTTTCATGCATTTTTATTATGA
918586 CAT-CTGTTCATGCATTTTTAATTATGA
1 CATCCT-TTCATGCATTTTT-ATTATGA
918613 CATCCTTTCATGC
1 CATCCTTTCATGC
918626 CTTAATGCAC
Statistics
Matches: 121, Mismatches: 10, Indels: 46
0.68 0.06 0.26
Matches are distributed among these distances:
19 2 0.02
20 35 0.29
21 8 0.07
23 8 0.07
24 10 0.08
26 8 0.07
27 48 0.40
28 2 0.02
ACGTcount: A:0.22, C:0.23, G:0.10, T:0.45
Consensus pattern (26 bp):
CATCCTTTCATGCATTTTTATTATGA
Found at i:918497 original size:20 final size:20
Alignment explanation
Indices: 918472--918645 Score: 71
Period size: 20 Copynumber: 7.7 Consensus size: 20
918462 TTAGTTATGT
918472 CATCCTTTCATGCCTTAATG
1 CATCCTTTCATGCCTTAATG
*
918492 CATCCTTTCATGCATTTTTAGTTATG
1 CATCCTTTCATGC---CTTA---ATG
* *
918518 ACATCCTTTTATGCCTTAATA
1 -CATCCTTTCATGCCTTAATG
* *
918539 CATCCGTTCATGCATTTTTAGTTATG
1 CATCCTTTCATGC---CTTA---ATG
918565 ACATCCTTTCATGCCTTAATG
1 -CATCCTTTCATGCCTTAATG
*
918586 CAT-CTGTTCATGCATTTTTAATTATG
1 CATCCT-TTCATGC---CTT-A--ATG
918612 ACATCCTTTCATGCCTTAATG
1 -CATCCTTTCATGCCTTAATG
* *
918633 CACCCGTTCATGC
1 CATCCTTTCATGC
918646 TTTTTTAGTT
Statistics
Matches: 117, Mismatches: 14, Indels: 46
0.66 0.08 0.26
Matches are distributed among these distances:
19 2 0.02
20 45 0.38
21 8 0.07
23 9 0.08
24 9 0.08
26 8 0.07
27 34 0.29
28 2 0.02
ACGTcount: A:0.22, C:0.25, G:0.11, T:0.43
Consensus pattern (20 bp):
CATCCTTTCATGCCTTAATG
Found at i:920688 original size:17 final size:17
Alignment explanation
Indices: 920666--920727 Score: 61
Period size: 17 Copynumber: 3.6 Consensus size: 17
920656 TACCCTTATG
920666 TTGTAAGATAACAAAAA
1 TTGTAAGATAACAAAAA
* ** **
920683 TTGTAAGATACCCTTATG
1 TTGTAAGATA-ACAAAAA
*
920701 TTGTAAGATAACAAGAA
1 TTGTAAGATAACAAAAA
920718 TTGTAAGATA
1 TTGTAAGATA
920728 CCCTTATGTT
Statistics
Matches: 33, Mismatches: 11, Indels: 2
0.72 0.24 0.04
Matches are distributed among these distances:
17 21 0.64
18 12 0.36
ACGTcount: A:0.45, C:0.08, G:0.16, T:0.31
Consensus pattern (17 bp):
TTGTAAGATAACAAAAA
Found at i:920701 original size:35 final size:35
Alignment explanation
Indices: 920655--920756 Score: 186
Period size: 35 Copynumber: 2.9 Consensus size: 35
920645 AACTCTGAAA
*
920655 ATACCCTTATGTTGTAAGATAACAAAAATTGTAAG
1 ATACCCTTATGTTGTAAGATAACAAGAATTGTAAG
920690 ATACCCTTATGTTGTAAGATAACAAGAATTGTAAG
1 ATACCCTTATGTTGTAAGATAACAAGAATTGTAAG
*
920725 ATACCCTTATGTTGTAAGAAAACAAGAATTGT
1 ATACCCTTATGTTGTAAGATAACAAGAATTGT
920757 CCCTGGAAGT
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 65 1.00
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.31
Consensus pattern (35 bp):
ATACCCTTATGTTGTAAGATAACAAGAATTGTAAG
Found at i:920706 original size:18 final size:18
Alignment explanation
Indices: 920655--920743 Score: 74
Period size: 18 Copynumber: 5.1 Consensus size: 18
920645 AACTCTGAAA
920655 ATACCCTTATGTTGTAAG
1 ATACCCTTATGTTGTAAG
* ** **
920673 ATA-ACAAAAATTGTAAG
1 ATACCCTTATGTTGTAAG
920690 ATACCCTTATGTTGTAAG
1 ATACCCTTATGTTGTAAG
* *** *
920708 ATAACAAGA-ATTGTAAG
1 ATACCCTTATGTTGTAAG
920725 ATACCCTTATGTTGTAAG
1 ATACCCTTATGTTGTAAG
920743 A
1 A
920744 AAACAAGAAT
Statistics
Matches: 49, Mismatches: 20, Indels: 4
0.67 0.27 0.05
Matches are distributed among these distances:
17 24 0.49
18 25 0.51
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.33
Consensus pattern (18 bp):
ATACCCTTATGTTGTAAG
Found at i:922414 original size:24 final size:24
Alignment explanation
Indices: 922387--922448 Score: 97
Period size: 24 Copynumber: 2.6 Consensus size: 24
922377 TTCTGTTATA
*
922387 ATACCTGACCTGGATTCTGATCGG
1 ATACTTGACCTGGATTCTGATCGG
* *
922411 ATACTTGACCTGGATTTTGATCTG
1 ATACTTGACCTGGATTCTGATCGG
922435 ATACTTGACCTGGA
1 ATACTTGACCTGGA
922449 ATATGTTTTG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.34
Consensus pattern (24 bp):
ATACTTGACCTGGATTCTGATCGG
Found at i:927732 original size:21 final size:21
Alignment explanation
Indices: 927708--927758 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
927698 TTGGAAACAA
927708 GCTCCACTGAGAAGTCTGCAT
1 GCTCCACTGAGAAGTCTGCAT
*
927729 GCTCCACTAAGAAGTCTGCAT
1 GCTCCACTGAGAAGTCTGCAT
927750 GCTCCACTG
1 GCTCCACTG
927759 TGTAATTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.24, C:0.31, G:0.22, T:0.24
Consensus pattern (21 bp):
GCTCCACTGAGAAGTCTGCAT
Found at i:929545 original size:47 final size:47
Alignment explanation
Indices: 929472--929841 Score: 496
Period size: 47 Copynumber: 7.9 Consensus size: 47
929462 TATGGCCTCT
* *
929472 TTTCATGCCTTAATGCATCTGTTCATGCATTTTTAGTGATGACATAC
1 TTTCATGCCTTAATGCATCTGTTCATGCATTTTTAGTTATGACATCC
** * * * ** *
929519 TTTCATGTTTTAAAGTATCTTTTCATGCA-TTTTAGTTATGGTATTC
1 TTTCATGCCTTAATGCATCTGTTCATGCATTTTTAGTTATGACATCC
* *
929565 TTTCATGCCTTAATGCATCCGTTCATGCATTTTTAGTTATGGCATCC
1 TTTCATGCCTTAATGCATCTGTTCATGCATTTTTAGTTATGACATCC
* *
929612 TTTCATGCCTTAATGCATCCGTTCATGCATTTTTAGTTATGACATTC
1 TTTCATGCCTTAATGCATCTGTTCATGCATTTTTAGTTATGACATCC
* *
929659 TTTCATGCCTTAATGCATCCT-TTTATGCATTTTTAGTTATGGCATCC
1 TTTCATGCCTTAATGCAT-CTGTTCATGCATTTTTAGTTATGACATCC
* * *
929706 TTTCATACCTTAATGCAT-TCATTCATGCATTTTTAGTTATGGCATCC
1 TTTCATGCCTTAATGCATCT-GTTCATGCATTTTTAGTTATGACATCC
*
929753 TTTCATGCCTTAATGCAT-TCGTTCATGCATTTTTAGTTATGACATCA
1 TTTCATGCCTTAATGCATCT-GTTCATGCATTTTTAGTTATGACATCC
*
929800 TTTCATGCCTTAATGCATATGTTCATGCATTTTTAGTTATGA
1 TTTCATGCCTTAATGCATCTGTTCATGCATTTTTAGTTATGA
929842 ATTCGGTTTA
Statistics
Matches: 289, Mismatches: 29, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
45 1 0.00
46 36 0.12
47 250 0.87
48 2 0.01
ACGTcount: A:0.22, C:0.19, G:0.13, T:0.46
Consensus pattern (47 bp):
TTTCATGCCTTAATGCATCTGTTCATGCATTTTTAGTTATGACATCC
Found at i:929591 original size:20 final size:20
Alignment explanation
Indices: 929566--929639 Score: 67
Period size: 20 Copynumber: 3.4 Consensus size: 20
929556 ATGGTATTCT
929566 TTCATGCCTTAATGCATCCG
1 TTCATGCCTTAATGCATCCG
* *
929586 TTCATGCATTTTTAGTTATGGCATCCT
1 TTCATGC---CTTA---AT-GCATCCG
929613 TTCATGCCTTAATGCATCCG
1 TTCATGCCTTAATGCATCCG
929633 TTCATGC
1 TTCATGC
929640 ATTTTTAGTT
Statistics
Matches: 43, Mismatches: 4, Indels: 14
0.70 0.07 0.23
Matches are distributed among these distances:
20 20 0.47
21 2 0.05
23 3 0.07
24 3 0.07
26 2 0.05
27 13 0.30
ACGTcount: A:0.19, C:0.26, G:0.15, T:0.41
Consensus pattern (20 bp):
TTCATGCCTTAATGCATCCG
Found at i:929751 original size:141 final size:140
Alignment explanation
Indices: 929461--929840 Score: 557
Period size: 141 Copynumber: 2.7 Consensus size: 140
929451 TTAATTTCAT
* * * * *
929461 TTATGGCCTCTTTTCATGCCTTAATGCATCTGTTCATGCATTTTTAGTGATGACATACTTTCATG
1 TTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTTAGTTATGACATTCTTTCATG
** * * * * * *
929526 TTTTAAAGTATCTTTTCATGCA-TTTTAGTTATGGTATTCTTTCATGCCTTAATGCATCCGTTCA
66 CCTTAATGCATCTTTT-ATGCATTTTTAGTTATGGCATCCTTTCATACCTTAATGCATCCATTCA
929590 TGCATTTTTAG
130 TGCATTTTTAG
929601 TTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTTAGTTATGACATTCTTTCATG
1 TTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTTAGTTATGACATTCTTTCATG
*
929666 CCTTAATGCATCCTTTTATGCATTTTTAGTTATGGCATCCTTTCATACCTTAATGCATTCATTCA
66 CCTTAATGCAT-CTTTTATGCATTTTTAGTTATGGCATCCTTTCATACCTTAATGCATCCATTCA
929731 TGCATTTTTAG
130 TGCATTTTTAG
*
929742 TTATGGCATCCTTTCATGCCTTAATGCATTCGTTCATGCATTTTTAGTTATGACA-TCATTTCAT
1 TTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTTAGTTATGACATTC-TTTCAT
* *
929806 GCCTTAATGCATATGTTCATGCATTTTTAGTTATG
65 GCCTTAATGCATCT-TTTATGCATTTTTAGTTATG
929841 AATTCGGTTT
Statistics
Matches: 219, Mismatches: 17, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
140 75 0.34
141 144 0.66
ACGTcount: A:0.21, C:0.19, G:0.13, T:0.46
Consensus pattern (140 bp):
TTATGGCATCCTTTCATGCCTTAATGCATCCGTTCATGCATTTTTAGTTATGACATTCTTTCATG
CCTTAATGCATCTTTTATGCATTTTTAGTTATGGCATCCTTTCATACCTTAATGCATCCATTCAT
GCATTTTTAG
Found at i:930545 original size:20 final size:19
Alignment explanation
Indices: 930513--930551 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
930503 CTATTTACAC
*
930513 CTATAGTATCGATACCATT
1 CTATAGTACCGATACCATT
930532 CTATCAGTACCGATACCATT
1 CTAT-AGTACCGATACCATT
930552 GCCATGATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.31, C:0.26, G:0.10, T:0.33
Consensus pattern (19 bp):
CTATAGTACCGATACCATT
Found at i:933145 original size:195 final size:194
Alignment explanation
Indices: 932704--933101 Score: 643
Period size: 195 Copynumber: 2.0 Consensus size: 194
932694 TTTTAGAGTC
* * * **
932704 TAAATAATCTACCCAAAACAACATCATTTTGGGAGGGTTTAAATACCATGTTTTCACCCTTTCCT
1 TAAATAATCGA-CCAAAACAACATCATTATAGGAGACTTTAAATACCATGTTTTCACCCTTTCCT
932769 TTTCTTTTATTGCCTTCTTTAAGAATGGCGGTTAGGCATCGTCGGTCTACATATCGTTGTCGTCA
65 TTTCTTTTATTGCCTTCTTTAAGAATGGCGGTTAGGCATCGTCGGTCTACATATCGTTGTCGTCA
932834 TTATCGTTACAAAAAAGCTGTTACATGTACGTAGGCATCCTACCTCAACAAGATCTTTATGATTT
130 TTATCGTTACAAAAAAGCTGTTACATGTACGTAGGCATCCTACCTCAACAAGATCTTTATGATTT
* * * **
932899 TAAATAATCTACCCAAAACAACATCATTTTGGGAGGGTTTAAATACCATGTTTTCACCCTTTCCT
1 TAAATAATCGA-CCAAAACAACATCATTATAGGAGACTTTAAATACCATGTTTTCACCCTTTCCT
932964 TTTCTTTTATTGCCTTCTCTTTAAGAATGGCGGTTAGGCATCGTCGGTCTACCATTATCGTTGTC
65 TTTCTTTTATTGCC-T-TCTTTAAGAATGGCGGTTAGGCATCGTCGGTCTA-CA-TATCGTTGTC
933029 GTCATTATCGTTACAAAACAAGCTGTTACATGTACGTAGGCATCCTACCTCAACAAGATCTTTAT
126 GTCATTATCGTTACAAAA-AAGCTGTTACATGTACGTAGGCATCCTACCTCAACAAGATCTTTAT
933094 GATTT
190 GATTT
933099 TAA
1 TAA
933102 GGTTAACGAC
Statistics
Matches: 198, Mismatches: 0, Indels: 5
0.98 0.00 0.02
Matches are distributed among these distances:
195 79 0.40
196 1 0.01
197 34 0.17
198 2 0.01
199 28 0.14
200 54 0.27
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.36
Consensus pattern (194 bp):
TAAATAATCGACCAAAACAACATCATTATAGGAGACTTTAAATACCATGTTTTCACCCTTTCCTT
TTCTTTTATTGCCTTCTTTAAGAATGGCGGTTAGGCATCGTCGGTCTACATATCGTTGTCGTCAT
TATCGTTACAAAAAAGCTGTTACATGTACGTAGGCATCCTACCTCAACAAGATCTTTATGATTT
Found at i:936668 original size:21 final size:21
Alignment explanation
Indices: 936644--936685 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
936634 AGTTTATTTT
936644 TAAACTTTGTTTCAATTATCG
1 TAAACTTTGTTTCAATTATCG
936665 TAAACTTTGTTTCAATTATCG
1 TAAACTTTGTTTCAATTATCG
936686 AACTTAGAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.14, G:0.10, T:0.48
Consensus pattern (21 bp):
TAAACTTTGTTTCAATTATCG
Found at i:936722 original size:33 final size:32
Alignment explanation
Indices: 936674--936750 Score: 118
Period size: 33 Copynumber: 2.4 Consensus size: 32
936664 GTAAACTTTG
* *
936674 TTTCAATTATCGAACTTAGAAGTTTTTAAGTA
1 TTTCAATTATCGAACTTAGAAATATTTAAGTA
*
936706 TTTGAATTTATCGAACTTAGAAATATTTAAGTA
1 TTTCAA-TTATCGAACTTAGAAATATTTAAGTA
936739 TTTCAATTATCG
1 TTTCAATTATCG
936751 TAAACTTTGT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
32 11 0.28
33 29 0.73
ACGTcount: A:0.35, C:0.09, G:0.12, T:0.44
Consensus pattern (32 bp):
TTTCAATTATCGAACTTAGAAATATTTAAGTA
Found at i:937203 original size:16 final size:17
Alignment explanation
Indices: 937157--937197 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
937147 TTATATCTGG
*
937157 TTTTTTTAAAAAACCGA
1 TTTTTTTAAAAACCCGA
937174 TTTTTTTAAAAACCCGA
1 TTTTTTTAAAAACCCGA
937191 TTTTTTT
1 TTTTTTT
937198 CAAACCGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.32, C:0.12, G:0.05, T:0.51
Consensus pattern (17 bp):
TTTTTTTAAAAACCCGA
Found at i:937725 original size:2 final size:2
Alignment explanation
Indices: 937666--937708 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
937656 GTTTTAGCTT
937666 TA TA TA TA TA TA TA TA TA TA TA TA 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
937708 T
1 T
937709 CAATCATCTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:938590 original size:20 final size:18
Alignment explanation
Indices: 938545--938599 Score: 58
Period size: 20 Copynumber: 2.9 Consensus size: 18
938535 TTAATAGTGT
*
938545 TTTTATA-TTTTTTTAAT
1 TTTTATATTTTTTTTAAA
938562 TTTTAATATTTTGTTTTACAA
1 TTTT-ATATTTT-TTTTA-AA
938583 TTTTATATTTTTATTTA
1 TTTTATATTTTT-TTTA
938600 TTTATTTCTT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
17 4 0.12
18 3 0.09
19 4 0.12
20 16 0.50
21 5 0.16
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (18 bp):
TTTTATATTTTTTTTAAA
Found at i:944025 original size:14 final size:14
Alignment explanation
Indices: 944008--944034 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
943998 TAAAAAAATA
944008 ATATTTAAAATTTG
1 ATATTTAAAATTTG
944022 ATATTTAAAATTT
1 ATATTTAAAATTT
944035 ATTTTATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (14 bp):
ATATTTAAAATTTG
Found at i:946200 original size:65 final size:65
Alignment explanation
Indices: 946103--946292 Score: 263
Period size: 65 Copynumber: 2.9 Consensus size: 65
946093 TACACTCTTG
** * * *
946103 ATGCATCGATACACTCCTTATTTTATTAAAACATCGAATGCATTTTGTGTACTGATGCACAGACA
1 ATGCATCGATACACTCCTGGTTCTATTGAAACATCGAATGCATTTTGTGTACTGATGCACAAACA
* *
946168 ATGCATCGATATACTCCTGGTTCTATTGAAACATCGAATGCATTTTGTGTACTGATGCACAAATA
1 ATGCATCGATACACTCCTGGTTCTATTGAAACATCGAATGCATTTTGTGTACTGATGCACAAACA
* * * * * *
946233 ATGCATCGATACACTCCTGGCTCTTTTGAAACATCGAATGTAATTAGTGTACCGATGCAC
1 ATGCATCGATACACTCCTGGTTCTATTGAAACATCGAATGCATTTTGTGTACTGATGCAC
946293 CCCAAGTGTA
Statistics
Matches: 111, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
65 111 1.00
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.33
Consensus pattern (65 bp):
ATGCATCGATACACTCCTGGTTCTATTGAAACATCGAATGCATTTTGTGTACTGATGCACAAACA
Found at i:952081 original size:21 final size:21
Alignment explanation
Indices: 952052--952134 Score: 69
Period size: 21 Copynumber: 3.8 Consensus size: 21
952042 TTGACATTTT
*
952052 TGTGCAAAGTGCATCGATACAC
1 TGTG-AAAGTGCACCGATACAC
* *
952074 TGTGAAAGTGTACCGATGCATTCC
1 TGTGAAAGTGCACCGATACA---C
* *
952098 T-TGAATGTGCATCGATACAC
1 TGTGAAAGTGCACCGATACAC
*
952118 TATGAAAGTGCACCGAT
1 TGTGAAAGTGCACCGAT
952135 GCATTACTTG
Statistics
Matches: 48, Mismatches: 9, Indels: 9
0.73 0.14 0.14
Matches are distributed among these distances:
20 2 0.04
21 26 0.54
22 4 0.08
23 14 0.29
24 2 0.04
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (21 bp):
TGTGAAAGTGCACCGATACAC
Found at i:952113 original size:23 final size:22
Alignment explanation
Indices: 952087--952157 Score: 65
Period size: 23 Copynumber: 3.2 Consensus size: 22
952077 GAAAGTGTAC
952087 CGATGCATTCCTTGAATGTGCAT
1 CGATGCATT-CTTGAATGTGCAT
* * *
952110 CGATACA--CTATGAAAGTGCAC
1 CGATGCATTCT-TGAATGTGCAT
*
952131 CGATGCATTACTTGAATGTGTAT
1 CGATGCATT-CTTGAATGTGCAT
952154 CGAT
1 CGAT
952158 ACACTCAGAA
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
20 2 0.05
21 15 0.41
23 18 0.49
24 2 0.05
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (22 bp):
CGATGCATTCTTGAATGTGCAT
Found at i:952124 original size:44 final size:44
Alignment explanation
Indices: 952060--952177 Score: 177
Period size: 44 Copynumber: 2.7 Consensus size: 44
952050 TTTGTGCAAA
* *
952060 GTGCATCGATACACTGTGAAAGTGTACCGATGCATTCCTTGAAT
1 GTGCATCGATACACTATGAAAGTGTACCGATGCATTACTTGAAT
*
952104 GTGCATCGATACACTATGAAAGTGCACCGATGCATTACTTGAAT
1 GTGCATCGATACACTATGAAAGTGTACCGATGCATTACTTGAAT
*
952148 GTGTATCGATACACTCA-G-AAGTGTACCGAT
1 GTGCATCGATACACT-ATGAAAGTGTACCGAT
952178 ACACTCGTCG
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
43 11 0.16
44 56 0.82
45 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (44 bp):
GTGCATCGATACACTATGAAAGTGTACCGATGCATTACTTGAAT
Found at i:954444 original size:13 final size:14
Alignment explanation
Indices: 954422--954456 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
954412 AGGGGGAGTA
954422 ATTTTC-AAAATTG
1 ATTTTCAAAAATTG
954435 A-TTTCAAAAATTG
1 ATTTTCAAAAATTG
954448 ATTTTCAAA
1 ATTTTCAAA
954457 GAAAATCTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 4 0.20
13 9 0.45
14 7 0.35
ACGTcount: A:0.43, C:0.09, G:0.06, T:0.43
Consensus pattern (14 bp):
ATTTTCAAAAATTG
Found at i:954771 original size:65 final size:65
Alignment explanation
Indices: 954619--954776 Score: 212
Period size: 65 Copynumber: 2.4 Consensus size: 65
954609 TATTCGATTA
* *
954619 AAACATCGAATGCATTTTGTGTACCGATGCACAGACAATGCATCGATACACTCATGGTTTTATTG
1 AAACATCGAATGCATTTTGTGTACCGATACACAGACAACGCATCGATACACTCATGGTTTTATTG
* * *
954684 AAACATCGAATACATTTTGTGTACCGATACACATACAACGCATCGATACACTCCT-GTCTCTT-T
1 AAACATCGAATGCATTTTGTGTACCGATACACAGACAACGCATCGATACACTCATGGT-T-TTAT
954747 TG
64 TG
* * *
954749 AAACATCGAATGTAATTAGTGTACCGAT
1 AAACATCGAATGCATTTTGTGTACCGAT
954777 GCACCGCAAG
Statistics
Matches: 82, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
64 2 0.02
65 78 0.95
66 2 0.02
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (65 bp):
AAACATCGAATGCATTTTGTGTACCGATACACAGACAACGCATCGATACACTCATGGTTTTATTG
Found at i:956887 original size:23 final size:22
Alignment explanation
Indices: 956819--956887 Score: 61
Period size: 23 Copynumber: 3.0 Consensus size: 22
956809 AATTAGGTCC
956819 TTATTTTATGTTTATTT-TATTTT
1 TTATTTTATG-TTATTTAT-TTTT
*
956842 TTATTCTATGTT-TTTACTGTTTT
1 TTATTTTATGTTATTTA-T-TTTT
*
956865 TTATTTTTTGTTAGTTTATTTTT
1 TTATTTTATGTTA-TTTATTTTT
956888 AAAATTCGAT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
21 3 0.08
22 2 0.05
23 28 0.74
24 1 0.03
25 4 0.11
ACGTcount: A:0.14, C:0.03, G:0.07, T:0.75
Consensus pattern (22 bp):
TTATTTTATGTTATTTATTTTT
Found at i:966343 original size:30 final size:32
Alignment explanation
Indices: 966309--966377 Score: 74
Period size: 30 Copynumber: 2.2 Consensus size: 32
966299 ACTTTCTTTT
966309 ATTTTCTCATAATTTAG-TCC-T-TATA-TTTAA
1 ATTTTCTCAT-ATTTAGATCCTTGTATAGTTT-A
* *
966339 ATTTTATTATATTTAGATCCTTGTATAGTTTA
1 ATTTTCTCATATTTAGATCCTTGTATAGTTTA
966371 ATTTTCT
1 ATTTTCT
966378 TTATTATTTG
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
29 6 0.19
30 11 0.34
31 1 0.03
32 11 0.34
33 3 0.09
ACGTcount: A:0.28, C:0.10, G:0.06, T:0.57
Consensus pattern (32 bp):
ATTTTCTCATATTTAGATCCTTGTATAGTTTA
Found at i:966415 original size:34 final size:29
Alignment explanation
Indices: 966377--966449 Score: 85
Period size: 29 Copynumber: 2.4 Consensus size: 29
966367 TTTAATTTTC
*
966377 TTTATTATTTGTATTTTTTATTATTTTGTTTAAT
1 TTTATTA-TT-TATTTATT-TTATTTTG--TAAT
966411 TTTATTATTTATTTATTTTATTTTGTAAT
1 TTTATTATTTATTTATTTTATTTTGTAAT
966440 TTTATT-TTTA
1 TTTATTATTTA
966450 ATTAGGATTA
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
28 4 0.11
29 10 0.26
31 8 0.21
32 7 0.18
33 2 0.05
34 7 0.18
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.74
Consensus pattern (29 bp):
TTTATTATTTATTTATTTTATTTTGTAAT
Found at i:966430 original size:16 final size:16
Alignment explanation
Indices: 966377--966432 Score: 69
Period size: 16 Copynumber: 3.4 Consensus size: 16
966367 TTTAATTTTC
966377 TTTATTATTTGTATT-T
1 TTTATTATTTGT-TTAT
966393 TTTATTATTTTGTTTAAT
1 TTTATTA-TTTGTTT-AT
*
966411 TTTATTATTTATTTAT
1 TTTATTATTTGTTTAT
966427 TTTATT
1 TTTATT
966433 TTGTAATTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
16 17 0.47
17 11 0.31
18 8 0.22
ACGTcount: A:0.21, C:0.00, G:0.04, T:0.75
Consensus pattern (16 bp):
TTTATTATTTGTTTAT
Found at i:966447 original size:13 final size:12
Alignment explanation
Indices: 966367--966452 Score: 59
Period size: 13 Copynumber: 6.6 Consensus size: 12
966357 CCTTGTATAG
*
966367 TTTAATTTTCTT
1 TTTAATTTTATT
966379 TATT-ATTTGTATT
1 T-TTAATTT-TATT
*
966392 TTTTATTATT-TT
1 TTTAATT-TTATT
966404 GTTTAATTTTATT
1 -TTTAATTTTATT
966417 ATTTATTTATTTTATT
1 -TTTA---ATTTTATT
966433 TTGTAATTTTATT
1 TT-TAATTTTATT
966446 TTTAATT
1 TTTAATT
966453 AGGATTAACA
Statistics
Matches: 61, Mismatches: 3, Indels: 20
0.73 0.04 0.24
Matches are distributed among these distances:
12 16 0.26
13 32 0.52
14 1 0.02
15 2 0.03
16 10 0.16
ACGTcount: A:0.22, C:0.01, G:0.03, T:0.73
Consensus pattern (12 bp):
TTTAATTTTATT
Found at i:968644 original size:18 final size:18
Alignment explanation
Indices: 968623--968670 Score: 96
Period size: 18 Copynumber: 2.7 Consensus size: 18
968613 AAACTCGGTA
968623 TTTTATTAAAATAAAATG
1 TTTTATTAAAATAAAATG
968641 TTTTATTAAAATAAAATG
1 TTTTATTAAAATAAAATG
968659 TTTTATTAAAAT
1 TTTTATTAAAAT
968671 CACTCAGTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (18 bp):
TTTTATTAAAATAAAATG
Found at i:970440 original size:18 final size:20
Alignment explanation
Indices: 970417--970456 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
970407 TGTATTTACC
970417 TTTATA-TCTT-ACTTGTTT
1 TTTATACTCTTAACTTGTTT
970435 TTTATACGTCTTAACTTGTTT
1 TTTATAC-TCTTAACTTGTTT
970456 T
1 T
970457 CTTTTTGTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.32
20 4 0.21
21 9 0.47
ACGTcount: A:0.17, C:0.12, G:0.07, T:0.62
Consensus pattern (20 bp):
TTTATACTCTTAACTTGTTT
Found at i:973413 original size:2 final size:2
Alignment explanation
Indices: 973406--973469 Score: 128
Period size: 2 Copynumber: 32.0 Consensus size: 2
973396 ATTTATCCTA
973406 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
973448 AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
973470 GTATCCATTG
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 62 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:973802 original size:7 final size:7
Alignment explanation
Indices: 973774--973881 Score: 94
Period size: 7 Copynumber: 14.4 Consensus size: 7
973764 CCATCAGGAA
973774 AAAAAGAG
1 AAAAA-AG
973782 AAAACAAG
1 AAAA-AAG
973790 AAAAAA-
1 AAAAAAG
973796 AAGAAAA-
1 AA-AAAAG
*
973803 AAAGAAAA
1 AAA-AAAG
973811 AAAAAAG
1 AAAAAAG
973818 ATAAAAAG
1 A-AAAAAG
973826 ATAAAAAG
1 A-AAAAAG
973834 ATAAAAAAG
1 --AAAAAAG
*
973843 ATAAAAG
1 AAAAAAG
*
973850 ATAAAAG
1 AAAAAAG
973857 AAAAAAG
1 AAAAAAG
973864 AAAAGAAG
1 AAAA-AAG
973872 AAAAAAG
1 AAAAAAG
973879 AAA
1 AAA
973882 TTTAATCAAG
Statistics
Matches: 89, Mismatches: 3, Indels: 17
0.82 0.03 0.16
Matches are distributed among these distances:
6 3 0.03
7 44 0.49
8 34 0.38
9 7 0.08
10 1 0.01
ACGTcount: A:0.81, C:0.01, G:0.14, T:0.05
Consensus pattern (7 bp):
AAAAAAG
Found at i:982918 original size:111 final size:110
Alignment explanation
Indices: 982608--983022 Score: 580
Period size: 109 Copynumber: 3.8 Consensus size: 110
982598 AAAAAATTAA
* * * **
982608 AGAAACTAAGCCTGATTTTTAGGGGTTTCTTGATGATGATTTTCAATGAATTCTTAAGAGAAATT
1 AGAAACTAAGCCTGATTTTCAGGGGTTTCTTGATGATGATTTTCAAAGAATTCTTAAAAGAAGCT
* *
982673 AAGCCTAATTTTTAGGGGTTTCTTGAAGTTTTCAAATGCGTTTTT
66 AAGCCTAATTTTTAGGGGTTTCTTGATGTTTTCAAATGAGTTTTT
* * * *
982718 AGAAA-TAAGCTTTATTTTTAGGGGTTTCTTGATGATGATTTTCAATGAATTCTTAAAAGAAGCT
1 AGAAACTAAGCCTGATTTTCAGGGGTTTCTTGATGATGATTTTCAAAGAATTCTTAAAAGAAGCT
*
982782 AAGCCTAATTTTTAGGGGTTTCTTGATGTTTTCAAATGAATTTTT
66 AAGCCTAATTTTTAGGGGTTTCTTGATGTTTTCAAATGAGTTTTT
* * *
982827 AGAAACTAAGCCTGATTTTCAGTGGTTTCTTGATTATGATTTTCAAAGAATTTTGTAAAAGAAGC
1 AGAAACTAAGCCTGATTTTCAGGGGTTTCTTGATGATGATTTTCAAAGAATTCT-TAAAAGAAGC
*
982892 TAAGCCTAATTTTTAGGGGTTTCTTGATGTTTTCTAATGAGTTTTT
65 TAAGCCTAATTTTTAGGGGTTTCTTGATGTTTTCAAATGAGTTTTT
* * * * * * * ***
982938 AGAAACTAAGCCTGATTTTCAAGGGTTTCTTGATGGTTATCTCCAAAGAATTTTTAAATGAATAA
1 AGAAACTAAGCCTGATTTTCAGGGGTTTCTTGATGATGATTTTCAAAGAATTCTTAAAAGAAGCT
983003 AAGCCTAATTTTTAGGGGTT
66 AAGCCTAATTTTTAGGGGTT
983023 CCTTCATGAT
Statistics
Matches: 275, Mismatches: 28, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
109 101 0.37
110 73 0.27
111 101 0.37
ACGTcount: A:0.29, C:0.10, G:0.19, T:0.42
Consensus pattern (110 bp):
AGAAACTAAGCCTGATTTTCAGGGGTTTCTTGATGATGATTTTCAAAGAATTCTTAAAAGAAGCT
AAGCCTAATTTTTAGGGGTTTCTTGATGTTTTCAAATGAGTTTTT
Found at i:983197 original size:41 final size:42
Alignment explanation
Indices: 983101--983197 Score: 108
Period size: 42 Copynumber: 2.3 Consensus size: 42
983091 TAAGTCCTTC
* *
983101 GGGCCAT-CAGTAAGTCTTTCGAGCATGATGCTTAAATCATTT
1 GGGCCATCCA-TAAGTCTTTCGAGCAAGATGCATAAATCATTT
* * * **
983143 GGGTCATCTATAAGTCTTTCGAGCAAGATG-ATAAGTTTTTT
1 GGGCCATCCATAAGTCTTTCGAGCAAGATGCATAAATCATTT
983184 GGGCCATCCATAAG
1 GGGCCATCCATAAG
983198 ACCTTTGGAC
Statistics
Matches: 45, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
41 19 0.42
42 25 0.56
43 1 0.02
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.33
Consensus pattern (42 bp):
GGGCCATCCATAAGTCTTTCGAGCAAGATGCATAAATCATTT
Found at i:983461 original size:296 final size:296
Alignment explanation
Indices: 982921--983470 Score: 879
Period size: 296 Copynumber: 1.9 Consensus size: 296
982911 TTTCTTGATG
* * *
982921 TTTTCTAATGAGTTTTTAGAAACTAAGCCTGATTTTCAAGGGTTTCTTGATGGTTATCTCCAAAG
1 TTTTCAAATGAGTTTTTAGAAACTAAGCCAGATTTTCAAGGGTTTCTTGATGATTATCTCCAAAG
* * *
982986 AATTTTTAAATGAATAAAAGCCTAATTTTTAGGGGTTCCTTCATGATAACTGAAAACAAAATATT
66 AATTTTTAAAGGAATAAAAGCCTAATTTTTAGGGGTTCCTTCATGACAACTGAAAACAAAAGATT
* *
983051 TTAAGAAACTAAGCATGATTTTCAAGGGTTTCTTGATGAGTAAGTCCTTCGGGCCATCAGTAAGT
131 TTAAGAAAATAAGCATGATTTTCAAGGGTTTCTTGATGAGTAAGTCCTTCGAGCCATCAGTAAGT
*
983116 CTTTCGAGCATGATGCTTAAATCATTTGGGTCATCTATAAGTCTTTCGAGCAAGATGATAAGTTT
196 CTTTCGAGCATGATGCTTAAATCATTCGGGTCATCTATAAGTCTTTCGAGCAAGATGATAAGTTT
983181 TTTGGGCCATCCATAAGACCTTTGGACATGATTTTT
261 TTTGGGCCATCCATAAGACCTTTGGACATGATTTTT
* *
983217 TTTTCAAATGAGTTTTT-GAAAATTAAGCCAGATTTTCAGGGGTTTCTTGATGATTATCTCCAAA
1 TTTTCAAATGAGTTTTTAG-AAACTAAGCCAGATTTTCAAGGGTTTCTTGATGATTATCTCCAAA
** * * *
983281 GAATTTTTAAAGGAATCTAAGCGTAATTTTTAGGGGTTCCTTGATGACAACTGAAAACGAAAGAT
65 GAATTTTTAAAGGAATAAAAGCCTAATTTTTAGGGGTTCCTTCATGACAACTGAAAACAAAAGAT
* * *
983346 TTTAAGAAAATAAG-ATTTATTTTCAATGGTTTCTTGATGAGTAAGTCCTTTGAGCCATCAGTAA
130 TTTAAGAAAATAAGCA-TGATTTTCAAGGGTTTCTTGATGAGTAAGTCCTTCGAGCCATCAGTAA
* *
983410 GTCTTTCGAGCATTATGCTTAAATCCTTCGGGTCATCTATAAGTCTTTCGAGCAAGATGAT
194 GTCTTTCGAGCATGATGCTTAAATCATTCGGGTCATCTATAAGTCTTTCGAGCAAGATGAT
983471 TAGTCCTTCG
Statistics
Matches: 231, Mismatches: 21, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
295 2 0.01
296 229 0.99
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.37
Consensus pattern (296 bp):
TTTTCAAATGAGTTTTTAGAAACTAAGCCAGATTTTCAAGGGTTTCTTGATGATTATCTCCAAAG
AATTTTTAAAGGAATAAAAGCCTAATTTTTAGGGGTTCCTTCATGACAACTGAAAACAAAAGATT
TTAAGAAAATAAGCATGATTTTCAAGGGTTTCTTGATGAGTAAGTCCTTCGAGCCATCAGTAAGT
CTTTCGAGCATGATGCTTAAATCATTCGGGTCATCTATAAGTCTTTCGAGCAAGATGATAAGTTT
TTTGGGCCATCCATAAGACCTTTGGACATGATTTTT
Found at i:983632 original size:52 final size:52
Alignment explanation
Indices: 983486--983657 Score: 211
Period size: 52 Copynumber: 3.2 Consensus size: 52
983476 CTTCGGGCAG
* * * *
983486 GATGTTTTCAAATGAGTTTTTAGAAACTAAGCATGATTTTTAGGGTTTTCTT
1 GATGTTTTCAAAAGAGTTTTTAGAAACTAAGCCTAATTTTTAGGGGTTTCTT
* * *
983538 GATGATTATCTCCAAAGA-TTTTTAAAAAGAAGCTAACCCTAATTTTTAGGGGTTTCTT
1 GATG-TT-T-TCAAAAGAGTTTTT----AGAAACTAAGCCTAATTTTTAGGGGTTTCTT
983596 GATGTTTTCAAAAGAGTTTTTAGAAACTAAGCCTAATTTTTAGGGGTTTCTT
1 GATGTTTTCAAAAGAGTTTTTAGAAACTAAGCCTAATTTTTAGGGGTTTCTT
983648 GATGTTTTCA
1 GATGTTTTCA
983658 CAGACTTAGT
Statistics
Matches: 102, Mismatches: 10, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
52 43 0.42
53 2 0.02
54 6 0.06
55 13 0.13
56 6 0.06
57 2 0.02
58 30 0.29
ACGTcount: A:0.29, C:0.10, G:0.18, T:0.42
Consensus pattern (52 bp):
GATGTTTTCAAAAGAGTTTTTAGAAACTAAGCCTAATTTTTAGGGGTTTCTT
Found at i:984087 original size:23 final size:23
Alignment explanation
Indices: 984035--984121 Score: 86
Period size: 23 Copynumber: 3.8 Consensus size: 23
984025 TGCCATATAA
* * * * *
984035 AATTGTCCTGAAAGACCTCGTAT
1 AATTGTCCCGAAGGACCACATAG
984058 AATTGTCCCGAAGGACCACATAG
1 AATTGTCCCGAAGGACCACATAG
* *
984081 AGA-TGTCTCGAAAGACCACATAG
1 A-ATTGTCCCGAAGGACCACATAG
*
984104 AATTGTCCCTAAGGACCA
1 AATTGTCCCGAAGGACCA
984122 TATATATGTT
Statistics
Matches: 52, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
22 1 0.02
23 50 0.96
24 1 0.02
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.22
Consensus pattern (23 bp):
AATTGTCCCGAAGGACCACATAG
Found at i:984141 original size:21 final size:21
Alignment explanation
Indices: 984117--984178 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 21
984107 TGTCCCTAAG
*
984117 GACCATATATATGTTCCAAAA
1 GACCAAATATATGTTCCAAAA
* * *
984138 GACCAAATATATGTCCCGAAT
1 GACCAAATATATGTTCCAAAA
***
984159 GACTGCATATATGTTCCAAA
1 GACCAAATATATGTTCCAAA
984179 GGTTCACATA
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.39, C:0.21, G:0.13, T:0.27
Consensus pattern (21 bp):
GACCAAATATATGTTCCAAAA
Found at i:984169 original size:42 final size:42
Alignment explanation
Indices: 984123--984203 Score: 117
Period size: 42 Copynumber: 1.9 Consensus size: 42
984113 TAAGGACCAT
984123 ATATATGTTCCAAAAGACCAAATATATGTCCCGAATGACTGC
1 ATATATGTTCCAAAAGACCAAATATATGTCCCGAATGACTGC
* ** * *
984165 ATATATGTTCCAAAGGTTCACATATATGTCTCGAATGAC
1 ATATATGTTCCAAAAGACCAAATATATGTCCCGAATGAC
984204 CATGTAGAAC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.30
Consensus pattern (42 bp):
ATATATGTTCCAAAAGACCAAATATATGTCCCGAATGACTGC
Found at i:988411 original size:23 final size:23
Alignment explanation
Indices: 988376--988487 Score: 104
Period size: 23 Copynumber: 5.0 Consensus size: 23
988366 TGCCATATAA
* * * *
988376 AATTATCCTGAAGGACCTCGTAG
1 AATTGTCCCGAAGGACCACATAG
988399 AATTGTCCCGAAGGACCACATA-
1 AATTGTCCCGAAGGACCACATAG
* *
988421 TA-TGTCCCGAAGGACCACGTAG
1 AATTGTCCCGAAGGACCACATAG
*
988443 AGA-TGTCCCGAAAGACCACATAG
1 A-ATTGTCCCGAAGGACCACATAG
* * *
988466 ATTTGTCCCTAAAGACCACATA
1 AATTGTCCCGAAGGACCACATA
988488 TATGTTCCAA
Statistics
Matches: 75, Mismatches: 11, Indels: 6
0.82 0.12 0.07
Matches are distributed among these distances:
21 18 0.24
22 1 0.01
23 56 0.75
ACGTcount: A:0.34, C:0.26, G:0.20, T:0.21
Consensus pattern (23 bp):
AATTGTCCCGAAGGACCACATAG
Found at i:988428 original size:21 final size:21
Alignment explanation
Indices: 988402--988501 Score: 92
Period size: 23 Copynumber: 4.6 Consensus size: 21
988392 CTCGTAGAAT
988402 TGTCCCGAAGGACCACATATA
1 TGTCCCGAAGGACCACATATA
* *
988423 TGTCCCGAAGGACCACGTAGAGA
1 TGTCCCGAAGGACCAC--ATATA
* *
988446 TGTCCCGAAAGACCACATAGATT
1 TGTCCCGAAGGACCACAT--ATA
* *
988469 TGTCCCTAAAGACCACATATA
1 TGTCCCGAAGGACCACATATA
* *
988490 TGTTCCAAAGGA
1 TGTCCCGAAGGA
988502 TATGTCCCGA
Statistics
Matches: 64, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
21 28 0.44
23 36 0.56
ACGTcount: A:0.34, C:0.26, G:0.20, T:0.20
Consensus pattern (21 bp):
TGTCCCGAAGGACCACATATA
Found at i:1012460 original size:32 final size:32
Alignment explanation
Indices: 1012390--1012462 Score: 92
Period size: 32 Copynumber: 2.3 Consensus size: 32
1012380 CCTAAGGTGA
* *
1012390 CCCTTGGGTAGGCTCTGAGGCCCCGAGAAACT
1 CCCTTGGGTAGGCTCTCAGGCCCCAAGAAACT
** **
1012422 TTCTTGGGTAGGCTCTCAGGCCCCAAGGCACT
1 CCCTTGGGTAGGCTCTCAGGCCCCAAGAAACT
1012454 CCCTTGGGT
1 CCCTTGGGT
1012463 TAATCATGGG
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.15, C:0.32, G:0.30, T:0.23
Consensus pattern (32 bp):
CCCTTGGGTAGGCTCTCAGGCCCCAAGAAACT
Found at i:1015457 original size:13 final size:14
Alignment explanation
Indices: 1015439--1015469 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
1015429 GTCAAATGAA
1015439 GTCAACGGTC-ACG
1 GTCAACGGTCAACG
1015452 GTCAACGGTCAACG
1 GTCAACGGTCAACG
1015466 GTCA
1 GTCA
1015470 GGTCGGGTCG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.59
14 7 0.41
ACGTcount: A:0.26, C:0.29, G:0.29, T:0.16
Consensus pattern (14 bp):
GTCAACGGTCAACG
Found at i:1015459 original size:7 final size:7
Alignment explanation
Indices: 1015439--1015469 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
1015429 GTCAAATGAA
1015439 GTCAACG
1 GTCAACG
1015446 GTC-ACG
1 GTCAACG
1015452 GTCAACG
1 GTCAACG
1015459 GTCAACG
1 GTCAACG
1015466 GTCA
1 GTCA
1015470 GGTCGGGTCG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.26
7 17 0.74
ACGTcount: A:0.26, C:0.29, G:0.29, T:0.16
Consensus pattern (7 bp):
GTCAACG
Found at i:1015486 original size:22 final size:22
Alignment explanation
Indices: 1015458--1015500 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
1015448 CACGGTCAAC
1015458 GGTCAACGGTCAGGTCGGGTCG
1 GGTCAACGGTCAGGTCGGGTCG
*
1015480 GGTCAACGGTCGGGTCGGGTC
1 GGTCAACGGTCAGGTCGGGTC
1015501 AACGGTTGGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.12, C:0.23, G:0.47, T:0.19
Consensus pattern (22 bp):
GGTCAACGGTCAGGTCGGGTCG
Found at i:1015490 original size:17 final size:17
Alignment explanation
Indices: 1015470--1015516 Score: 85
Period size: 17 Copynumber: 2.8 Consensus size: 17
1015460 TCAACGGTCA
1015470 GGTCGGGTCGGGTCAAC
1 GGTCGGGTCGGGTCAAC
1015487 GGTCGGGTCGGGTCAAC
1 GGTCGGGTCGGGTCAAC
*
1015504 GGTTGGGTCGGGT
1 GGTCGGGTCGGGT
1015517 TAGTCGGGTC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.09, C:0.19, G:0.51, T:0.21
Consensus pattern (17 bp):
GGTCGGGTCGGGTCAAC
Found at i:1015512 original size:22 final size:20
Alignment explanation
Indices: 1015458--1015516 Score: 61
Period size: 17 Copynumber: 2.9 Consensus size: 20
1015448 CACGGTCAAC
1015458 GGTCAACGGTCAGGTCGGGTCG
1 GGTCAACGGT--GGTCGGGTCG
1015480 GGTCAAC---GGTCGGGTCG
1 GGTCAACGGTGGTCGGGTCG
1015497 GGTCAACGGTTGGGTCGGGT
1 GGTCAACGG-T-GGTCGGGT
1015517 TAGTCGGGTC
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
17 17 0.53
22 15 0.47
ACGTcount: A:0.12, C:0.20, G:0.47, T:0.20
Consensus pattern (20 bp):
GGTCAACGGTGGTCGGGTCG
Found at i:1015550 original size:19 final size:19
Alignment explanation
Indices: 1015528--1015578 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
1015518 AGTCGGGTCA
*
1015528 GGTCAAACTGGTTC-AGACC
1 GGTCAAACCGGTTCGA-ACC
*
1015547 GGTCAAACCGATTCGAACC
1 GGTCAAACCGGTTCGAACC
1015566 GGTCAAACCGGTT
1 GGTCAAACCGGTT
1015579 TTCAGTCCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 27 0.96
20 1 0.04
ACGTcount: A:0.27, C:0.27, G:0.25, T:0.20
Consensus pattern (19 bp):
GGTCAAACCGGTTCGAACC
Found at i:1022683 original size:5 final size:5
Alignment explanation
Indices: 1022673--1022715 Score: 59
Period size: 5 Copynumber: 8.2 Consensus size: 5
1022663 TCACGGTCAA
*
1022673 CGGGT CGGGT CAATGGT CGGGT CGGGT CGGGT CGGGT CGGGT C
1 CGGGT CGGGT C--GGGT CGGGT CGGGT CGGGT CGGGT CGGGT C
1022716 AGACCGGTCA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
5 30 0.88
7 4 0.12
ACGTcount: A:0.05, C:0.21, G:0.53, T:0.21
Consensus pattern (5 bp):
CGGGT
Found at i:1022707 original size:15 final size:16
Alignment explanation
Indices: 1022673--1022717 Score: 65
Period size: 15 Copynumber: 2.8 Consensus size: 16
1022663 TCACGGTCAA
*
1022673 CGGGTCGGGTCAATGGT
1 CGGGTCGGGTC-AGGGT
1022690 CGGGTCGGGTC-GGGT
1 CGGGTCGGGTCAGGGT
1022705 CGGGTCGGGTCAG
1 CGGGTCGGGTCAG
1022718 ACCGGTCAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 14 0.54
16 1 0.04
17 11 0.42
ACGTcount: A:0.07, C:0.20, G:0.53, T:0.20
Consensus pattern (16 bp):
CGGGTCGGGTCAGGGT
Found at i:1022730 original size:9 final size:9
Alignment explanation
Indices: 1022712--1022779 Score: 64
Period size: 9 Copynumber: 7.1 Consensus size: 9
1022702 GGTCGGGTCG
*
1022712 GGTCAGACC
1 GGTCAAACC
1022721 GGTCAAACC
1 GGTCAAACC
* *
1022730 GATTCGAACC
1 G-GTCAAACC
1022740 GGTCAAACC
1 GGTCAAACC
1022749 GGTCAGAACC
1 GGTCA-AACC
*
1022759 GGTTGAAAACC
1 GG-T-CAAACC
1022770 GGTCAAACC
1 GGTCAAACC
1022779 G
1 G
1022780 ATTTCCAGCC
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
9 26 0.54
10 14 0.29
11 7 0.15
12 1 0.02
ACGTcount: A:0.31, C:0.29, G:0.26, T:0.13
Consensus pattern (9 bp):
GGTCAAACC
Found at i:1022757 original size:19 final size:19
Alignment explanation
Indices: 1022712--1022779 Score: 70
Period size: 19 Copynumber: 3.6 Consensus size: 19
1022702 GGTCGGGTCG
1022712 GGTCAG-ACCGGTCAAACC
1 GGTCAGAACCGGTCAAACC
*
1022730 GATTC-GAACCGGTCAAACC
1 G-GTCAGAACCGGTCAAACC
*
1022749 GGTCAGAACCGGTTGAAAACC
1 GGTCAGAACCGG-T-CAAACC
1022770 GGTCA-AACCG
1 GGTCAGAACCG
1022780 ATTTCCAGCC
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
18 4 0.10
19 22 0.52
20 6 0.14
21 10 0.24
ACGTcount: A:0.31, C:0.29, G:0.26, T:0.13
Consensus pattern (19 bp):
GGTCAGAACCGGTCAAACC
Found at i:1023966 original size:2 final size:2
Alignment explanation
Indices: 1023959--1023991 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1023949 GTTTATCAAA
1023959 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1023992 ATGGTGAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1027744 original size:16 final size:16
Alignment explanation
Indices: 1027719--1027773 Score: 58
Period size: 16 Copynumber: 3.3 Consensus size: 16
1027709 CTCTCAAACC
* *
1027719 CTTTTCAATTTTCAAT
1 CTTTTAAATTTTAAAT
1027735 CTTTTAAATTTTAAAT
1 CTTTTAAATTTTAAAT
1027751 -TTTTAATATTATTAAAT
1 CTTTTAA-ATT-TTAAAT
1027768 CATTTT
1 C-TTTT
1027774 GTGGTAATTC
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
15 6 0.18
16 17 0.52
17 6 0.18
19 4 0.12
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.58
Consensus pattern (16 bp):
CTTTTAAATTTTAAAT
Found at i:1027751 original size:23 final size:24
Alignment explanation
Indices: 1027720--1027767 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
1027710 TCTCAAACCC
* *
1027720 TTTTCAATTTTCAATCTT-TTAAA
1 TTTTAAATTTTCAATATTATTAAA
*
1027743 TTTTAAATTTTTAATATTATTAAA
1 TTTTAAATTTTCAATATTATTAAA
1027767 T
1 T
1027768 CATTTTGTGG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 15 0.71
24 6 0.29
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.58
Consensus pattern (24 bp):
TTTTAAATTTTCAATATTATTAAA
Found at i:1029083 original size:29 final size:29
Alignment explanation
Indices: 1029033--1029098 Score: 118
Period size: 29 Copynumber: 2.3 Consensus size: 29
1029023 CAAAACATGT
1029033 TGAATGA-T-TCAGCACAGAAGTACATTC
1 TGAATGATTCTCAGCACAGAAGTACATTC
1029060 TGAATGATTCTCAGCACAGAAGTACATTC
1 TGAATGATTCTCAGCACAGAAGTACATTC
1029089 TGAATGATTC
1 TGAATGATTC
1029099 ATAGCCAGTA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
27 7 0.19
28 1 0.03
29 29 0.78
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (29 bp):
TGAATGATTCTCAGCACAGAAGTACATTC
Found at i:1029549 original size:22 final size:22
Alignment explanation
Indices: 1029521--1029571 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
1029511 AAGATTCCCA
1029521 AATCCCTACATCCCAAATACCC
1 AATCCCTACATCCCAAATACCC
1029543 AATCCCTACATCCCAAATACCC
1 AATCCCTACATCCCAAATACCC
1029565 AATCCCT
1 AATCCCT
1029572 TAAATCATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.35, C:0.45, G:0.00, T:0.20
Consensus pattern (22 bp):
AATCCCTACATCCCAAATACCC
Found at i:1034121 original size:60 final size:61
Alignment explanation
Indices: 1033990--1034136 Score: 149
Period size: 60 Copynumber: 2.4 Consensus size: 61
1033980 TGTATGACCC
* * * *
1033990 TCATTTTAAATTAG-TCTTTAAACTTTTAAATATTCTAATTTCATCCCTAAACTATGACTAT
1 TCATTCTAAATTAGTTC-TCAAACTTTTAAATATTCTAATTTCATCCCCAAACTATGAATAT
* * * *
1034051 T-ATTCAAAATTAGTTCTCAAACTTTTGATTATT-TCAATTTCATCCCCAAATTATGAAT-T
1 TCATTCTAAATTAGTTCTCAAACTTTTAAATATTCT-AATTTCATCCCCAAACTATGAATAT
** *
1034110 TCATTCTAAATTCCTCCTCAAACTTTT
1 TCATTCTAAATTAGTTCTCAAACTTTT
1034137 TGAACATTCC
Statistics
Matches: 71, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
59 3 0.04
60 65 0.92
61 3 0.04
ACGTcount: A:0.33, C:0.19, G:0.03, T:0.45
Consensus pattern (61 bp):
TCATTCTAAATTAGTTCTCAAACTTTTAAATATTCTAATTTCATCCCCAAACTATGAATAT
Found at i:1035825 original size:20 final size:19
Alignment explanation
Indices: 1035800--1035867 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 19
1035790 ACCGGTTTAG
*
1035800 GTTGACTCAATTCAGTTCGA
1 GTTGACTC-ATTCGGTTCGA
* * *
1035820 GTTGACGCGGTTCGGTCCGA
1 GTTGACTC-ATTCGGTTCGA
*
1035840 GTTAACTCATATCGGTTCGA
1 GTTGACTCAT-TCGGTTCGA
1035860 GTTGACTC
1 GTTGACTC
1035868 GAACAGATTC
Statistics
Matches: 37, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
19 1 0.03
20 36 0.97
ACGTcount: A:0.19, C:0.22, G:0.26, T:0.32
Consensus pattern (19 bp):
GTTGACTCATTCGGTTCGA
Found at i:1040191 original size:20 final size:20
Alignment explanation
Indices: 1040168--1040208 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
1040158 GGTTGACTTA
1040168 GTTCGGTTCAT-GTTGACTCG
1 GTTCGG-TCATAGTTGACTCG
*
1040188 GTTCGGTCCTAGTTGACTCG
1 GTTCGGTCATAGTTGACTCG
1040208 G
1 G
1040209 ACCGGTTTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 3 0.16
20 16 0.84
ACGTcount: A:0.10, C:0.22, G:0.32, T:0.37
Consensus pattern (20 bp):
GTTCGGTCATAGTTGACTCG
Found at i:1047741 original size:30 final size:30
Alignment explanation
Indices: 1047705--1047766 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
1047695 TCGGGTACAT
1047705 AAAGCAATTCTCATCTCCAGCACTAACCAG
1 AAAGCAATTCTCATCTCCAGCACTAACCAG
1047735 AAAGCAATTCTCATCTCCAGCACTAACCAG
1 AAAGCAATTCTCATCTCCAGCACTAACCAG
1047765 AA
1 AA
1047767 CCTACATGCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.39, C:0.32, G:0.10, T:0.19
Consensus pattern (30 bp):
AAAGCAATTCTCATCTCCAGCACTAACCAG
Found at i:1050192 original size:54 final size:54
Alignment explanation
Indices: 1050123--1050225 Score: 136
Period size: 54 Copynumber: 1.9 Consensus size: 54
1050113 TGAAGATAAC
* * *
1050123 ATCAAAAATTAGTTTCATTCCCAC-CTTAATATCTTTATTTGAATGATACTTTTG
1 ATCAAAAATCAGTTTCATTCCCACAC-GAATACCTTTATTTGAATGATACTTTTG
* * *
1050177 ATCAAAAATCAGTTTCTTTCCTACACGAATACCTTTATTTGACTGATAC
1 ATCAAAAATCAGTTTCATTCCCACACGAATACCTTTATTTGAATGATAC
1050226 CTTCAATGAA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
54 41 0.98
55 1 0.02
ACGTcount: A:0.32, C:0.19, G:0.08, T:0.41
Consensus pattern (54 bp):
ATCAAAAATCAGTTTCATTCCCACACGAATACCTTTATTTGAATGATACTTTTG
Found at i:1054282 original size:19 final size:19
Alignment explanation
Indices: 1054258--1054302 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
1054248 AAATGACCAA
* *
1054258 CAAATTTATAACGCGATCT
1 CAAATTTACAACGCGAACT
*
1054277 CAAATTCACAACGCGAACT
1 CAAATTTACAACGCGAACT
*
1054296 CCAATTT
1 CAAATTT
1054303 CGCAACCCAG
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.38, C:0.27, G:0.09, T:0.27
Consensus pattern (19 bp):
CAAATTTACAACGCGAACT
Found at i:1054427 original size:20 final size:20
Alignment explanation
Indices: 1054404--1054442 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
1054394 AATTTGTAAA
1054404 TCGCAACACAGAAGTCAAAT
1 TCGCAACACAGAAGTCAAAT
1054424 TCGCAACACAGAAGTCAAA
1 TCGCAACACAGAAGTCAAA
1054443 GCGCGTTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.46, C:0.26, G:0.15, T:0.13
Consensus pattern (20 bp):
TCGCAACACAGAAGTCAAAT
Found at i:1054590 original size:22 final size:22
Alignment explanation
Indices: 1054565--1054615 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
1054555 CTACGGCGAC
*
1054565 ATCCGTCCCCATCTCCGACGTA
1 ATCCGTCCCCATCTCCGACGAA
* * *
1054587 ATCCATTCTCATCTCCGACGAA
1 ATCCGTCCCCATCTCCGACGAA
1054609 ATCCGTC
1 ATCCGTC
1054616 TATCTCCATC
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.22, C:0.41, G:0.12, T:0.25
Consensus pattern (22 bp):
ATCCGTCCCCATCTCCGACGAA
Found at i:1055002 original size:19 final size:20
Alignment explanation
Indices: 1054974--1055025 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
1054964 AACACGAAAA
*
1054974 TCGCAATGCGAATTT-AGTT
1 TCGCATTGCGAATTTCAGTT
* * *
1054993 TCGCGTTGCGATTTTCATTT
1 TCGCATTGCGAATTTCAGTT
1055013 TCGCATTGCGAAT
1 TCGCATTGCGAAT
1055026 GTAAGTTTCA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 12 0.46
20 14 0.54
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.40
Consensus pattern (20 bp):
TCGCATTGCGAATTTCAGTT
Found at i:1055034 original size:20 final size:19
Alignment explanation
Indices: 1054974--1055034 Score: 50
Period size: 20 Copynumber: 3.1 Consensus size: 19
1054964 AACACGAAAA
* *
1054974 TCGCAATGCGAATTTAGTT
1 TCGCATTGCGAATTAAGTT
* * * *
1054993 TCGCGTTGCGATTTTCATTT
1 TCGCATTGCGA-ATTAAGTT
1055013 TCGCATTGCGAATGTAAGTT
1 TCGCATTGCGAAT-TAAGTT
1055033 TC
1 TC
1055035 AGAAACTACT
Statistics
Matches: 31, Mismatches: 9, Indels: 3
0.72 0.21 0.07
Matches are distributed among these distances:
19 10 0.32
20 21 0.68
ACGTcount: A:0.20, C:0.18, G:0.21, T:0.41
Consensus pattern (19 bp):
TCGCATTGCGAATTAAGTT
Found at i:1056993 original size:4 final size:4
Alignment explanation
Indices: 1056984--1057029 Score: 56
Period size: 4 Copynumber: 11.5 Consensus size: 4
1056974 TTTTTCGACA
* * * *
1056984 TTAT TTAT TTAT TTAT TTAT TTAC TGAT TTAT GTAT TAAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
1057030 TCAGCGGCCC
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.67
Consensus pattern (4 bp):
TTAT
Found at i:1057203 original size:21 final size:21
Alignment explanation
Indices: 1057173--1057270 Score: 115
Period size: 21 Copynumber: 4.7 Consensus size: 21
1057163 GATGCACCAG
1057173 TCATCGTTCAAGAGGCCCCTC
1 TCATCGTTCAAGAGGCCCCTC
*
1057194 TCATCATTCAAGAGGCCCCTC
1 TCATCGTTCAAGAGGCCCCTC
* * * * *
1057215 CCACCATTCAAGAGGCCCATG
1 TCATCGTTCAAGAGGCCCCTC
*
1057236 TCATCGTTCAAGAGGTCCCTC
1 TCATCGTTCAAGAGGCCCCTC
* *
1057257 ACACCGTTCAAGAG
1 TCATCGTTCAAGAG
1057271 CCTGATTCAC
Statistics
Matches: 64, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 64 1.00
ACGTcount: A:0.24, C:0.36, G:0.18, T:0.21
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCCCTC
Found at i:1057240 original size:42 final size:42
Alignment explanation
Indices: 1057179--1057270 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
1057169 CCAGTCATCG
* *
1057179 TTCAAGAGGCCCCTCTCATCATTCAAGAGGCCCCTCCCACCA
1 TTCAAGAGGCCCATCTCATCATTCAAGAGGCCCCTCACACCA
* * * *
1057221 TTCAAGAGGCCCATGTCATCGTTCAAGAGGTCCCTCACACCG
1 TTCAAGAGGCCCATCTCATCATTCAAGAGGCCCCTCACACCA
1057263 TTCAAGAG
1 TTCAAGAG
1057271 CCTGATTCAC
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.25, C:0.36, G:0.18, T:0.21
Consensus pattern (42 bp):
TTCAAGAGGCCCATCTCATCATTCAAGAGGCCCCTCACACCA
Found at i:1058743 original size:64 final size:64
Alignment explanation
Indices: 1058642--1058775 Score: 232
Period size: 64 Copynumber: 2.1 Consensus size: 64
1058632 TTTTACATTG
1058642 ATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTTGCTTGTATAATTA
1 ATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTTGCTTGTATAATTA
* * * *
1058706 ATTTGTAAAAGTTGATTTGTTTAATTGATGTGTAAATAAGAATTATTTTTTGCTTGTTTAATTG
1 ATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTTGCTTGTATAATTA
1058770 ATTTGT
1 ATTTGT
1058776 TGTTTATTCA
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 66 1.00
ACGTcount: A:0.31, C:0.01, G:0.17, T:0.50
Consensus pattern (64 bp):
ATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTTGCTTGTATAATTA
Found at i:1059008 original size:20 final size:20
Alignment explanation
Indices: 1058981--1059038 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
1058971 AAAATTGAAA
*
1058981 TACGAATTTGACTTTTGCGT
1 TACGAATTTGACTTTCGCGT
* *
1059001 TGCGAATTTAACTTTCGCGT
1 TACGAATTTGACTTTCGCGT
*
1059021 TACGAATTTGTCTTTCGC
1 TACGAATTTGACTTTCGC
1059039 ATCAATCGCA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.43
Consensus pattern (20 bp):
TACGAATTTGACTTTCGCGT
Found at i:1063605 original size:23 final size:22
Alignment explanation
Indices: 1063579--1063624 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
1063569 CATTTAAAAA
*
1063579 TTAACTATAATATATATATTATT
1 TTAACTATAATAAATA-ATTATT
* *
1063602 TTAATTATATTAAATAATTATT
1 TTAACTATAATAAATAATTATT
1063624 T
1 T
1063625 ATTACTATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (22 bp):
TTAACTATAATAAATAATTATT
Found at i:1064153 original size:36 final size:36
Alignment explanation
Indices: 1064047--1064365 Score: 226
Period size: 36 Copynumber: 8.7 Consensus size: 36
1064037 TTTTGTCCAT
* *
1064047 ATATATATATTATA-ATTTTTTAAAATA-ATTTTGGAAA
1 ATATATATAATATATA-GTTTTAAAA-ACATTTT-GAAA
* * * *
1064084 CTA-ATATAATATATAATTTTTTAAAACGTTTTGAAA
1 ATATATATAATATAT-AGTTTTAAAAACATTTTGAAA
**
1064120 ATATATATAATATATAGTTTCCAAAACATTTTGAAA
1 ATATATATAATATATAGTTTTAAAAACATTTTGAAA
* * **
1064156 ATTTATATATAATATATAATTTTTAAGTCATTTTGAAA
1 A--TATATATAATATATAGTTTTAAAAACATTTTGAAA
*
1064194 ATATATATAATATATA-TATTTAAAAAAAACATTTTAAAA
1 ATATATATAATATATAGT-TTT---AAAAACATTTTGAAA
1064233 ATATATATAATATAT-GTTATTTAAAAAAACATTTTGAAA
1 ATATATATAATATATAG-T-TTT--AAAAACATTTTGAAA
* * * ** *
1064272 A-CTATATAACATATAGTTTGAAAATATTTTTTAAAA
1 ATATATATAATATATAGTTTTAAAA-ACATTTTGAAA
* *
1064308 AT-TATATAATATATAGTTTTGAAAATATTTTTG-AA
1 ATATATATAATATATAGTTTTAAAAACA-TTTTGAAA
*
1064343 ACATAT-T-ATATATAGTTTTAAAA
1 ATATATATAATATATAGTTTTAAAA
1064366 CAATTTTTTT
Statistics
Matches: 233, Mismatches: 32, Indels: 37
0.77 0.11 0.12
Matches are distributed among these distances:
34 15 0.06
35 11 0.05
36 87 0.37
37 27 0.12
38 44 0.19
39 44 0.19
40 5 0.02
ACGTcount: A:0.48, C:0.03, G:0.05, T:0.44
Consensus pattern (36 bp):
ATATATATAATATATAGTTTTAAAAACATTTTGAAA
Found at i:1064172 original size:38 final size:36
Alignment explanation
Indices: 1064045--1064354 Score: 218
Period size: 38 Copynumber: 8.2 Consensus size: 36
1064035 ATTTTTGTCC
*
1064045 ATATATAT-ATATTATAATTTTTTAAAATAATTTTGGAAA
1 ATATATATAATA-TATAA-TTTTTAAAA-CATTTT-GAAA
* *
1064084 CTA-ATATAATATATAATTTTTTAAAACGTTTTGAAA
1 ATATATATAATATATAA-TTTTTAAAACATTTTGAAA
* **
1064120 ATATATATAATATATAGTTTCCAAAACATTTTGAAA
1 ATATATATAATATATAATTTTTAAAACATTTTGAAA
**
1064156 ATTTATATATAATATATAATTTTTAAGTCATTTTGAAA
1 A--TATATATAATATATAATTTTTAAAACATTTTGAAA
** *
1064194 ATATATATAATATATATATTTAAAAAAAACATTTTAAAA
1 ATATATATAATATATA-ATTT--TTAAAACATTTTGAAA
*
1064233 ATATATATAATATAT-GTTATTTAAAAAAACATTTTGAAA
1 ATATATATAATATATAATT-TTT---AAAACATTTTGAAA
* * * * * *
1064272 A-CTATATAACATAT-AGTTTGAAAATATTTTTTAAA
1 ATATATATAATATATAATTTTTAAAACA-TTTTGAAA
* * *
1064307 A-ATTATATAATATATAGTTTTGAAAATATTTTTGAAA
1 ATA-TATATAATATATAATTTTTAAAACA-TTTTGAAA
1064344 CATATTATATA
1 -ATA-TATATA
1064355 TAGTTTTAAA
Statistics
Matches: 221, Mismatches: 34, Indels: 32
0.77 0.12 0.11
Matches are distributed among these distances:
34 5 0.02
35 8 0.04
36 49 0.22
37 42 0.19
38 64 0.29
39 53 0.24
ACGTcount: A:0.48, C:0.04, G:0.05, T:0.44
Consensus pattern (36 bp):
ATATATATAATATATAATTTTTAAAACATTTTGAAA
Found at i:1064241 original size:75 final size:75
Alignment explanation
Indices: 1064087--1064354 Score: 221
Period size: 74 Copynumber: 3.6 Consensus size: 75
1064077 TTGGAAACTA
* * **
1064087 ATATAATATATAATTTTTTAAAACGTTTTGAAAATATATATAATATATAGTTTCCAAAACATTTT
1 ATATAATATATAATTTTTTAAAACATTTTGAAAATATATATAATATATAATTTAAAAAACATTTT
*
1064152 GAAAATTTAT
66 GAAAATATAT
**
1064162 ATATAATATATAA-TTTTTAAGTCATTTTGAAAATATATATAATATATATATTTAAAAAAAACAT
1 ATATAATATATAATTTTTTAAAACATTTTGAAAATATATATAATATATA-ATTT--AAAAAACAT
1064226 TTT-AAAA-ATAT
63 TTTGAAAATATAT
* * * * * * *
1064237 ATATAATATAT-GTTATTTAAAAAAACATTTTGAAAA-CTATATAACATATAGTTTGAAAATA-T
1 ATATAATATATAATT-TTT--TAAAACATTTTGAAAATATATATAATATATAATTT-AAAAAACA
*
1064299 TTTTTAAAA-AT-T
62 TTTTGAAAATATAT
* * *
1064311 ATATAATATAT-AGTTTTGAAAATATTTTTGAAACATATTATATA
1 ATATAATATATAATTTTTTAAAACA-TTTTGAAA-ATA-TATATA
1064355 TAGTTTTAAA
Statistics
Matches: 159, Mismatches: 22, Indels: 24
0.78 0.11 0.12
Matches are distributed among these distances:
71 5 0.03
72 8 0.05
73 4 0.03
74 49 0.31
75 48 0.30
76 10 0.06
77 22 0.14
78 13 0.08
ACGTcount: A:0.48, C:0.04, G:0.05, T:0.43
Consensus pattern (75 bp):
ATATAATATATAATTTTTTAAAACATTTTGAAAATATATATAATATATAATTTAAAAAACATTTT
GAAAATATAT
Found at i:1064286 original size:40 final size:39
Alignment explanation
Indices: 1064106--1064279 Score: 173
Period size: 39 Copynumber: 4.5 Consensus size: 39
1064096 ATAATTTTTT
* * **
1064106 AAAACGTTTTGAAAATATATATAATATATA-GTTT--CC
1 AAAACATTTTGAAAATATATATAATATATATATTTAAAA
**
1064142 AAAACATTTTGAAAATTTATATATAATATATA-ATTT--TT
1 AAAACATTTTGAAAA--TATATATAATATATATATTTAAAA
**
1064180 AAGTCATTTTGAAAATATATATAATATATATATTTAAAA
1 AAAACATTTTGAAAATATATATAATATATATATTTAAAA
* *
1064219 AAAACATTTTAAAAATATATATAATATATGTTATTT-AAA
1 AAAACATTTTGAAAATATATATAATATAT-ATATTTAAAA
1064258 AAAACATTTTGAAAACTATATA
1 AAAACATTTTGAAAA-TATATA
1064280 ACATATAGTT
Statistics
Matches: 118, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
36 29 0.25
37 4 0.03
38 31 0.26
39 43 0.36
40 11 0.09
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.41
Consensus pattern (39 bp):
AAAACATTTTGAAAATATATATAATATATATATTTAAAA
Found at i:1064377 original size:75 final size:78
Alignment explanation
Indices: 1064225--1064443 Score: 228
Period size: 75 Copynumber: 2.9 Consensus size: 78
1064215 AAAAAAAACA
* ** * *
1064225 TTTTAAAAATATATATAATATAT-GTTATTTAAAAAAACATTTTGAAAACTATATAAC-ATATAG
1 TTTTAAAAATATATATAATATATAGTT-TTGAAAATTA-TTTTTGAAAGC-ATAT-ACTATATAG
*
1064288 -TTTG--AA-AA-TATT
62 TTTTGAAAACAATTTTT
1064300 TTTTAAAAAT-TATATAATATATAGTTTTGAAAA-TATTTTTGAAA-CATATTA-TATATAGTTT
1 TTTTAAAAATATATATAATATATAGTTTTGAAAATTATTTTTGAAAGCATA-TACTATATAGTTT
1064361 T-AAAACAATTTTT
65 TGAAAACAATTTTT
* * *
1064374 TTTTAAAAATATATGTATTATATAGTTTTGAAAATTATTTTTTAAAGCATATACTATATAGTTTT
1 TTTTAAAAATATATATAATATATAGTTTTGAAAATTATTTTTGAAAGCATATACTATATAGTTTT
1064439 GAAAA
66 GAAAA
1064444 TGTTTTTATG
Statistics
Matches: 124, Mismatches: 7, Indels: 23
0.81 0.05 0.15
Matches are distributed among these distances:
70 10 0.08
71 5 0.04
72 10 0.08
73 3 0.02
74 31 0.25
75 34 0.27
76 12 0.10
77 15 0.12
78 4 0.03
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.46
Consensus pattern (78 bp):
TTTTAAAAATATATATAATATATAGTTTTGAAAATTATTTTTGAAAGCATATACTATATAGTTTT
GAAAACAATTTTT
Found at i:1064438 original size:36 final size:36
Alignment explanation
Indices: 1064264--1064444 Score: 158
Period size: 36 Copynumber: 4.9 Consensus size: 36
1064254 TAAAAAAACA
* * *
1064264 TTTTGAAAACTATATAACATATAG-TTTGAAAA-TAT
1 TTTTTAAAAC-ATATTATATATAGTTTTGAAAATTAT
1064299 TTTTTAAAA-ATTATATAATATATAGTTTTGAAAA-TA-
1 TTTTTAAAACA-TAT-T-ATATATAGTTTTGAAAATTAT
* * *
1064335 TTTTTGAAACATATTATATATAGTTTTAAAACAATTTT
1 TTTTTAAAACATATTATATATAGTTTT-GAA-AATTAT
*
1064373 TTTTTAAAAATATATGTATTATATAGTTTTGAAAATTAT
1 TTTTT-AAAACATAT-TA-TATATAGTTTTGAAAATTAT
*
1064412 TTTTTAAAGCATA-TACTATATAGTTTTGAAAAT
1 TTTTTAAAACATATTA-TATATAGTTTTGAAAAT
1064445 GTTTTTATGT
Statistics
Matches: 121, Mismatches: 13, Indels: 23
0.77 0.08 0.15
Matches are distributed among these distances:
33 1 0.01
34 15 0.12
35 11 0.09
36 39 0.32
37 12 0.10
38 11 0.09
39 17 0.14
40 4 0.03
41 11 0.09
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.47
Consensus pattern (36 bp):
TTTTTAAAACATATTATATATAGTTTTGAAAATTAT
Found at i:1064493 original size:24 final size:24
Alignment explanation
Indices: 1064449--1064508 Score: 59
Period size: 24 Copynumber: 2.4 Consensus size: 24
1064439 GAAAATGTTT
* *
1064449 TTATGTTTATTTATTTATTATTTTTC
1 TTAT-TTT-TTTATTTATTATTATTA
1064475 TTATTTTTTTA-TTACTTATTATTA
1 TTATTTTTTTATTTA-TTATTATTA
*
1064499 TTATTATTTT
1 TTATTTTTTT
1064509 CTGTTTTAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
23 3 0.10
24 20 0.67
25 3 0.10
26 4 0.13
ACGTcount: A:0.22, C:0.03, G:0.02, T:0.73
Consensus pattern (24 bp):
TTATTTTTTTATTTATTATTATTA
Found at i:1064505 original size:27 final size:28
Alignment explanation
Indices: 1064454--1064508 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
1064444 TGTTTTTATG
* * *
1064454 TTTATTTATTTATTATTTTTCTTATTTT
1 TTTATTTACTTATTATTATTATTATTTT
1064482 TTTA-TTACTTATTATTATTATTATTTT
1 TTTATTTACTTATTATTATTATTATTTT
1064509 CTGTTTTAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 20 0.83
28 4 0.17
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.75
Consensus pattern (28 bp):
TTTATTTACTTATTATTATTATTATTTT
Found at i:1066028 original size:6 final size:7
Alignment explanation
Indices: 1066012--1066042 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
1066002 GAATCGAATG
1066012 TTTTAAT
1 TTTTAAT
1066019 TTTTAA-
1 TTTTAAT
1066025 TTTTAAT
1 TTTTAAT
1066032 TTTTAAT
1 TTTTAAT
1066039 TTTT
1 TTTT
1066043 CGCAATAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.26
7 17 0.74
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (7 bp):
TTTTAAT
Found at i:1066030 original size:13 final size:13
Alignment explanation
Indices: 1066012--1066041 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
1066002 GAATCGAATG
1066012 TTTTAATTTTTAA
1 TTTTAATTTTTAA
1066025 TTTTAATTTTTAA
1 TTTTAATTTTTAA
1066038 TTTT
1 TTTT
1066042 TCGCAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (13 bp):
TTTTAATTTTTAA
Found at i:1067726 original size:23 final size:23
Alignment explanation
Indices: 1067666--1067732 Score: 98
Period size: 24 Copynumber: 2.9 Consensus size: 23
1067656 TAGGGGCATA
*
1067666 TAGAATTGTCCCGAAGGACCATG
1 TAGAATTGTCCCGAAGGACCACG
1067689 TAGAATTTGTCCCGAAGGACCACG
1 TAGAA-TTGTCCCGAAGGACCACG
* *
1067713 TAGAAATGTCCCGAATGACC
1 TAGAATTGTCCCGAAGGACC
1067733 TATCCATATG
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
23 18 0.45
24 22 0.55
ACGTcount: A:0.31, C:0.24, G:0.24, T:0.21
Consensus pattern (23 bp):
TAGAATTGTCCCGAAGGACCACG
Found at i:1067771 original size:30 final size:30
Alignment explanation
Indices: 1067730--1067786 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
1067720 GTCCCGAATG
*
1067730 ACCTATCCATATGTCCCAAAGGACATAAGT
1 ACCTATCCATATATCCCAAAGGACATAAGT
* * *
1067760 ACCTGTCCATATATCCCGAATGACATA
1 ACCTATCCATATATCCCAAAGGACATA
1067787 GGTAACCCTC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.35, C:0.28, G:0.12, T:0.25
Consensus pattern (30 bp):
ACCTATCCATATATCCCAAAGGACATAAGT
Found at i:1071982 original size:24 final size:23
Alignment explanation
Indices: 1071955--1072002 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
1071945 CCCACTAGGG
*
1071955 CACGTAGAATATTTCCCGAATGAC
1 CACGTAGAA-ATGTCCCGAATGAC
*
1071979 CACGTATAAATGTCCCGAATGAC
1 CACGTAGAAATGTCCCGAATGAC
1072002 C
1 C
1072003 TATCCATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (23 bp):
CACGTAGAAATGTCCCGAATGAC
Found at i:1072041 original size:30 final size:30
Alignment explanation
Indices: 1072000--1072060 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
1071990 GTCCCGAATG
*
1072000 ACCTATCCATATATCCCGAAGGACACAGGT
1 ACCTATCCATATATCCCGAAGGACAAAGGT
* * *
1072030 ACCTGTCCATATGTCCCGAATGACAAAGGT
1 ACCTATCCATATATCCCGAAGGACAAAGGT
1072060 A
1 A
1072061 ACCCTCGACT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.33, C:0.28, G:0.18, T:0.21
Consensus pattern (30 bp):
ACCTATCCATATATCCCGAAGGACAAAGGT
Found at i:1072793 original size:19 final size:19
Alignment explanation
Indices: 1072769--1072805 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
1072759 ATACTTCCCT
1072769 AGCTTTGGTATCGATACCA
1 AGCTTTGGTATCGATACCA
1072788 AGCTTTGGTATCGATACC
1 AGCTTTGGTATCGATACC
1072806 CTTTTTGCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.32
Consensus pattern (19 bp):
AGCTTTGGTATCGATACCA
Found at i:1075712 original size:44 final size:44
Alignment explanation
Indices: 1075656--1075744 Score: 108
Period size: 44 Copynumber: 2.0 Consensus size: 44
1075646 ATGTGTTGTG
* * * *
1075656 TGATCTATGTGAACATATGAGA-ATAATATATAAGCTATGTGACA
1 TGATCTACGTGAACACATGA-ACATAAGATATAAGATATGTGACA
* *
1075700 TGATCTACGTGAATACATGAACATAAGGTATAAGATATGTGACA
1 TGATCTACGTGAACACATGAACATAAGATATAAGATATGTGACA
1075744 T
1 T
1075745 AACCTATGTG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
43 1 0.03
44 37 0.97
ACGTcount: A:0.40, C:0.10, G:0.19, T:0.30
Consensus pattern (44 bp):
TGATCTACGTGAACACATGAACATAAGATATAAGATATGTGACA
Found at i:1075933 original size:23 final size:23
Alignment explanation
Indices: 1075861--1075968 Score: 96
Period size: 23 Copynumber: 4.7 Consensus size: 23
1075851 GAGTCGAGGG
1075861 TTCTACGTGGTTCTTCAGGG-CAA
1 TTCTACGTGGTTCTTC-GGGACAA
*
1075884 TTATACGTGGTTCTTCGGGACAA
1 TTCTACGTGGTTCTTCGGGACAA
* *
1075907 TTCTACGTGG-TCATTCGGGATAT
1 TTCTACGTGGTTC-TTCGGGACAA
*** *
1075930 TTCTACACAGTCCTTCGGGAC-A
1 TTCTACGTGGTTCTTCGGGACAA
* *
1075952 TTCTATGTGGTACTTCG
1 TTCTACGTGGTTCTTCG
1075969 ATACAATTTA
Statistics
Matches: 67, Mismatches: 15, Indels: 7
0.75 0.17 0.08
Matches are distributed among these distances:
22 17 0.25
23 49 0.73
24 1 0.01
ACGTcount: A:0.19, C:0.21, G:0.24, T:0.36
Consensus pattern (23 bp):
TTCTACGTGGTTCTTCGGGACAA
Found at i:1076180 original size:6 final size:6
Alignment explanation
Indices: 1076169--1076211 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
1076159 TTAAAGAGAT
** * *
1076169 TAATGA TAATGA TGTTGA TGATGA TGATGA TAATGA TAATGA T
1 TAATGA TAATGA TAATGA TAATGA TAATGA TAATGA TAATGA T
1076212 GGTATATGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.40, C:0.00, G:0.23, T:0.37
Consensus pattern (6 bp):
TAATGA
Found at i:1079896 original size:39 final size:39
Alignment explanation
Indices: 1079853--1079968 Score: 142
Period size: 39 Copynumber: 3.0 Consensus size: 39
1079843 TATGAGCTTG
* * * *
1079853 CAGTAAGGTCTTATACTGTGCACAAATCAGAGGAGCCTA
1 CAGTAAGGACTTATCCTGAGCACAAAACAGAGGAGCCTA
* *
1079892 CAGTAAGGACTTATCCTGAGCACAAAACTGAGGAGCCTG
1 CAGTAAGGACTTATCCTGAGCACAAAACAGAGGAGCCTA
* * * *
1079931 CGGTAAGGACTTACCCTGAGCACAAAGCCGAGGAGCCT
1 CAGTAAGGACTTATCCTGAGCACAAAACAGAGGAGCCT
1079969 GCGGAAAGTG
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 67 1.00
ACGTcount: A:0.32, C:0.24, G:0.26, T:0.18
Consensus pattern (39 bp):
CAGTAAGGACTTATCCTGAGCACAAAACAGAGGAGCCTA
Found at i:1081439 original size:18 final size:18
Alignment explanation
Indices: 1081403--1081448 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
1081393 TTTATGAGTT
1081403 TAAAAA-AT-ATATAAAA
1 TAAAAATATGATATAAAA
1081419 TAAAAATAATGATAT-AAA
1 TAAAAAT-ATGATATAAAA
*
1081437 TAACAATATGAT
1 TAAAAATATGAT
1081449 TATGATTAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 6 0.23
17 5 0.19
18 11 0.42
19 4 0.15
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.28
Consensus pattern (18 bp):
TAAAAATATGATATAAAA
Found at i:1081932 original size:31 final size:31
Alignment explanation
Indices: 1081862--1081932 Score: 117
Period size: 30 Copynumber: 2.3 Consensus size: 31
1081852 TAATACGTCT
*
1081862 AGTACCTAAAATATCAATTTTAATCCGTTTT
1 AGTACCTAAAATATCAATTTTAATCCGTTTA
*
1081893 A-TACCTAAAATGTCAATTTTAATCCGTTTA
1 AGTACCTAAAATATCAATTTTAATCCGTTTA
1081923 AGTACCTAAA
1 AGTACCTAAA
1081933 TTTTCAGTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
30 28 0.76
31 9 0.24
ACGTcount: A:0.38, C:0.17, G:0.07, T:0.38
Consensus pattern (31 bp):
AGTACCTAAAATATCAATTTTAATCCGTTTA
Found at i:1082309 original size:42 final size:42
Alignment explanation
Indices: 1082249--1082343 Score: 163
Period size: 42 Copynumber: 2.3 Consensus size: 42
1082239 AGAATTGAAC
* * *
1082249 ATTCGTTTTTCGGGAAATGTTTTCCCGTGTTTGTTTCACGTA
1 ATTCGTTTTCCAGAAAATGTTTTCCCGTGTTTGTTTCACGTA
1082291 ATTCGTTTTCCAGAAAATGTTTTCCCGTGTTTGTTTCACGTA
1 ATTCGTTTTCCAGAAAATGTTTTCCCGTGTTTGTTTCACGTA
1082333 ATTCGTTTTCC
1 ATTCGTTTTCC
1082344 GGAACGTAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.16, C:0.19, G:0.18, T:0.47
Consensus pattern (42 bp):
ATTCGTTTTCCAGAAAATGTTTTCCCGTGTTTGTTTCACGTA
Found at i:1082577 original size:29 final size:26
Alignment explanation
Indices: 1082547--1082685 Score: 73
Period size: 28 Copynumber: 5.5 Consensus size: 26
1082537 TATTTAAAAT
*
1082547 ATATT-TATTAATATTTATAATAATATA
1 ATATTATATT-ATAGTT-TAATAATATA
*
1082574 ATATTATATTTTAGTTTAATAATATA
1 ATATTATATTATAGTTTAATAATATA
* * * * *
1082600 ATCAATTATATAATAATATAA-GATATT
1 AT--ATTATATTATAGTTTAATAATATA
*
1082627 ATATT-T-TT-TATTTTAATAATATA
1 ATATTATATTATAGTTTAATAATATA
*
1082650 ATATT-T-TT-TA-TATAATAATGAATA
1 ATATTATATTATAGTTTAATAAT--ATA
1082674 ATATTAT-TTATA
1 ATATTATATTATA
1082686 TATTTAAAAC
Statistics
Matches: 90, Mismatches: 14, Indels: 17
0.74 0.12 0.14
Matches are distributed among these distances:
22 14 0.16
23 15 0.17
24 9 0.10
25 6 0.07
26 14 0.16
27 15 0.17
28 17 0.19
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.52
Consensus pattern (26 bp):
ATATTATATTATAGTTTAATAATATA
Done.