Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008162.1 Hibiscus syriacus cultivar Beakdansim tig00110733_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: 3688897
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 16
Found at i:925984 original size:20 final size:20
Alignment explanation
Indices: 925961--926037 Score: 57
Period size: 20 Copynumber: 3.6 Consensus size: 20
925951 TTTTTTCTTC
925961 TTTTTCTTTATTTTCTTTAT
1 TTTTTCTTTATTTTCTTTAT
*
925981 TTTTT-TTATTTTTTACTTACTAT
1 TTTTTCTT-TATTTT-CTT--TAT
* **
926004 TTTATCTTTGCTTTCTTTAT
1 TTTTTCTTTATTTTCTTTAT
*
926024 ATTTTCTTTTATTT
1 TTTTTC-TTTATTT
926038 AATTTTTTTC
Statistics
Matches: 43, Mismatches: 8, Indels: 11
0.69 0.13 0.18
Matches are distributed among these distances:
19 2 0.05
20 17 0.40
21 8 0.19
22 3 0.07
23 11 0.26
24 2 0.05
ACGTcount: A:0.13, C:0.10, G:0.01, T:0.75
Consensus pattern (20 bp):
TTTTTCTTTATTTTCTTTAT
Found at i:925988 original size:9 final size:9
Alignment explanation
Indices: 925924--925994 Score: 54
Period size: 9 Copynumber: 7.4 Consensus size: 9
925914 TTATTTTTAC
925924 TTTTTTATT
1 TTTTTTATT
925933 ATTGTTTTATT
1 -TT-TTTTATT
*
925944 TATATATT-TT
1 T-T-TTTTATT
* *
925954 TTTCTTCTT
1 TTTTTTATT
925963 TTTCTTTATT
1 TTT-TTTATT
*
925973 TTCTTTATT
1 TTTTTTATT
925982 TTTTTTATT
1 TTTTTTATT
925991 TTTT
1 TTTT
925995 ACTTACTATT
Statistics
Matches: 50, Mismatches: 7, Indels: 9
0.76 0.11 0.14
Matches are distributed among these distances:
8 3 0.06
9 24 0.48
10 12 0.24
11 11 0.22
ACGTcount: A:0.13, C:0.06, G:0.01, T:0.80
Consensus pattern (9 bp):
TTTTTTATT
Found at i:928998 original size:37 final size:37
Alignment explanation
Indices: 928943--929054 Score: 179
Period size: 37 Copynumber: 3.0 Consensus size: 37
928933 ATGCTTCTGG
* * *
928943 ATCATATTTTTAGAAGTTTGAATCATAGTAGAACTTT
1 ATCATATTTTTAGGAGTTTGAATCATAGTAAAACTCT
* *
928980 ATCCTATTTTTAGGAGTTTGAATCCTAGTAAAACTCT
1 ATCATATTTTTAGGAGTTTGAATCATAGTAAAACTCT
929017 ATCATATTTTTAGGAGTTTGAATCATAGTAAAACTCT
1 ATCATATTTTTAGGAGTTTGAATCATAGTAAAACTCT
929054 A
1 A
929055 ACGCTATGTT
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.41
Consensus pattern (37 bp):
ATCATATTTTTAGGAGTTTGAATCATAGTAAAACTCT
Found at i:929809 original size:83 final size:83
Alignment explanation
Indices: 929555--929810 Score: 286
Period size: 83 Copynumber: 3.1 Consensus size: 83
929545 ACTCGACAAT
* * * *
929555 TTTGTTGGCAGATAGCCCTTCTTGCCTTGAGCTATGCTATAAATTTGAT-TTGCCTCTGAGTTGA
1 TTTGTTGACAGATAACCCTTCTTGCCTTGAGTTATGCTACAAA--TGATGTTGCCTC-GAGTTGA
*
929619 ATGTAATCGAACTCGAAGGTC
63 GTGTAATCGAACTCGAAGGTC
* * * *
929640 TTTGATGACTGATAACCCTTCTTGCCTTGAGTTATGCTACAAATGATG-TGCCTTGGAGTTGAGC
1 TTTGTTGACAGATAACCCTTCTTGCCTTGAGTTATGCTACAAATGATGTTGCC-TCGAGTTGAGT
* **
929704 GTAGTCGAACTTAAAGGTC
65 GTAATCGAACTCGAAGGTC
* * *
929723 TTTGTTGACAGATAACCCTT-TTAGCCTTGAGTTATGCTGCAAATGATGTTCCCTCGAAGCTGAG
1 TTTGTTGACAGATAACCCTTCTT-GCCTTGAGTTATGCTACAAATGATGTTGCCTCG-AGTTGAG
*
929787 TGTAATCAAACTCGAAGG-C
64 TGTAATCGAACTCGAAGGTC
929806 TTTGT
1 TTTGT
929811 GGTTCAAGAG
Statistics
Matches: 143, Mismatches: 23, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
82 2 0.01
83 81 0.57
84 23 0.16
85 37 0.26
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.35
Consensus pattern (83 bp):
TTTGTTGACAGATAACCCTTCTTGCCTTGAGTTATGCTACAAATGATGTTGCCTCGAGTTGAGTG
TAATCGAACTCGAAGGTC
Found at i:929870 original size:30 final size:30
Alignment explanation
Indices: 929813--929874 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
929803 GGCTTTGTGG
* * *
929813 TTCAAGAGAAATATTTTCAAAGTTTTTTTT
1 TTCAAGAGAAACAATTTCAAAGGTTTTTTT
* *
929843 TTCAAGAGAAACAATTTCGATGGTTTTTTT
1 TTCAAGAGAAACAATTTCAAAGGTTTTTTT
929873 TT
1 TT
929875 TTTTTCAAGA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.08, G:0.13, T:0.48
Consensus pattern (30 bp):
TTCAAGAGAAACAATTTCAAAGGTTTTTTT
Found at i:929924 original size:36 final size:36
Alignment explanation
Indices: 929877--929991 Score: 144
Period size: 36 Copynumber: 3.2 Consensus size: 36
929867 TTTTTTTTTT
* *
929877 TTTCAAGAGAAACTGTCTCAAGAGGGATAAAATTTG
1 TTTCAAAAGAAACTGTCTCAAGAGGGACAAAATTTG
* *
929913 TTTCAAAAGAAACTGTCTCAAGAGAGACAAAACTTAG
1 TTTCAAAAGAAACTGTCTCAAGAGGGACAAAA-TTTG
*
929950 -TTCTAAAAGAAACTGTCTCAAG-GGAGACGAAATTTG
1 TTTC-AAAAGAAACTGTCTCAAGAGG-GACAAAATTTG
929986 TTTCAA
1 TTTCAA
929992 GGAAAAGATA
Statistics
Matches: 68, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
36 38 0.56
37 30 0.44
ACGTcount: A:0.41, C:0.14, G:0.19, T:0.26
Consensus pattern (36 bp):
TTTCAAAAGAAACTGTCTCAAGAGGGACAAAATTTG
Found at i:930088 original size:102 final size:102
Alignment explanation
Indices: 929909--930095 Score: 261
Period size: 102 Copynumber: 1.8 Consensus size: 102
929899 AGGGATAAAA
* * *
929909 TTTGTTTCAAAAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCTAAAAGAAACTGTCTCAAGGG
1 TTTGTTTCAAAAGAAACTATCCCAAGAGAGACAAAACTTAGTTCTAAAAGAAACTGTCTCAAGAG
*
929974 AGACGAAATTTGTTTCAAGGAAAAGATATTCAAAGAT
66 AGACAAAATTTGTTTCAAGGAAAAGATATTCAAAGAT
** * * *
930011 TTTGTTTCAAGGGAAACTATCCCAAGAGAGACAAAA-TTTGTT-TAAAGGGAAATTGTCTCAAGA
1 TTTGTTTCAAAAGAAACTATCCCAAGAGAGACAAAACTTAGTTCTAAA-AGAAACTGTCTCAAGA
930074 GAGACAAAATTTTGTTTCAAGG
65 GAGACAAAA-TTTGTTTCAAGG
930096 GAAACTGTCC
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
100 4 0.05
101 26 0.35
102 44 0.59
ACGTcount: A:0.40, C:0.12, G:0.20, T:0.28
Consensus pattern (102 bp):
TTTGTTTCAAAAGAAACTATCCCAAGAGAGACAAAACTTAGTTCTAAAAGAAACTGTCTCAAGAG
AGACAAAATTTGTTTCAAGGAAAAGATATTCAAAGAT
Found at i:930097 original size:37 final size:37
Alignment explanation
Indices: 930004--930105 Score: 152
Period size: 36 Copynumber: 2.8 Consensus size: 37
929994 AAAAGATATT
*
930004 CAAAGATTTTGTTTCAAGGGAAACTATCCCAAGAGAGA
1 CAAA-ATTTTGTTTCAAGGGAAACTGTCCCAAGAGAGA
* * *
930042 CAAAA-TTTGTTTAAAGGGAAATTGTCTCAAGAGAGA
1 CAAAATTTTGTTTCAAGGGAAACTGTCCCAAGAGAGA
930078 CAAAATTTTGTTTCAAGGGAAACTGTCC
1 CAAAATTTTGTTTCAAGGGAAACTGTCC
930106 TAAAATATGA
Statistics
Matches: 56, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
36 32 0.57
37 20 0.36
38 4 0.07
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.27
Consensus pattern (37 bp):
CAAAATTTTGTTTCAAGGGAAACTGTCCCAAGAGAGA
Found at i:930221 original size:29 final size:29
Alignment explanation
Indices: 930177--930254 Score: 93
Period size: 29 Copynumber: 2.7 Consensus size: 29
930167 CAAAATCATT
*
930177 CAAAAGTTTGAGAATGAATTTGGAACGTT
1 CAAAAGTTTGAGAATGAATTTGGAACGTC
* * * * *
930206 CTAAAGCTTGGGAATGAATATGGAATGTC
1 CAAAAGTTTGAGAATGAATTTGGAACGTC
*
930235 CAAAAGTTTGCGAATGAATT
1 CAAAAGTTTGAGAATGAATT
930255 CAAAATGAGA
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.37, C:0.09, G:0.24, T:0.29
Consensus pattern (29 bp):
CAAAAGTTTGAGAATGAATTTGGAACGTC
Found at i:935033 original size:34 final size:34
Alignment explanation
Indices: 934994--935078 Score: 161
Period size: 34 Copynumber: 2.5 Consensus size: 34
934984 CGATTATATA
934994 TATATATATAATATTTTATATTTTTTATATTAAT
1 TATATATATAATATTTTATATTTTTTATATTAAT
935028 TATATATATAATATTTTATATTTTTTATATTAAT
1 TATATATATAATATTTTATATTTTTTATATTAAT
*
935062 TATATATAAAATATTTT
1 TATATATATAATATTTT
935079 CGGATTCGGG
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 50 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (34 bp):
TATATATATAATATTTTATATTTTTTATATTAAT
Found at i:937264 original size:69 final size:67
Alignment explanation
Indices: 937175--937367 Score: 200
Period size: 64 Copynumber: 2.9 Consensus size: 67
937165 CCATGTATCT
*
937175 TTTAATATTCAAA-TCTAAATAGATAATAATATTTTTTTAATTTAAAATATTCAAAAG-ACATAG
1 TTTAATATTCAAAGT-TAAATAGATAATAATA--TTTTTAATTTGAAATATTCAAAAGTACATA-
937238 A-CACC
62 ATCACC
* * **
937243 TTCTACTATTCAAAGTTAAATAGATAAT--TA-TTTTAATTTGAAATTTTCAAAAGTGTATAATC
1 TT-TAATATTCAAAGTTAAATAGATAATAATATTTTTAATTTGAAATATTCAAAAGTACATAATC
*
937305 ATC
65 ACC
* *
937308 TTTAATATTCAAAGTTAAATAGATAATAAATACATTTTAATTTGACATATTCAAAGAGTA
1 TTTAATATTCAAAGTTAAATAGATAAT-AATA-TTTTTAATTTGAAATATTCAAA-AGTA
937368 ATTATCCTAC
Statistics
Matches: 105, Mismatches: 10, Indels: 18
0.79 0.08 0.14
Matches are distributed among these distances:
64 46 0.44
65 8 0.08
67 4 0.04
68 2 0.02
69 41 0.39
70 4 0.04
ACGTcount: A:0.45, C:0.09, G:0.07, T:0.40
Consensus pattern (67 bp):
TTTAATATTCAAAGTTAAATAGATAATAATATTTTTAATTTGAAATATTCAAAAGTACATAATCA
CC
Found at i:945081 original size:104 final size:108
Alignment explanation
Indices: 944847--945084 Score: 243
Period size: 109 Copynumber: 2.2 Consensus size: 108
944837 ATTAATTTTT
* ** * * *
944847 GTCCCCTTACTTTACGCATGATTTTGCATGTTAGTCACCTGTAGGGACTTCTTTTGCGATTTACC
1 GTCCCCCTACTTTACGTGTGTTTTTGCATGTTAGTAACCTATAGGGACTTCTTTTGCGATTTACC
* * *
944912 CATTTTTATGCATGATATGTAATTTTTGGTATATTTACAGTTTA
66 AATTTTTATGCATGATA-GTAATTTTTGGTAAAATTACAGTTTA
* ** *
944956 GTCCCCCTACTTTACTTGTGTTTTTGCATGTTAGTAACCTATAGGGA-TT-TTTT-TTATTTTCC
1 GTCCCCCTACTTTACGTGTGTTTTTGCATGTTAGTAACCTATAGGGACTTCTTTTGCGATTTACC
* * ** *
945018 AATTTTTATGCATGCTA-TATTTTTTGGTAAAATTACTTTTTG
66 AATTTTTATGCATGATAGTAATTTTTGGTAAAATTACAGTTTA
* *
945060 GTCCCTCTAAGTTTA-GTGTGTTTTT
1 GTCCCCCT-ACTTTACGTGTGTTTTT
945085 ATATTTTGGT
Statistics
Matches: 107, Mismatches: 21, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
104 35 0.33
105 5 0.05
106 21 0.20
107 4 0.04
108 2 0.02
109 40 0.37
ACGTcount: A:0.20, C:0.16, G:0.16, T:0.49
Consensus pattern (108 bp):
GTCCCCCTACTTTACGTGTGTTTTTGCATGTTAGTAACCTATAGGGACTTCTTTTGCGATTTACC
AATTTTTATGCATGATAGTAATTTTTGGTAAAATTACAGTTTA
Found at i:946710 original size:38 final size:38
Alignment explanation
Indices: 946629--946711 Score: 116
Period size: 38 Copynumber: 2.2 Consensus size: 38
946619 ACTTTATTTT
946629 GTTCGGGTCGGGTTTTTTAAGTGAGATATTCGGGTCGA
1 GTTCGGGTCGGGTTTTTTAAGTGAGATATTCGGGTCGA
* * *
946667 G-TCGGGTCAGGTTTTTTTAAGTGTGAT-TTCGGGTCGG
1 GTTCGGGTC-GGGTTTTTTAAGTGAGATATTCGGGTCGA
946704 GTTCGGGT
1 GTTCGGGT
946712 TTAGGGTGAA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
37 17 0.43
38 23 0.57
ACGTcount: A:0.12, C:0.11, G:0.39, T:0.39
Consensus pattern (38 bp):
GTTCGGGTCGGGTTTTTTAAGTGAGATATTCGGGTCGA
Found at i:946933 original size:39 final size:38
Alignment explanation
Indices: 946858--946936 Score: 106
Period size: 38 Copynumber: 2.1 Consensus size: 38
946848 TCGAGTCGGA
*
946858 TTTTTTAAGTGTGATATTCGGGTCGAGTCGGGTCGGGT
1 TTTTTTAAGTGTGATATTCGGGTCGAGTAGGGTCGGGT
* *
946896 TTTTTTAAGTGTGATATTTGGGTC-AGGTTAGGTTCGGGT
1 TTTTTTAAGTGTGATATTCGGGTCGA-G-TAGGGTCGGGT
946935 TT
1 TT
946937 AGGGTGAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
37 1 0.03
38 24 0.67
39 11 0.31
ACGTcount: A:0.14, C:0.08, G:0.34, T:0.44
Consensus pattern (38 bp):
TTTTTTAAGTGTGATATTCGGGTCGAGTAGGGTCGGGT
Found at i:947484 original size:16 final size:18
Alignment explanation
Indices: 947463--947508 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
947453 TATGGAATTG
947463 GATTCCAATTCC-T-ACA
1 GATTCCAATTCCTTCACA
947479 GATTCCAATTCCTTCACA
1 GATTCCAATTCCTTCACA
947497 GATTCCAATTCC
1 GATTCCAATTCC
947509 CTCATAAACA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
16 12 0.43
17 1 0.04
18 15 0.54
ACGTcount: A:0.28, C:0.33, G:0.07, T:0.33
Consensus pattern (18 bp):
GATTCCAATTCCTTCACA
Found at i:947696 original size:18 final size:16
Alignment explanation
Indices: 947656--947701 Score: 65
Period size: 18 Copynumber: 2.8 Consensus size: 16
947646 AATGGAATTG
947656 GATTCCAATTCCTACA
1 GATTCCAATTCCTACA
*
947672 GACTCCAATTCCTTCACA
1 GATTCCAATTCC-T-ACA
947690 GATTCCAATTCC
1 GATTCCAATTCC
947702 CTCATAAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
16 11 0.42
17 1 0.04
18 14 0.54
ACGTcount: A:0.28, C:0.35, G:0.07, T:0.30
Consensus pattern (16 bp):
GATTCCAATTCCTACA
Found at i:947740 original size:193 final size:194
Alignment explanation
Indices: 947410--947799 Score: 746
Period size: 193 Copynumber: 2.0 Consensus size: 194
947400 ATTTTACATT
947410 ACTGAAATCAAATTCATCTGACATGTCTGCGAACCAAACAGAATATGGAATTGGATTCCAATTCC
1 ACTGAAATCAAATTCATCTGACATGTCTGCGAACCAAACAGAATATGGAATTGGATTCCAATTCC
*
947475 TACAGATTCCAATTCCTTCACAGATTCCAATTCCCTCATAAACATTCCAGCGAACCAAACGCCAC
66 TACAGACTCCAATTCCTTCACAGATTCCAATTCCCTCATAAACATTCCAGCGAACCAAACGCCAC
947540 CTAAGGTAATGTTCACTTATTAGGGAATTAATGGTGTATCTCCCGCAAGTATACTCAGGGGCTG
131 CTAAGGTAATGTTCACTTATTAGGGAATTAATGGTGTATCTCCCGCAAGTATACTCAGGGGCTG
*
947604 ACTGAAATCAAATTCATCTGACATGTCTGCGAACCAAATAGAA-ATGGAATTGGATTCCAATTCC
1 ACTGAAATCAAATTCATCTGACATGTCTGCGAACCAAACAGAATATGGAATTGGATTCCAATTCC
*
947668 TACAGACTCCAATTCCTTCACAGATTCCAATTCCCTCATAAACATTCCAGCGAACCAAACGCCTC
66 TACAGACTCCAATTCCTTCACAGATTCCAATTCCCTCATAAACATTCCAGCGAACCAAACGCCAC
947733 CTAAGGTAATGTTCACTTATTAGGGAATTAATGGTGTATCTCCCGCAAGTATACTCAGGGGCTG
131 CTAAGGTAATGTTCACTTATTAGGGAATTAATGGTGTATCTCCCGCAAGTATACTCAGGGGCTG
947797 ACT
1 ACT
947800 TGTTATGATT
Statistics
Matches: 193, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
193 151 0.78
194 42 0.22
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (194 bp):
ACTGAAATCAAATTCATCTGACATGTCTGCGAACCAAACAGAATATGGAATTGGATTCCAATTCC
TACAGACTCCAATTCCTTCACAGATTCCAATTCCCTCATAAACATTCCAGCGAACCAAACGCCAC
CTAAGGTAATGTTCACTTATTAGGGAATTAATGGTGTATCTCCCGCAAGTATACTCAGGGGCTG
Found at i:958169 original size:59 final size:59
Alignment explanation
Indices: 958057--958172 Score: 144
Period size: 59 Copynumber: 2.0 Consensus size: 59
958047 CAAACAACAT
* * *
958057 GATGTTTTCAAAAGAATTTTTAAAGAAACCAGGTCTGATTTTCAGAGGCTTCTTGATAG
1 GATGTTTTCAAAAGAATTTTTAAAGAAACCAAGCCTAATTTTCAGAGGCTTCTTGATAG
** * * *
958116 GATGTTTTCAAATTAATTTTTAAAAGAAACTAAGCCTAATTTT-AGGGGTTTCTTGAT
1 GATGTTTTCAAAAGAATTTTT-AAAGAAACCAAGCCTAATTTTCAGAGGCTTCTTGAT
958173 GTTTTCAAAT
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
59 31 0.65
60 17 0.35
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.39
Consensus pattern (59 bp):
GATGTTTTCAAAAGAATTTTTAAAGAAACCAAGCCTAATTTTCAGAGGCTTCTTGATAG
Found at i:958246 original size:55 final size:55
Alignment explanation
Indices: 958142--958288 Score: 160
Period size: 55 Copynumber: 2.7 Consensus size: 55
958132 TTTTTAAAAG
* *
958142 AAACTAAGCCTAATTTT-AGGGGTTT-CT--TGATGTTTTCA-AATGAGCTTTTTAA
1 AAACTAAGCCTAATTTTCAGGGGTTTCCTAATGATGATTT-ATAATGA-ATTTTTAA
* *
958194 AAACTAAGCTTGATTTTCAGGGGTTTCCTAATGATGATTTATAATGAATTTTTAA
1 AAACTAAGCCTAATTTTCAGGGGTTTCCTAATGATGATTTATAATGAATTTTTAA
* * * * *
958249 GAAGTAAGCCTAATTTTTAGGGGTTTCTTAATGATAATTT
1 AAACTAAGCCTAATTTTCAGGGGTTTCCTAATGATGATTT
958289 TAAACGAAAG
Statistics
Matches: 79, Mismatches: 11, Indels: 7
0.81 0.11 0.07
Matches are distributed among these distances:
52 15 0.19
53 8 0.10
54 2 0.03
55 41 0.52
56 13 0.16
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.42
Consensus pattern (55 bp):
AAACTAAGCCTAATTTTCAGGGGTTTCCTAATGATGATTTATAATGAATTTTTAA
Found at i:958850 original size:197 final size:200
Alignment explanation
Indices: 958462--958851 Score: 527
Period size: 197 Copynumber: 1.9 Consensus size: 200
958452 GGGCATGATG
* *
958462 TTTTCAACATTTCCTTTGCTCGATTCACAACACTTCTAATCAGCAATGCCCCACTTGAGGGATTA
1 TTTTCAACATTTCCTTTGCTCGATTCACAACACTTCAAATAAGCAATGCCCCACTTGAGGGATTA
*
958527 ACATTTCCTATTGCTCGATTCACAGCATTTCGAATCAGAAAAAGTCCTTCAGGCCATTAGTAAGT
66 ACATTTCCTATTGCTCGATTCACAGCA--T--AATCAGAAAAAGTCCTTCAGGCCATCAGTAAGT
* * * *
958592 CTTTCGAGCATGATGATTAAATCCTTCGAATCGTCTATAAGTCTTTCTAGCAAGATGATAAGTCC
127 CTTTCGAGCATGATGATTAAATCATTCGAATCATCTATAAGTATTTCGAGCAAGATGATAAGTCC
958657 TTTGGGCCA
192 TTTGGGCCA
** * *
958666 TTTTC-ACATTTCCTATTGCTCGATTCACGGCATTTCAAATAAGTAATGCCCCACTTGAGGGATT
1 TTTTCAACATTTCCT-TTGCTCGATTCACAACACTTCAAATAAGCAATGCCCCACTTGAGGGATT
* * * **
958730 AACATTTCCTATTGTTCGATTCA-TG-A-AATCAGTAAAAGTCCTTTGGGCCATCAGTAAGTCTT
65 AACATTTCCTATTGCTCGATTCACAGCATAATCAGAAAAAGTCCTTCAGGCCATCAGTAAGTCTT
* * * *
958792 TCGAGTATGTTGCTTAAATCATTCGAGTCATCTATAAGTATTTCGAGCAAGATGATAAGT
130 TCGAGCATGATGATTAAATCATTCGAATCATCTATAAGTATTTCGAGCAAGATGATAAGT
958852 TATTCGGGCC
Statistics
Matches: 165, Mismatches: 20, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
197 84 0.51
202 1 0.01
203 10 0.06
204 70 0.42
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.34
Consensus pattern (200 bp):
TTTTCAACATTTCCTTTGCTCGATTCACAACACTTCAAATAAGCAATGCCCCACTTGAGGGATTA
ACATTTCCTATTGCTCGATTCACAGCATAATCAGAAAAAGTCCTTCAGGCCATCAGTAAGTCTTT
CGAGCATGATGATTAAATCATTCGAATCATCTATAAGTATTTCGAGCAAGATGATAAGTCCTTTG
GGCCA
Found at i:971142 original size:80 final size:83
Alignment explanation
Indices: 971038--971192 Score: 246
Period size: 80 Copynumber: 1.9 Consensus size: 83
971028 AGGGCCCCCA
** *
971038 AAAAATATGACCCCAAAAAAGTATATATATAGTGGTGTTTTTCCAATAAACGCC-ACTATAGATG
1 AAAAATATGACCCCAAAAAAGTATATATATAGTGGCATTTTTCCAATAAACACCAAC-ATAGATG
971102 GACCTATTGCGTACAACCC
65 GACCTATTGCGTACAACCC
971121 AAAAA-ATG-CCCC-AAAAAGTATATATATAGTGGCATTTTTCCAATAAACACCAACATAGATGG
1 AAAAATATGACCCCAAAAAAGTATATATATAGTGGCATTTTTCCAATAAACACCAACATAGATGG
971183 ACCTATTGCG
66 ACCTATTGCG
971193 ACGTTTTTAC
Statistics
Matches: 68, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
80 54 0.79
81 6 0.09
82 3 0.04
83 5 0.07
ACGTcount: A:0.40, C:0.20, G:0.14, T:0.26
Consensus pattern (83 bp):
AAAAATATGACCCCAAAAAAGTATATATATAGTGGCATTTTTCCAATAAACACCAACATAGATGG
ACCTATTGCGTACAACCC
Found at i:972175 original size:12 final size:12
Alignment explanation
Indices: 972160--972202 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
972150 ATACTCCGAC
*
972160 TCTTCCTCCTCT
1 TCTTCTTCCTCT
*
972172 TCTTCTTCCACT
1 TCTTCTTCCTCT
*
972184 TCCTCTTCCTCT
1 TCTTCTTCCTCT
*
972196 TCCTCTT
1 TCTTCTT
972203 GCTCCTCCAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.02, C:0.47, G:0.00, T:0.51
Consensus pattern (12 bp):
TCTTCTTCCTCT
Found at i:972178 original size:6 final size:6
Alignment explanation
Indices: 972166--972202 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
972156 CGACTCTTCC
* *
972166 TCCTCT TCTTCT TCCACT TCCTCT TCCTCT TCCTCT T
1 TCCTCT TCCTCT TCCTCT TCCTCT TCCTCT TCCTCT T
972203 GCTCCTCCAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.03, C:0.46, G:0.00, T:0.51
Consensus pattern (6 bp):
TCCTCT
Found at i:972831 original size:29 final size:29
Alignment explanation
Indices: 972760--972831 Score: 74
Period size: 29 Copynumber: 2.4 Consensus size: 29
972750 AAGGTTAATT
* *
972760 GAAAAATAAATATTAAATAAATTGAAGAGA
1 GAAAAATAAA-AATAAATAAATTGAAAAGA
* *
972790 GAAAACA-ATAAATAAATAGATTGAAAAGA
1 GAAAA-ATAAAAATAAATAAATTGAAAAGA
*
972819 TAAAAATAAAAAT
1 GAAAAATAAAAAT
972832 TTAAGAAGAA
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
28 1 0.03
29 25 0.74
30 7 0.21
31 1 0.03
ACGTcount: A:0.67, C:0.01, G:0.11, T:0.21
Consensus pattern (29 bp):
GAAAAATAAAAATAAATAAATTGAAAAGA
Found at i:974358 original size:3 final size:3
Alignment explanation
Indices: 974339--974376 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
974329 CAATCAAAAT
*
974339 TAA TAA TAT TAA T-A TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
974377 ATAAATATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:975323 original size:71 final size:71
Alignment explanation
Indices: 975239--975374 Score: 182
Period size: 71 Copynumber: 1.9 Consensus size: 71
975229 AGCTGAATAG
* * *
975239 AATCGAACTCGAAGGTATTTGTTAACAGATAGCCCTTCTCGCCTTGAGCTATGATATAAATTTGA
1 AATCGAACTCGAAGGTATTTATTAACAGATAACCCTTCTCGCCTTAAGCTATGATATAAATTTGA
975304 CATTAT
66 CATTAT
* * * * * * *
975310 AATCGAACTCGAAGGTCTTTATTGACAGATAACCCTTTTCGCTTTAAGTTATGCTGTAAATTTGA
1 AATCGAACTCGAAGGTATTTATTAACAGATAACCCTTCTCGCCTTAAGCTATGATATAAATTTGA
975375 TATGTCTTTG
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
71 55 1.00
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (71 bp):
AATCGAACTCGAAGGTATTTATTAACAGATAACCCTTCTCGCCTTAAGCTATGATATAAATTTGA
CATTAT
Found at i:975431 original size:85 final size:85
Alignment explanation
Indices: 975309--975877 Score: 753
Period size: 85 Copynumber: 6.7 Consensus size: 85
975299 TTTGACATTA
* * * *
975309 TAATCGAACTCGAAGGTCTTTATTGACAGATAACCCTTTTCGCTTTAAGTTATGCTGTAAATTTG
1 TAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAATTTG
*
975374 ATATGTCTTTGAGCTGAATG
66 ATATGCCTTTGAGCTGAATG
* * * * * *
975394 TAATCAAACTCGAAGGTCTTGGTTGACATATAGCCCTTCTCGCTTTGAGTTATGATGTAAATTTG
1 TAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAATTTG
*
975459 ATATGCCTTTGAGATGAATG
66 ATATGCCTTTGAGCTGAATG
* *** *
975479 TAATCGAACTCGAAGGTCTTGGTTGACAGATAACCCTTCTTTACTTGAGTTATGTTGTAAATTTG
1 TAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAATTTG
*
975544 ATATTCCTTTGAGCTGAATG
66 ATATGCCTTTGAGCTGAATG
* * * * * *
975564 TAATCGAACTCAAAGGTCTTGGTTAACAGATAACCCTTCTCGCCTTGAGTTATTCCGCAAATTTG
1 TAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAATTTG
* *
975629 ATATGCATTTTAGCTGAATG
66 ATATGCCTTTGAGCTGAATG
* * * * *
975649 TAATCGAGCTCGAAGGTCTTTGTTGACAGATAGCCCTTATCGCCTTGAGCTATACTGT-AATTTG
1 TAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAATTTG
975713 ATATGCCTTTGAGCTGAATG
66 ATATGCCTTTGAGCTGAATG
* * * * *
975733 TAATCGAGCTCAAAGGTCTTTGTTGACACATAACCCTTCTCGCCTTGAGCTATGCTGTGAATTTG
1 TAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAATTTG
975798 ATATGCCTTTGAGCTGAATG
66 ATATGCCTTTGAGCTGAATG
* * * * * *
975818 TAATCGAACTCGAAGGTCTTTATTGACAGATAGCCCTTTTCTCCTTGAGCTATGTTGTAA
1 TAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTAA
975878 TAGGCTGGGA
Statistics
Matches: 425, Mismatches: 58, Indels: 2
0.88 0.12 0.00
Matches are distributed among these distances:
84 77 0.18
85 348 0.82
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (85 bp):
TAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAATTTG
ATATGCCTTTGAGCTGAATG
Found at i:977727 original size:83 final size:89
Alignment explanation
Indices: 977596--977815 Score: 269
Period size: 94 Copynumber: 2.5 Consensus size: 89
977586 GGCTAGCTGA
*
977596 ATCCATAAAG-TCGGGGCGTTTAACCAATTGCTCTAGAGGGACAGCTC-A-AT-ATA-TA-AA-C
1 ATCCATAAAGCT-GGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAATATAATATTATAATC
*
977654 ACCTTTATCAGGTTAGCTGAATCTT
65 ACCTTTATCAGGCTAGCTGAATCTT
* *
977679 ATCCATAAAGCTGGGGCATTTAACCAATTGC-CTTAGAGGGATAACTCAAGCTTTATAGATATTA
1 ATCCATAAAGCTGGGGCGTTTAACCAATTGCTC-TAGAGGGACAACTCAA----TATA-ATATTA
977743 TAATCACCTTTATCAGGCTAGCTGAATCTT
60 TAATCACCTTTATCAGGCTAGCTGAATCTT
977773 ATCCATAAAGCTGGGGCGTTTAACCAA-TGTCTCTAGAGGGACA
1 ATCCATAAAGCTGGGGCGTTTAACCAATTG-CTCTAGAGGGACA
977816 GTTCAAGATT
Statistics
Matches: 116, Mismatches: 6, Indels: 19
0.82 0.04 0.13
Matches are distributed among these distances:
82 1 0.01
83 40 0.34
84 2 0.02
89 2 0.02
91 3 0.03
92 2 0.02
93 4 0.03
94 61 0.53
95 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (89 bp):
ATCCATAAAGCTGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAATATAATATTATAATCA
CCTTTATCAGGCTAGCTGAATCTT
Found at i:977822 original size:94 final size:96
Alignment explanation
Indices: 977644--977842 Score: 287
Period size: 94 Copynumber: 2.1 Consensus size: 96
977634 GGACAGCTCA
* *
977644 ATATATAAACACCTTTATCAGGTTAGCTGAATCTTATCCATAAAGCTGGGGCATTTAACCAATTG
1 ATATATAATCACCTTTATCAGGCTAGCTGAATCTTATCCATAAAGCTGGGGCATTTAACCAATTG
* *
977709 CCTTAGAGGGATAACTCAAGCTTTATAG-AT
66 CCTTAGAGGGACAACTCAAGATTTATAGAAT
*
977739 AT-TATAATCACCTTTATCAGGCTAGCTGAATCTTATCCATAAAGCTGGGGCGTTTAACCAA-TG
1 ATATATAATCACCTTTATCAGGCTAGCTGAATCTTATCCATAAAGCTGGGGCATTTAACCAATTG
* ** *
977802 TCTCTAGAGGGACAGTTCAAGATTTATTGAAT
66 CCT-TAGAGGGACAACTCAAGATTTATAGAAT
977834 ATATATAAT
1 ATATATAAT
977843 ATTATAATAT
Statistics
Matches: 92, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
93 4 0.04
94 76 0.83
95 6 0.07
96 6 0.07
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (96 bp):
ATATATAATCACCTTTATCAGGCTAGCTGAATCTTATCCATAAAGCTGGGGCATTTAACCAATTG
CCTTAGAGGGACAACTCAAGATTTATAGAAT
Found at i:981824 original size:29 final size:27
Alignment explanation
Indices: 981791--981865 Score: 68
Period size: 23 Copynumber: 2.9 Consensus size: 27
981781 AAATAAATAT
981791 TAAATAAATTAAAGAGAGAAAAAAATAAA
1 TAAATAAATT-AAGA-AGAAAAAAATAAA
* * *
981820 TAAATAGATTGAGAAGATAAAAAT-AA
1 TAAATAAATTAAGAAGAAAAAAATAAA
*
981846 -AAAT--GTTAAGAAGAAAAAAA
1 TAAATAAATTAAGAAGAAAAAAA
981866 ATGAAAAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
23 13 0.32
25 4 0.10
26 2 0.05
27 9 0.22
28 3 0.08
29 9 0.22
ACGTcount: A:0.68, C:0.00, G:0.13, T:0.19
Consensus pattern (27 bp):
TAAATAAATTAAGAAGAAAAAAATAAA
Found at i:981999 original size:25 final size:26
Alignment explanation
Indices: 981939--982008 Score: 72
Period size: 27 Copynumber: 2.7 Consensus size: 26
981929 TATAAATGCG
*
981939 AAAAGAAATAAAAAAATATGATAATT
1 AAAAAAAATAAAAAAATATGATAATT
*
981965 AAAATAAAATAAAAATATAT-ATACA-T
1 AAAA-AAAATAAAAAAATATGATA-ATT
* *
981991 AAAACAAATAAATAAATA
1 AAAAAAAATAAAAAAATA
982009 ACTAAAAATG
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
25 11 0.30
26 12 0.32
27 14 0.38
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.23
Consensus pattern (26 bp):
AAAAAAAATAAAAAAATATGATAATT
Found at i:982063 original size:30 final size:32
Alignment explanation
Indices: 982003--982063 Score: 74
Period size: 30 Copynumber: 2.0 Consensus size: 32
981993 AACAAATAAA
*
982003 TAAATAACTAAAAATGTAAAGGATCCAAATAG
1 TAAATAACTAAAAATGTAAAGGATCAAAATAG
*
982035 TAAA-AACTAAAAGT-TAAAGGA-CTAAAATA
1 TAAATAACTAAAAATGTAAAGGATC-AAAATA
982064 TCAAAAATGG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
29 1 0.04
30 12 0.46
31 9 0.35
32 4 0.15
ACGTcount: A:0.59, C:0.08, G:0.11, T:0.21
Consensus pattern (32 bp):
TAAATAACTAAAAATGTAAAGGATCAAAATAG
Found at i:983376 original size:2 final size:2
Alignment explanation
Indices: 983364--983392 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
983354 ATAATAATAA
983364 AT AT A- 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
983393 CTTTTTGCCC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:988220 original size:20 final size:20
Alignment explanation
Indices: 988195--988246 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
988185 AGGTAAGAGA
988195 AGTATCGATACTCTTTAGGT
1 AGTATCGATACTCTTTAGGT
988215 AGTATCGATACTCTTTAGGT
1 AGTATCGATACTCTTTAGGT
988235 AGTATCGATACT
1 AGTATCGATACT
988247 ACCATATGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.38
Consensus pattern (20 bp):
AGTATCGATACTCTTTAGGT
Found at i:992560 original size:31 final size:29
Alignment explanation
Indices: 992512--992570 Score: 75
Period size: 31 Copynumber: 2.0 Consensus size: 29
992502 ATTTCAAAAT
992512 TATAATTATGAAAAAAATATATTAATTTATA
1 TATAATTATGAAAAAAATAT-TT-ATTTATA
*
992543 TATATTTAT-AAATAAAATATTTATTTAT
1 TATAATTATGAAA-AAAATATTTATTTAT
992571 TTAGAAATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 6 0.23
30 5 0.19
31 15 0.58
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (29 bp):
TATAATTATGAAAAAAATATTTATTTATA
Found at i:992675 original size:20 final size:20
Alignment explanation
Indices: 992629--992667 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
992619 CTTCGATATT
992629 AAAAAATAAATAAATAATTA
1 AAAAAATAAATAAATAATTA
* *
992649 AAAAAATTAATATATAATT
1 AAAAAATAAATAAATAATT
992668 TATAAAATAG
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:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (20 bp):
AAAAAATAAATAAATAATTA
Found at i:992778 original size:120 final size:120
Alignment explanation
Indices: 992539--992769 Score: 308
Period size: 120 Copynumber: 1.9 Consensus size: 120
992529 TATATTAATT
* * *
992539 TATATATATTTATAAATAAAATATTTATTTATTTAGAAATATCAGAAAAGGACTTCTAGGTGCCT
1 TATATATATTTATAAATAAAATATTTATTTATTTAAAAATATCAGAAAAGGACATCCAGGTGCCT
* *
992604 TAAGACAGCTCTTTTCTTCGATATTAAAAAATAAATAAATAATTAAAAAAATTAA
66 TAAGACAGCTCCTTTCTTCAATATTAAAAAATAAATAAATAATTAAAAAAATTAA
** * *
992659 TATATA-ATTTATAAAATAGGATATTTATTTATTTAAAAATATCAGAAAATGGACATCCAGTTGT
1 TATATATATTTAT-AAATAAAATATTTATTTATTTAAAAATATCAGAAAA-GGACATCCAGGTGC
* * *
992723 TTTAAGACTGC-CCTTTCTT-AATATTGAAAAATAAATAAAT-ATTAAAA
64 CTTAAGACAGCTCCTTTCTTCAATATTAAAAAATAAATAAATAATTAAAA
992770 CAGGATTAAA
Statistics
Matches: 97, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
118 7 0.07
119 25 0.26
120 46 0.47
121 19 0.20
ACGTcount: A:0.46, C:0.08, G:0.09, T:0.37
Consensus pattern (120 bp):
TATATATATTTATAAATAAAATATTTATTTATTTAAAAATATCAGAAAAGGACATCCAGGTGCCT
TAAGACAGCTCCTTTCTTCAATATTAAAAAATAAATAAATAATTAAAAAAATTAA
Found at i:993803 original size:21 final size:20
Alignment explanation
Indices: 993777--993816 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
993767 CTGGATGTTG
993777 TCCCCTCTTTCTATTTTTTTC
1 TCCCCTCTTTCT-TTTTTTTC
*
993798 TCCCCTTTTTCTTTTTTTT
1 TCCCCTCTTTCTTTTTTTT
993817 GTTTGCAGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.03, C:0.30, G:0.00, T:0.68
Consensus pattern (20 bp):
TCCCCTCTTTCTTTTTTTTC
Found at i:994252 original size:3 final size:3
Alignment explanation
Indices: 994246--994298 Score: 51
Period size: 3 Copynumber: 19.0 Consensus size: 3
994236 ATTATTTATT
* * *
994246 TAA TAA TAA AAA T-A TAA T-A TAA TAA TAA TAT TAA -AA CAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
994290 TAA TAA TAA
1 TAA TAA TAA
994299 ATAAAACAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
2 8 0.19
3 34 0.81
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:994252 original size:22 final size:20
Alignment explanation
Indices: 994220--994301 Score: 76
Period size: 22 Copynumber: 4.0 Consensus size: 20
994210 GGCCTGTAAA
994220 AATATAATAATAATAAATTATT
1 AATATAATAATAATAAA-TA-T
* *
994242 TATTTAATAATAA-AAATAT
1 AATATAATAATAATAAATAT
* *
994261 AATATAATAATAATATTAAAAC
1 AATATAATAATAATA--AATAT
*
994283 AAAATAATAATAATAAATA
1 AATATAATAATAATAAATA
994302 AAACAAATGA
Statistics
Matches: 49, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
19 12 0.24
20 6 0.12
21 3 0.06
22 28 0.57
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.35
Consensus pattern (20 bp):
AATATAATAATAATAAATAT
Found at i:994267 original size:16 final size:17
Alignment explanation
Indices: 994216--994304 Score: 62
Period size: 16 Copynumber: 5.3 Consensus size: 17
994206 AATGGGCCTG
994216 TAAAAATATAATAATAA
1 TAAAAATATAATAATAA
* * *
994233 TAAATTATTTATTTAATAA
1 TAAA-AATATA-ATAATAA
994252 TAAAAATATAAT-ATAA
1 TAAAAATATAATAATAA
*
994268 TAATAATAT--TAA-AA
1 TAAAAATATAATAATAA
*
994282 -CAAAATAATAATAATAAA
1 TAAAAAT-ATAATAAT-AA
994300 TAAAA
1 TAAAA
994305 CAAATGAAAT
Statistics
Matches: 53, Mismatches: 10, Indels: 16
0.67 0.13 0.20
Matches are distributed among these distances:
13 4 0.08
14 5 0.09
15 1 0.02
16 15 0.28
17 5 0.09
18 10 0.19
19 13 0.25
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.34
Consensus pattern (17 bp):
TAAAAATATAATAATAA
Found at i:994268 original size:19 final size:22
Alignment explanation
Indices: 994220--994275 Score: 73
Period size: 19 Copynumber: 2.7 Consensus size: 22
994210 GGCCTGTAAA
994220 AATATAATAATAATAAATTATT
1 AATATAATAATAATAAATTATT
* *
994242 TATTTAATAATAA-AAA-TA-T
1 AATATAATAATAATAAATTATT
994261 AATATAATAATAATA
1 AATATAATAATAATA
994276 TTAAAACAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 12 0.41
20 3 0.10
21 3 0.10
22 11 0.38
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (22 bp):
AATATAATAATAATAAATTATT
Found at i:994309 original size:22 final size:22
Alignment explanation
Indices: 994246--994309 Score: 69
Period size: 22 Copynumber: 2.9 Consensus size: 22
994236 ATTATTTATT
* *
994246 TAATAATAAA-AATATAATATAA
1 TAATAATAAATAAAACAA-ATAA
*
994268 TAATAAT-ATTAAAACAAAATAA
1 TAATAATAAATAAAAC-AAATAA
994290 TAATAATAAATAAAACAAAT
1 TAATAATAAATAAAACAAAT
994310 GAAATAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
21 1 0.03
22 25 0.71
23 9 0.26
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (22 bp):
TAATAATAAATAAAACAAATAA
Found at i:994644 original size:68 final size:69
Alignment explanation
Indices: 994511--994644 Score: 189
Period size: 68 Copynumber: 2.0 Consensus size: 69
994501 TTTATCTCCT
* * * *
994511 TCTTCAGATGAGTTCTTCTTATTATGAACTTCTTCTGGAAATGCTGATATTGATCGATCTTCTTC
1 TCTTCAGATGAGTTCTTCTCATTATGAACTACTTCTGGAAATGCTGATACTGATCGATCTCCTTC
994576 TTCA
66 TTCA
* * * *
994580 TCTTCAGATGAGTTTTTCTCATTATGAA-TACTTCTGGAAATGTTGATGCTGATCTATCTCCTTC
1 TCTTCAGATGAGTTCTTCTCATTATGAACTACTTCTGGAAATGCTGATACTGATCGATCTCCTTC
994644 T
66 T
994645 GTGATAGAAT
Statistics
Matches: 57, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
68 31 0.54
69 26 0.46
ACGTcount: A:0.22, C:0.19, G:0.15, T:0.45
Consensus pattern (69 bp):
TCTTCAGATGAGTTCTTCTCATTATGAACTACTTCTGGAAATGCTGATACTGATCGATCTCCTTC
TTCA
Found at i:994881 original size:112 final size:109
Alignment explanation
Indices: 994658--995404 Score: 828
Period size: 112 Copynumber: 6.8 Consensus size: 109
994648 ATAGAATCAT
* * *
994658 AAAA-GTTGAACAAATTCTTCTTATTA-GAACTTCTTCTTCC-TCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTTTTCCTTCTTCAGATGAGTTCTTCTCAT
* * * *
994720 TATGAACTCTAACTGGCACTGCTGATTCA-CTGAGTGATGAATTTAAAC
66 TATGAACTCT--CTGGAAATGTTGATCCATC-GAGTGATGAA-TT-AAC
994768 AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTTTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTTTTCCTTCTTCAGATGAGTTCTTCTCAT
*
994833 TATGAACTCGACTGGAAA---TG---C-T-GA-T-A--AATTCAAGC
66 TATGAACTC-TCTGGAAATGTTGATCCATCGAGTGATGAATT-AA-C
* *
994868 AAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTTTTCCTTCTTCAGATGAGTTCTTCTCAT
* * * *
994933 TGTGAACTTTCTCTGGAAAAGTTGATCCATCAAGTGATGAATTTAC
66 TATGAAC--TCTCTGGAAATGTTGATCCATCGAGTGATGAATTAAC
* *
994979 ACAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTT-CTTCTTCAGATGAGTTCTTCTC
1 A-AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTT-TTTCCTTCTTCAGATGAGTTCTTCTC
* * * * *
995043 ATTATGAACTCTAACTGGCACTATTGATTCACCGAGTGATGAATTTAAAC
64 ATTATGAACTCT--CTGGAAATGTTGATCCATCGAGTGATGAA-TT-AAC
* *
995093 AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTGTTTTTCCTTCTTCAGAAGAGTTCTTCTCAT
1 AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTTTTCCTTCTTCAGATGAGTTCTTCTCAT
* * * *
995158 TATGAACTCTTCTGGAAAAGTTGATCCATCGAGTAATGGATTTGAGC
66 TATGAACTC-TCTGGAAATGTTGATCCATCGAGTGAT-GAATT-AAC
* *
995205 AAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTT-CTTCTTCAGATAAGTTCTTCTCA
1 AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTT-TTTCCTTCTTCAGATGAGTTCTTCTCA
* * * *
995269 TTATGAGCTTTCTGGTAATGTTGATCCATCGAGTGAGGAATTTAAGC
65 TTATGAACTCTCTGGAAATGTTGATCCATCGAGTGATGAA-TTAA-C
* *
995316 AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCAT
1 AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTTTTCCTTCTTCAGATGAGTTCTTCTCAT
* * *
995381 TATGAATTCTTTGGAAATGCTGAT
66 TATGAACTCTCTGGAAATGTTGAT
995405 GATCCGAAGG
Statistics
Matches: 544, Mismatches: 60, Indels: 65
0.81 0.09 0.10
Matches are distributed among these distances:
99 4 0.01
100 72 0.13
101 7 0.01
102 3 0.01
103 1 0.00
104 4 0.01
106 1 0.00
107 1 0.00
108 1 0.00
109 3 0.01
110 13 0.02
111 127 0.23
112 194 0.36
113 109 0.20
114 4 0.01
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.38
Consensus pattern (109 bp):
AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTTTTCCTTCTTCAGATGAGTTCTTCTCAT
TATGAACTCTCTGGAAATGTTGATCCATCGAGTGATGAATTAAC
Found at i:995141 original size:225 final size:223
Alignment explanation
Indices: 994658--995397 Score: 881
Period size: 225 Copynumber: 3.4 Consensus size: 223
994648 ATAGAATCAT
* *
994658 AAAA-GTTGAACAAATTCTTCTTATTA-GAACTTCTTCTTCC-TCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * ** * * * * * * **
994720 TATGAACTCTAACTGGCACTGCTGATTCA-CTGAGTGATGAATTTAAACAAAAGGTTGAACAAGT
66 TATGAACTCT-TCTGGAAAAGTTGATCCATC-AAGTAATGAATTTGAGCAAAAGGTTGAACAAAC
* *
994784 TCTTCTCATTATGAACTTCTT-TTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACTGG
129 TCTTCTCATTATGAACTTCTTCTTT-CTTCTTCAGATAAGTTCTTCTCATTATGAACT-TACTGG
* * *
994848 -AA-A-TG-----CTGA-T-A--AATTCAAGC
192 CAATATTGATCCACCGAGTGAGGAATTTAAAC
*
994868 AAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * * *
994933 TGTGAACTTTCTCTGGAAAAGTTGATCCATCAAGTGATGAATTT-A-CACAAAGGTTGAACAAAT
66 TATGAACTCT-TCTGGAAAAGTTGATCCATCAAGTAATGAATTTGAGCA-AAAGGTTGAACAAAC
* *
994996 TCTTCTCATTATGAATTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTAACTGG
129 TCTTCTCATTATGAACTTCTTCTTTCTTCTTCAGATAAGTTCTTCTCATTATGAACT-T-ACTGG
* * *
995061 CACTATTGATTCACCGAGTGATGAATTTAAAC
192 CAATATTGATCCACCGAGTGAGGAATTTAAAC
* * *
995093 AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTGTTTTTCCTTCTTCAGAAGAGTTCTTCTCAT
1 AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * *
995158 TATGAACTCTTCTGGAAAAGTTGATCCATCGAGTAATGGATTTGAGCAAAAGGTTGAACAAGCTC
66 TATGAACTCTTCTGGAAAAGTTGATCCATCAAGTAATGAATTTGAGCAAAAGGTTGAACAAACTC
* * *
995223 TTCTCATTATGAACTTCTTCTTTCTTCTTCAGATAAGTTCTTCTCATTATGAGCTTTCTGGTAAT
131 TTCTCATTATGAACTTCTTCTTTCTTCTTCAGATAAGTTCTTCTCATTATGAACTTACTGGCAAT
* * *
995288 GTTGATCCATCGAGTGAGGAATTTAAGC
196 ATTGATCCACCGAGTGAGGAATTTAAAC
*
995316 AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCAT
1 AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
995381 TATGAATTCTT-TGGAAA
66 TATGAACTCTTCTGGAAA
995398 TGCTGATGAT
Statistics
Matches: 463, Mismatches: 46, Indels: 30
0.86 0.09 0.06
Matches are distributed among these distances:
210 4 0.01
211 22 0.05
212 82 0.18
213 62 0.13
214 2 0.00
215 1 0.00
216 2 0.00
221 3 0.01
222 7 0.02
223 101 0.22
224 31 0.07
225 144 0.31
226 2 0.00
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.38
Consensus pattern (223 bp):
AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
TATGAACTCTTCTGGAAAAGTTGATCCATCAAGTAATGAATTTGAGCAAAAGGTTGAACAAACTC
TTCTCATTATGAACTTCTTCTTTCTTCTTCAGATAAGTTCTTCTCATTATGAACTTACTGGCAAT
ATTGATCCACCGAGTGAGGAATTTAAAC
Found at i:995528 original size:76 final size:76
Alignment explanation
Indices: 995402--995557 Score: 267
Period size: 76 Copynumber: 2.1 Consensus size: 76
995392 TGGAAATGCT
* * * *
995402 GATGATCCGAAGGTTTTGAAAACATCAAAAAGCTCCTGAAGGCTTTTTGGAAACATCATGTATTG
1 GATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCATTG
995467 TAGGACTTACA
66 TAGGACTTACA
*
995478 GATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCATTG
1 GATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCATTG
995543 TAGGACTTACA
66 TAGGACTTACA
995554 GATG
1 GATG
995558 TGAGAAATAG
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
76 75 1.00
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (76 bp):
GATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCATTG
TAGGACTTACA
Found at i:996310 original size:22 final size:22
Alignment explanation
Indices: 996235--996307 Score: 101
Period size: 22 Copynumber: 3.3 Consensus size: 22
996225 AAGCTTTCAC
*
996235 CTTTGAAAATAGAATCTATCAT
1 CTTTGAAAAGAGAATCTATCAT
* *
996257 TTTTAAAAAGAGAATCTATCAT
1 CTTTGAAAAGAGAATCTATCAT
* *
996279 ATTTGAAGAGAGAATCTATCAT
1 CTTTGAAAAGAGAATCTATCAT
996301 CTTTGAA
1 CTTTGAA
996308 GAGTGTAGAT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 44 1.00
ACGTcount: A:0.41, C:0.11, G:0.12, T:0.36
Consensus pattern (22 bp):
CTTTGAAAAGAGAATCTATCAT
Found at i:998996 original size:114 final size:114
Alignment explanation
Indices: 998796--999009 Score: 392
Period size: 114 Copynumber: 1.9 Consensus size: 114
998786 CATGCAGTTT
* * *
998796 ATCTTTCAATTCCAATGATTGGTTTTGGGGTTCCTACCGAACCAGATCAGATAACTCAAAGAACA
1 ATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACA
998861 CTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTAGTATGAGCAAATTC
66 CTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTAGTATGAGCAAATTC
*
998910 ATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAATCAGATCAGATAACTCAAAGAACA
1 ATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACA
998975 CTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTA
66 CTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTA
999010 CTACGAGAAC
Statistics
Matches: 96, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
114 96 1.00
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.33
Consensus pattern (114 bp):
ATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACA
CTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTAGTATGAGCAAATTC
Found at i:1001057 original size:18 final size:18
Alignment explanation
Indices: 1001034--1001073 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
1001024 GACTGCCAAT
*
1001034 TTTTTTTCTCTTTTTTCC
1 TTTTTTTCTCCTTTTTCC
1001052 TTTTTTTCTCCTTTTTCC
1 TTTTTTTCTCCTTTTTCC
1001070 TTTT
1 TTTT
1001074 GTTTTTTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTTTTCTCCTTTTTCC
Found at i:1003387 original size:7 final size:8
Alignment explanation
Indices: 1003369--1003407 Score: 55
Period size: 8 Copynumber: 5.1 Consensus size: 8
1003359 ATAAAAGTAT
1003369 AAATGCAA
1 AAATGCAA
1003377 AAATG-AA
1 AAATGCAA
1003384 AAATGCAA
1 AAATGCAA
*
1003392 AGATG-AA
1 AAATGCAA
1003399 AAATGCAA
1 AAATGCAA
1003407 A
1 A
1003408 TGTATGTATG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
7 13 0.48
8 14 0.52
ACGTcount: A:0.64, C:0.08, G:0.15, T:0.13
Consensus pattern (8 bp):
AAATGCAA
Found at i:1003387 original size:15 final size:15
Alignment explanation
Indices: 1003369--1003407 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
1003359 ATAAAAGTAT
1003369 AAATGCAAAAATGAA
1 AAATGCAAAAATGAA
*
1003384 AAATGCAAAGATGAA
1 AAATGCAAAAATGAA
1003399 AAATGCAAA
1 AAATGCAAA
1003408 TGTATGTATG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.64, C:0.08, G:0.15, T:0.13
Consensus pattern (15 bp):
AAATGCAAAAATGAA
Found at i:1005701 original size:120 final size:120
Alignment explanation
Indices: 1005462--1005694 Score: 298
Period size: 120 Copynumber: 2.0 Consensus size: 120
1005452 TATATTAATT
1005462 TATATATATTTATAAATAAAATATTTATTTATTTAGAAATATCAGAAAAGGACTTCTAGGTGCCT
1 TATATATATTTATAAATAAAATATTTATTTATTTAGAAATATCAGAAAAGGACTTCTAGGTGCCT
* * *
1005527 TAAGACAGCTCTTTTCTTCGATATTAAAAAATAAATTAATAATTAAAACAATTAA
66 TAAGACAGCTCCTTTCTTCAATATTAAAAAATAAATAAATAATTAAAACAATTAA
** *
1005582 TATATA-ATTTATAAAATAGGATATTTATTTATTTA-AAACTATCAGAAAATGGACATTC-AGTT
1 TATATATATTTAT-AAATAAAATATTTATTTATTTAGAAA-TATCAGAAAA-GGAC-TTCTAGGT
** * *
1005644 GTTTTAAGACTGC-CCTTTCTT-AATATTGAAAAATAAATAAAT-ATTAAAACA
62 GCCTTAAGACAGCTCCTTTCTTCAATATTAAAAAATAAATAAATAATTAAAACA
1005695 GGATTAAAAT
Statistics
Matches: 99, Mismatches: 10, Indels: 10
0.83 0.08 0.08
Matches are distributed among these distances:
118 9 0.09
119 27 0.27
120 43 0.43
121 17 0.17
122 3 0.03
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.38
Consensus pattern (120 bp):
TATATATATTTATAAATAAAATATTTATTTATTTAGAAATATCAGAAAAGGACTTCTAGGTGCCT
TAAGACAGCTCCTTTCTTCAATATTAAAAAATAAATAAATAATTAAAACAATTAA
Found at i:1005780 original size:22 final size:18
Alignment explanation
Indices: 1005729--1005770 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
1005719 TAAATAAGAT
*
1005729 TTTAATAAATAAATATTA
1 TTTATTAAATAAATATTA
*
1005747 TTTATTATATAAATATATA
1 TTTATTAAATAAATAT-TA
1005766 TTTAT
1 TTTAT
1005771 GGCTAAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
TTTATTAAATAAATATTA
Found at i:1007214 original size:3 final size:3
Alignment explanation
Indices: 1007208--1007260 Score: 60
Period size: 3 Copynumber: 19.0 Consensus size: 3
1007198 ATTATTTATT
* *
1007208 TAA TAA TAA TAA T-A TAA T-A TAA TAA TAA TAT TAA -AA CAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1007252 TAA TAA TAA
1 TAA TAA TAA
1007261 ATAAAACAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
2 8 0.18
3 36 0.82
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:1007230 original size:19 final size:18
Alignment explanation
Indices: 1007208--1007263 Score: 67
Period size: 19 Copynumber: 3.0 Consensus size: 18
1007198 ATTATTTATT
1007208 TAATAATAATAATATAATA
1 TAATAATAATAATA-AATA
* *
1007227 TAATAATAATATTAAAACA
1 TAATAATAATAAT-AAATA
*
1007246 AAATAATAATAATAAATA
1 TAATAATAATAATAAATA
1007264 AAACAAATGA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
18 4 0.13
19 26 0.84
20 1 0.03
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (18 bp):
TAATAATAATAATAAATA
Found at i:1007233 original size:22 final size:21
Alignment explanation
Indices: 1007186--1007264 Score: 74
Period size: 22 Copynumber: 3.8 Consensus size: 21
1007176 TGTAAAAATG
* * *
1007186 TAATAATAATAAATTATTTATT
1 TAATAATAATAAATAATATA-A
1007208 TAATAATAATAATATAATATAA
1 TAATAATAATAA-ATAATATAA
*
1007230 TAATAATATTAAA-ACA-A-AA
1 TAATAATAATAAATA-ATATAA
1007249 TAATAATAATAAATAA
1 TAATAATAATAAATAA
1007265 AACAAATGAA
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
19 15 0.31
20 3 0.06
21 2 0.04
22 23 0.47
23 6 0.12
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (21 bp):
TAATAATAATAAATAATATAA
Found at i:1007271 original size:22 final size:22
Alignment explanation
Indices: 1007208--1007271 Score: 69
Period size: 22 Copynumber: 2.9 Consensus size: 22
1007198 ATTATTTATT
* *
1007208 TAATAAT-AATAATATAATATAA
1 TAATAATAAATAAAACAA-ATAA
*
1007230 TAATAATA-TTAAAACAAAATAA
1 TAATAATAAATAAAAC-AAATAA
1007252 TAATAATAAATAAAACAAAT
1 TAATAATAAATAAAACAAAT
1007272 GAAATAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
22 27 0.77
23 8 0.23
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (22 bp):
TAATAATAAATAAAACAAATAA
Found at i:1007407 original size:24 final size:24
Alignment explanation
Indices: 1007379--1007426 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
1007369 AGAGACCGAT
1007379 CTATTGTGTTCATTTTAACTTATG
1 CTATTGTGTTCATTTTAACTTATG
1007403 CTATTGTGTTCATTTTAACTTATG
1 CTATTGTGTTCATTTTAACTTATG
1007427 ACCGCTAGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.21, C:0.12, G:0.12, T:0.54
Consensus pattern (24 bp):
CTATTGTGTTCATTTTAACTTATG
Found at i:1011334 original size:9 final size:9
Alignment explanation
Indices: 1011322--1011347 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
1011312 TTGATAAAAT
1011322 TTATAACGA
1 TTATAACGA
1011331 TTATAACGA
1 TTATAACGA
1011340 TTATAACG
1 TTATAACG
1011348 GGAATCATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.35
Consensus pattern (9 bp):
TTATAACGA
Found at i:1030772 original size:14 final size:13
Alignment explanation
Indices: 1030755--1030784 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
1030745 GAAATACATG
1030755 ACATGCTCTAACTC
1 ACATGCTCTAAC-C
1030769 ACATGCTCTAACC
1 ACATGCTCTAACC
1030782 ACA
1 ACA
1030785 GTTTTTCTCG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.33, C:0.37, G:0.07, T:0.23
Consensus pattern (13 bp):
ACATGCTCTAACC
Found at i:1038546 original size:14 final size:14
Alignment explanation
Indices: 1038513--1038550 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 14
1038503 GCATGCTTAC
1038513 AATAAAGAAAACATA
1 AATAAAGAAAACA-A
1038528 AATAAAGTAAAAC-A
1 AATAAAG-AAAACAA
1038542 AATAAAGAA
1 AATAAAGAA
1038551 TACATAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 2 0.09
14 8 0.36
15 7 0.32
16 5 0.23
ACGTcount: A:0.74, C:0.05, G:0.08, T:0.13
Consensus pattern (14 bp):
AATAAAGAAAACAA
Found at i:1052744 original size:26 final size:26
Alignment explanation
Indices: 1052708--1052766 Score: 118
Period size: 26 Copynumber: 2.3 Consensus size: 26
1052698 GATGAAACTC
1052708 GATTTCTGAAGGTATTAAAGACTTCT
1 GATTTCTGAAGGTATTAAAGACTTCT
1052734 GATTTCTGAAGGTATTAAAGACTTCT
1 GATTTCTGAAGGTATTAAAGACTTCT
1052760 GATTTCT
1 GATTTCT
1052767 TCTTCAGAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.41
Consensus pattern (26 bp):
GATTTCTGAAGGTATTAAAGACTTCT
Found at i:1055471 original size:33 final size:33
Alignment explanation
Indices: 1055420--1055490 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 33
1055410 TTTTTTATTA
** *
1055420 ATTAAATATTTTATTATTTTTCATATTTAATTT
1 ATTAAATAACTTAATATTTTTCATATTTAATTT
* *
1055453 ATTAAATAACTTAATATTTTTTATATTTTATTT
1 ATTAAATAACTTAATATTTTTCATATTTAATTT
1055486 -TTAAA
1 ATTAAA
1055491 ATTTAAATAC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
32 5 0.15
33 28 0.85
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (33 bp):
ATTAAATAACTTAATATTTTTCATATTTAATTT
Found at i:1056215 original size:26 final size:26
Alignment explanation
Indices: 1056184--1056240 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 26
1056174 ATGTTTTTTA
* *
1056184 ATTTTTAAAAAACTGAAAAT-GAAAACT
1 ATTTTCAAAAAA-TAAAAATAGAAAA-T
*
1056211 ATTTTCTAAAAATAAAAATAGAAAAT
1 ATTTTCAAAAAATAAAAATAGAAAAT
1056237 ATTT
1 ATTT
1056241 CTAGAACCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 11 0.42
27 15 0.58
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.33
Consensus pattern (26 bp):
ATTTTCAAAAAATAAAAATAGAAAAT
Found at i:1056633 original size:18 final size:18
Alignment explanation
Indices: 1056593--1056635 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
1056583 TATAAAAAAA
*
1056593 CTACTTTAATAAAGTATT
1 CTACTTTAACAAAGTATT
*
1056611 ATACTTTAACAAAGT-TAT
1 CTACTTTAACAAAGTAT-T
1056629 CTACTTT
1 CTACTTT
1056636 TAATCAAACT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 1 0.05
18 20 0.95
ACGTcount: A:0.37, C:0.14, G:0.05, T:0.44
Consensus pattern (18 bp):
CTACTTTAACAAAGTATT
Found at i:1058131 original size:21 final size:21
Alignment explanation
Indices: 1058085--1058133 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
1058075 CATAAATATG
*
1058085 AAAACAATAAATGAAAATAAA
1 AAAATAATAAATGAAAATAAA
*
1058106 AAAATAATAAAATG-AATTAAA
1 AAAATAAT-AAATGAAAATAAA
1058127 AAAATAA
1 AAAATAA
1058134 AACAAAACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 20 0.80
22 5 0.20
ACGTcount: A:0.76, C:0.02, G:0.04, T:0.18
Consensus pattern (21 bp):
AAAATAATAAATGAAAATAAA
Found at i:1058376 original size:3 final size:3
Alignment explanation
Indices: 1058368--1058401 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
1058358 ATATATATTT
1058368 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1058402 GCAGAACCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:1058461 original size:16 final size:15
Alignment explanation
Indices: 1058442--1058490 Score: 57
Period size: 16 Copynumber: 3.3 Consensus size: 15
1058432 AACGATGATA
1058442 AATAAAAAATATATAT
1 AATAAAAAATATA-AT
*
1058458 AATAAGAAATATAAT
1 AATAAAAAATATAAT
1058473 AATAAAGAAA-A-AAT
1 AATAAA-AAATATAAT
1058487 AATA
1 AATA
1058491 TATATATATA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
14 7 0.23
15 8 0.27
16 15 0.50
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.24
Consensus pattern (15 bp):
AATAAAAAATATAAT
Found at i:1058587 original size:33 final size:32
Alignment explanation
Indices: 1058456--1058590 Score: 98
Period size: 33 Copynumber: 4.1 Consensus size: 32
1058446 AAAAATATAT
* * *
1058456 ATAATAAGAAATATA-ATAAT-AAAGA-AAAA
1 ATAATAATATATATATATAATAAAAGATGAAA
*
1058485 ATAATATATATATATATATATTAATAATAATATGGACAA
1 AT-A-ATA-ATATATATATA-TAATAA-AAGAT-GA-AA
*
1058524 AAAATAATATATATATATAATAAAAGATGAAA
1 ATAATAATATATATATATAATAAAAGATGAAA
* *
1058556 ATAATAAGTATATATATGTATATATAA-ATGAAA
1 ATAATAA-TATATATATATA-ATAAAAGATGAAA
1058589 AT
1 AT
1058591 GTTAAATTAA
Statistics
Matches: 85, Mismatches: 9, Indels: 20
0.75 0.08 0.18
Matches are distributed among these distances:
29 2 0.02
30 1 0.01
31 3 0.04
32 15 0.18
33 22 0.26
34 13 0.15
35 7 0.08
36 14 0.16
37 3 0.04
38 2 0.02
39 3 0.04
ACGTcount: A:0.61, C:0.01, G:0.07, T:0.32
Consensus pattern (32 bp):
ATAATAATATATATATATAATAAAAGATGAAA
Found at i:1059808 original size:20 final size:20
Alignment explanation
Indices: 1059771--1059808 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1059761 GTGTATATAT
*
1059771 TATAATATCATATGTATGAA
1 TATAATATCATATATATGAA
1059791 TATAATAT-ATAATATATG
1 TATAATATCAT-ATATATG
1059809 TCATATGAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 2 0.12
20 14 0.88
ACGTcount: A:0.47, C:0.03, G:0.08, T:0.42
Consensus pattern (20 bp):
TATAATATCATATATATGAA
Found at i:1061523 original size:13 final size:12
Alignment explanation
Indices: 1061486--1061537 Score: 54
Period size: 13 Copynumber: 4.3 Consensus size: 12
1061476 ACCCACCTTA
1061486 TTTTCTTTTC--
1 TTTTCTTTTCAT
*
1061496 TTTTGTTTTCAT
1 TTTTCTTTTCAT
*
1061508 TTTCTCTTTTCCT
1 TTT-TCTTTTCAT
1061521 TTTTCTTTTTCAT
1 TTTTC-TTTTCAT
1061534 TTTT
1 TTTT
1061538 TTCAATTTAG
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
10 9 0.26
12 5 0.15
13 20 0.59
ACGTcount: A:0.04, C:0.17, G:0.02, T:0.77
Consensus pattern (12 bp):
TTTTCTTTTCAT
Found at i:1061603 original size:23 final size:23
Alignment explanation
Indices: 1061577--1061624 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
1061567 AGCCTAAACG
1061577 TTCTTTCTT-TTTTCCTTTTCCTT
1 TTCTTT-TTCTTTTCCTTTTCCTT
*
1061600 TTCTTTTTCTTTTCCTTTTCTTT
1 TTCTTTTTCTTTTCCTTTTCCTT
1061623 TT
1 TT
1061625 TGACATAGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 2 0.09
23 21 0.91
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (23 bp):
TTCTTTTTCTTTTCCTTTTCCTT
Found at i:1061611 original size:11 final size:11
Alignment explanation
Indices: 1061577--1061623 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
1061567 AGCCTAAACG
1061577 TTCTTTCTT-TT
1 TTCTTT-TTCTT
*
1061588 TTCCTTTTCCTT
1 TT-CTTTTTCTT
1061600 TTCTTTTTCTT
1 TTCTTTTTCTT
*
1061611 TTCCTTTTCTT
1 TTCTTTTTCTT
1061622 TT
1 TT
1061624 TTGACATAGG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
11 23 0.74
12 8 0.26
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (11 bp):
TTCTTTTTCTT
Found at i:1061611 original size:17 final size:18
Alignment explanation
Indices: 1061580--1061624 Score: 74
Period size: 17 Copynumber: 2.5 Consensus size: 18
1061570 CTAAACGTTC
1061580 TTTCTTTTTTCCTTTTCCT
1 TTTC-TTTTTCCTTTTCCT
1061599 TTTCTTTTT-CTTTTCCT
1 TTTCTTTTTCCTTTTCCT
1061616 TTTCTTTTT
1 TTTCTTTTT
1061625 TGACATAGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
17 17 0.65
18 5 0.19
19 4 0.15
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTCTTTTTCCTTTTCCT
Found at i:1061624 original size:6 final size:6
Alignment explanation
Indices: 1061586--1061623 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
1061576 GTTCTTTCTT
*
1061586 TTTTCC TTTTCC TTTT-C TTTTTC TTTTCC TTTT-C TTTT
1 TTTTCC TTTTCC TTTTCC TTTTCC TTTTCC TTTTCC TTTT
1061624 TTGACATAGG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
5 10 0.33
6 20 0.67
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (6 bp):
TTTTCC
Found at i:1071434 original size:25 final size:25
Alignment explanation
Indices: 1071381--1071434 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 25
1071371 CATAAATATG
**
1071381 AAAACAAAAAATAAAAAAATGAATA
1 AAAACAAAAAATAAAAAAACAAATA
1071406 AAAAC-AAAAATAAAACAAAACAAATA
1 AAAACAAAAAAT-AAA-AAAACAAATA
1071432 AAA
1 AAA
1071435 TGGTAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 6 0.24
25 8 0.32
26 11 0.44
ACGTcount: A:0.81, C:0.07, G:0.02, T:0.09
Consensus pattern (25 bp):
AAAACAAAAAATAAAAAAACAAATA
Found at i:1071744 original size:12 final size:12
Alignment explanation
Indices: 1071713--1071751 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
1071703 TTAAAAACTA
*
1071713 AAATA-AATAAA
1 AAATATAATAAT
1071724 AATATATAATAAT
1 AA-ATATAATAAT
1071737 AAATATAATAAT
1 AAATATAATAAT
1071749 AAA
1 AAA
1071752 GAAAAAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
11 2 0.08
12 16 0.64
13 7 0.28
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (12 bp):
AAATATAATAAT
Found at i:1071782 original size:17 final size:15
Alignment explanation
Indices: 1071704--1071784 Score: 69
Period size: 16 Copynumber: 5.2 Consensus size: 15
1071694 AAAAAGATAT
1071704 TAAAAACTAA-AATAAA
1 TAAAAA-TAATAAT-AA
1071720 TAAAAATATATAATAA
1 TAAAAATA-ATAATAA
*
1071736 TAAATATAATAATAA
1 TAAAAATAATAATAA
1071751 -AGAAAA-AATAATAA
1 TA-AAAATAATAATAA
*
1071765 TAAAATATATATATTAA
1 TAAAA-ATA-ATAATAA
1071782 TAA
1 TAA
1071785 TCATAGGAAC
Statistics
Matches: 55, Mismatches: 3, Indels: 13
0.77 0.04 0.18
Matches are distributed among these distances:
14 12 0.22
15 14 0.25
16 17 0.31
17 12 0.22
ACGTcount: A:0.69, C:0.01, G:0.01, T:0.28
Consensus pattern (15 bp):
TAAAAATAATAATAA
Found at i:1071806 original size:46 final size:46
Alignment explanation
Indices: 1071718--1071811 Score: 104
Period size: 46 Copynumber: 2.0 Consensus size: 46
1071708 AACTAAAATA
* *
1071718 AATAAAAATATATAATAATAAATATAATAATAAAGAAAAAATA-AT
1 AATAAAAATATATAATAATAAATATAAGAACAAAGAAAAAATATAT
* *
1071763 AATAAAATATATATATTAAT-AATCATAGGAACAAA-AAATAAATATAT
1 AATAAAA-ATATATAATAATAAAT-ATAAGAACAAAGAAA-AAATATAT
1071810 AA
1 AA
1071812 ATAATAAAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
45 13 0.32
46 24 0.59
47 4 0.10
ACGTcount: A:0.67, C:0.02, G:0.03, T:0.28
Consensus pattern (46 bp):
AATAAAAATATATAATAATAAATATAAGAACAAAGAAAAAATATAT
Found at i:1073099 original size:20 final size:20
Alignment explanation
Indices: 1073062--1073099 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1073052 GTGTATATAT
*
1073062 TATAATATCATATGTATGAA
1 TATAATATCATATATATGAA
1073082 TATAATAT-ATAATATATG
1 TATAATATCAT-ATATATG
1073100 TCGTATGAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 2 0.12
20 14 0.88
ACGTcount: A:0.47, C:0.03, G:0.08, T:0.42
Consensus pattern (20 bp):
TATAATATCATATATATGAA
Found at i:1076300 original size:18 final size:18
Alignment explanation
Indices: 1076277--1076314 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
1076267 AAAGGTTATT
*
1076277 TTAATAAAGTACTTTACA
1 TTAATAAAGTACTCTACA
*
1076295 TTAATAAAGTTCTCTACA
1 TTAATAAAGTACTCTACA
1076313 TT
1 TT
1076315 TAATCAATCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.13, G:0.05, T:0.42
Consensus pattern (18 bp):
TTAATAAAGTACTCTACA
Found at i:1082664 original size:17 final size:19
Alignment explanation
Indices: 1082634--1082671 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
1082624 TTAAATAAAA
1082634 AATTTGATTGTTTAAAATT
1 AATTTGATTGTTTAAAATT
*
1082653 AATTT-ATT-TTTAAATTT
1 AATTTGATTGTTTAAAATT
1082670 AA
1 AA
1082672 ATCAATTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 10 0.56
18 3 0.17
19 5 0.28
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.55
Consensus pattern (19 bp):
AATTTGATTGTTTAAAATT
Found at i:1089391 original size:20 final size:21
Alignment explanation
Indices: 1089354--1089419 Score: 53
Period size: 21 Copynumber: 3.0 Consensus size: 21
1089344 GATGAAGTTG
*
1089354 AAAATATATATTAAAATAAAA
1 AAAATATATAATAAAATAAAA
*
1089375 AAAATA-ATAATATAATAATAA
1 AAAATATATAATAAAATAA-AA
* *
1089396 ATAGTAATAGTAATAAATATAAAA
1 AAAAT-ATA-TAATAAA-ATAAAA
1089420 GGAGGATTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
20 10 0.29
21 11 0.31
22 1 0.03
23 1 0.03
24 8 0.23
25 4 0.11
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (21 bp):
AAAATATATAATAAAATAAAA
Found at i:1089484 original size:22 final size:23
Alignment explanation
Indices: 1089443--1089491 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 23
1089433 AAGCTGTGGT
*
1089443 TAAAATAAAAAATAAGAATTAAA
1 TAAAAGAAAAAATAAGAATTAAA
*
1089466 TAAAAGAAAAAA-AATAATTAAA
1 TAAAAGAAAAAATAAGAATTAAA
1089488 TAAA
1 TAAA
1089492 CAAATTAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 13 0.54
23 11 0.46
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (23 bp):
TAAAAGAAAAAATAAGAATTAAA
Found at i:1090100 original size:20 final size:21
Alignment explanation
Indices: 1090042--1090101 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
1090032 AGCCTTCAAA
*
1090042 ATCTTAAAAAC-AAGCTAAAAC
1 ATCTTAAAAACTAA-TTAAAAC
**
1090063 ATCTTAAATCCTAATTAAAAC
1 ATCTTAAAAACTAATTAAAAC
*
1090084 A-CTTAAAAACTATTTAAA
1 ATCTTAAAAACTAATTAAA
1090102 CTAAAATATT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
20 14 0.44
21 16 0.50
22 2 0.06
ACGTcount: A:0.53, C:0.17, G:0.02, T:0.28
Consensus pattern (21 bp):
ATCTTAAAAACTAATTAAAAC
Found at i:1090210 original size:69 final size:69
Alignment explanation
Indices: 1090058--1090257 Score: 229
Period size: 70 Copynumber: 3.0 Consensus size: 69
1090048 AAAACAAGCT
* * * * *
1090058 AAAACATCTTAAATCCTAATTAAAACACTTAAAAAC-TATTTAAACTAAAATATTAAA-A-AAAA
1 AAAATATCCTAAAACCTAATTAAAATAC-TAAAAACATATTTAAACTAAAATA-CAAAGATAAAA
1090120 T--AT-
64 TAAATA
* *
1090123 --AATATTCTAAATCCTAATTAAAATACT-AAAACATATTTAAACTAAAATACAAAGATAAAGAT
1 AAAATATCCTAAAACCTAATTAAAATACTAAAAACATATTTAAACTAAAATACAAAGATAAA-AT
1090185 AAATA
65 AAATA
* *
1090190 AAAATATCCTAAAACTTAATTAAAATACTAAAAACTTATTTAAACTAAAATACAAAGATAAAATA
1 AAAATATCCTAAAACCTAATTAAAATACTAAAAACATATTTAAACTAAAATACAAAGATAAAATA
1090255 AAT
66 AAT
1090258 GTTTAAAAAA
Statistics
Matches: 116, Mismatches: 9, Indels: 16
0.82 0.06 0.11
Matches are distributed among these distances:
61 8 0.07
62 18 0.16
63 25 0.22
64 2 0.02
66 2 0.02
69 30 0.26
70 31 0.27
ACGTcount: A:0.59, C:0.11, G:0.01, T:0.28
Consensus pattern (69 bp):
AAAATATCCTAAAACCTAATTAAAATACTAAAAACATATTTAAACTAAAATACAAAGATAAAATA
AATA
Found at i:1091737 original size:18 final size:17
Alignment explanation
Indices: 1091711--1091748 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
1091701 CGAACCAAAT
1091711 CTGTATTTTTTTTCTGCA
1 CTGTATTTTTTTT-TGCA
*
1091729 CTGTTTTTTTTTTTGCA
1 CTGTATTTTTTTTTGCA
1091746 CTG
1 CTG
1091749 CATTGTTTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.08, C:0.16, G:0.13, T:0.63
Consensus pattern (17 bp):
CTGTATTTTTTTTTGCA
Found at i:1091738 original size:17 final size:18
Alignment explanation
Indices: 1091711--1091748 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
1091701 CGAACCAAAT
1091711 CTGTATTTTTTTTCTGCA
1 CTGTATTTTTTTTCTGCA
*
1091729 CTGT-TTTTTTTTTTGCA
1 CTGTATTTTTTTTCTGCA
1091746 CTG
1 CTG
1091749 CATTGTTTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.08, C:0.16, G:0.13, T:0.63
Consensus pattern (18 bp):
CTGTATTTTTTTTCTGCA
Found at i:1091982 original size:22 final size:21
Alignment explanation
Indices: 1091957--1092009 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 21
1091947 AAAGTTCGTT
*
1091957 AAAAAAATAAAAAATTAAAAC
1 AAAAAAATAAAAAATGAAAAC
*
1091978 GAAAATAAA-AACAAATGAAAAC
1 -AAAA-AAATAAAAAATGAAAAC
*
1092000 AAAAATATAA
1 AAAAAAATAA
1092010 CGAAATGGGT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
20 2 0.08
21 6 0.23
22 15 0.58
23 3 0.12
ACGTcount: A:0.77, C:0.06, G:0.04, T:0.13
Consensus pattern (21 bp):
AAAAAAATAAAAAATGAAAAC
Found at i:1098082 original size:19 final size:20
Alignment explanation
Indices: 1098032--1098085 Score: 56
Period size: 19 Copynumber: 2.7 Consensus size: 20
1098022 CTATTTAAAC
1098032 TAAAATACTAAAAAAATAATA
1 TAAAATACT-AAAAAATAATA
* * **
1098053 TAATATTCTAAAACTTAAT-
1 TAAAATACTAAAAAATAATA
1098072 TAAAATACTAAAAA
1 TAAAATACTAAAAA
1098086 CCTATTTAAA
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
19 11 0.42
20 8 0.31
21 7 0.27
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (20 bp):
TAAAATACTAAAAAATAATA
Found at i:1098119 original size:64 final size:62
Alignment explanation
Indices: 1097990--1098128 Score: 165
Period size: 64 Copynumber: 2.2 Consensus size: 62
1097980 AACAAGCTAA
* * *
1097990 AATATCTTAAATCCTAATTAAAACACTTAAAACTATTTAAACTAAAATACTAAAAAAATAATAT
1 AATAT-TTAAAACTTAATTAAAACACTAAAAACTATTTAAACTAAAATACTAAAAAAAT-ATAT
*
1098054 AATATTCTAAAACTTAATTAAAATACTAAAAACCTATTTAAACTAAAATAC-AAAGATAAAT-TA
1 AATATT-TAAAACTTAATTAAAACACTAAAAA-CTATTTAAACTAAAATACTAAA-A-AAATATA
1098117 T
62 T
*
1098118 AATGTTTAAAA
1 AATATTTAAAA
1098129 TATTATCCTA
Statistics
Matches: 66, Mismatches: 5, Indels: 9
0.82 0.06 0.11
Matches are distributed among these distances:
63 6 0.09
64 37 0.56
65 19 0.29
66 4 0.06
ACGTcount: A:0.56, C:0.11, G:0.01, T:0.32
Consensus pattern (62 bp):
AATATTTAAAACTTAATTAAAACACTAAAAACTATTTAAACTAAAATACTAAAAAAATATAT
Found at i:1103955 original size:46 final size:46
Alignment explanation
Indices: 1103888--1103978 Score: 164
Period size: 46 Copynumber: 2.0 Consensus size: 46
1103878 AGTGATAGGC
* *
1103888 AAATATCGTACTCCCTTCAATGATGAATTGATTACCTCAACCAAGA
1 AAATATCGCACTCCCTTCAATGATGAATTGATTACATCAACCAAGA
1103934 AAATATCGCACTCCCTTCAATGATGAATTGATTACATCAACCAAG
1 AAATATCGCACTCCCTTCAATGATGAATTGATTACATCAACCAAG
1103979 TTCGTTGTCA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.37, C:0.24, G:0.11, T:0.27
Consensus pattern (46 bp):
AAATATCGCACTCCCTTCAATGATGAATTGATTACATCAACCAAGA
Found at i:1106000 original size:5 final size:5
Alignment explanation
Indices: 1105990--1106019 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
1105980 CTCTTGTTTC
1105990 ACCAA ACCAA ACCAA ACCAA ACCAA ACCAA
1 ACCAA ACCAA ACCAA ACCAA ACCAA ACCAA
1106020 CCATCTCCGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.60, C:0.40, G:0.00, T:0.00
Consensus pattern (5 bp):
ACCAA
Found at i:1106660 original size:147 final size:147
Alignment explanation
Indices: 1106393--1106663 Score: 470
Period size: 147 Copynumber: 1.8 Consensus size: 147
1106383 ATTGAAATAG
1106393 AAGTTGCAAAACTACATTTGTAACCTCAAACATTTTCAAAAATGTTTCGTTTAACATCCCAGATT
1 AAGTTGCAAAACTACATTTGTAACCTCAAACATTTTCAAAAATGTTTCGTTTAACATCCCAGATT
*
1106458 ACTCAACGAAAATTTCTATGAACCCATTTAATAATAATGTCATTATATTTTTACAATTAAGGCCT
66 ACTCAACGAAAATTTCTATCAACCCATTTAATAATAATGTCATTATATTTTTACAATTAAGGCCT
1106523 TGCGTTGTACGAAAAGC
131 TGCGTTGTACGAAAAGC
* * * * *
1106540 AAGTTGCAAAACTACGTTTGTAACCTCAAACATTTTCACAGATGTTTTGTTTAACATCCCATATT
1 AAGTTGCAAAACTACATTTGTAACCTCAAACATTTTCAAAAATGTTTCGTTTAACATCCCAGATT
* *
1106605 ACTCAACGAAAATTTCTATCAACCTATTTAATAATAGTGTCATTATATTTTTACAATTA
66 ACTCAACGAAAATTTCTATCAACCCATTTAATAATAATGTCATTATATTTTTACAATTA
1106664 GGAACTCACA
Statistics
Matches: 116, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
147 116 1.00
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.36
Consensus pattern (147 bp):
AAGTTGCAAAACTACATTTGTAACCTCAAACATTTTCAAAAATGTTTCGTTTAACATCCCAGATT
ACTCAACGAAAATTTCTATCAACCCATTTAATAATAATGTCATTATATTTTTACAATTAAGGCCT
TGCGTTGTACGAAAAGC
Found at i:1109090 original size:21 final size:21
Alignment explanation
Indices: 1109050--1109107 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
1109040 ATTGAACATA
* *
1109050 ATATCAAAATGAATTTAAGAAT
1 ATATCAATAT-AATTCAAGAAT
1109072 ATATCAATATAATTCAAGAAT
1 ATATCAATATAATTCAAGAAT
*
1109093 ATATTAATATTAATT
1 ATATCAATA-TAATT
1109108 AATTTCAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
21 18 0.56
22 14 0.44
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.38
Consensus pattern (21 bp):
ATATCAATATAATTCAAGAAT
Found at i:1121215 original size:21 final size:20
Alignment explanation
Indices: 1121171--1121223 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
1121161 CTCTTCAAGG
*
1121171 AGTATTGATACTCAGGGTCC
1 AGTATCGATACTCAGGGTCC
1121191 AGTATCGATACTCAGATGG-CC
1 AGTATCGATACTCAG--GGTCC
1121212 AGTATCGATACT
1 AGTATCGATACT
1121224 AATGTATTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 14 0.47
21 14 0.47
22 2 0.07
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (20 bp):
AGTATCGATACTCAGGGTCC
Found at i:1121280 original size:18 final size:19
Alignment explanation
Indices: 1121257--1121306 Score: 66
Period size: 18 Copynumber: 2.6 Consensus size: 19
1121247 AATTATTTTG
*
1121257 GTATCGATACTCATGG-GA
1 GTATCGATACTCAGGGAGA
*
1121275 GTATCGATACCCAGGGTAGA
1 GTATCGATACTCAGGG-AGA
1121295 GTATCGATACTC
1 GTATCGATACTC
1121307 CCCATAGGAG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
18 14 0.52
20 13 0.48
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (19 bp):
GTATCGATACTCAGGGAGA
Found at i:1124549 original size:30 final size:30
Alignment explanation
Indices: 1124515--1124573 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
1124505 ATACATGATC
1124515 GCATTTCATATTATGATACATGACATGAAA
1 GCATTTCATATTATGATACATGACATGAAA
1124545 GCATTTCATATTATGATACATGACATGAA
1 GCATTTCATATTATGATACATGACATGAA
1124574 TTCATATTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.34
Consensus pattern (30 bp):
GCATTTCATATTATGATACATGACATGAAA
Found at i:1124566 original size:25 final size:25
Alignment explanation
Indices: 1124497--1124567 Score: 70
Period size: 30 Copynumber: 2.6 Consensus size: 25
1124487 TCTAGATTCA
* **
1124497 ATATTTTGATACATGATCGCATTTC
1 ATATTATGATACATGAAAGCATTTC
1124522 ATATTATGATACATGACATGAAAGCATTTC
1 ATATTATG----AT-ACATGAAAGCATTTC
1124552 ATATTATGATACATGA
1 ATATTATGATACATGA
1124568 CATGAATTCA
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
25 13 0.34
26 2 0.05
29 2 0.05
30 21 0.55
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.38
Consensus pattern (25 bp):
ATATTATGATACATGAAAGCATTTC
Found at i:1124675 original size:31 final size:30
Alignment explanation
Indices: 1124626--1124685 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 30
1124616 TTATATAAGC
*
1124626 TATGTGATACAATGATGGAACATGATATGTT
1 TATGTGATACAAGGATGGAA-ATGATATGTT
*
1124657 TATGTGATA-AAGGTATGGAAATTATATGT
1 TATGTGATACAAGG-ATGGAAATGATATGT
1124686 CTATACAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 11 0.42
31 15 0.58
ACGTcount: A:0.37, C:0.03, G:0.23, T:0.37
Consensus pattern (30 bp):
TATGTGATACAAGGATGGAAATGATATGTT
Found at i:1124956 original size:23 final size:23
Alignment explanation
Indices: 1124906--1124965 Score: 77
Period size: 23 Copynumber: 2.6 Consensus size: 23
1124896 CAATCTTATA
1124906 TGGCA-TTACTGTGCAATTCTACG
1 TGGCACTT-CTGTGCAATTCTACG
* *
1124929 CGGCACTTCTGTGCAATTCTATG
1 TGGCACTTCTGTGCAATTCTACG
*
1124952 TGGCACTTCAGTGC
1 TGGCACTTCTGTGC
1124966 GTTTATATGA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
23 30 0.94
24 2 0.06
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.33
Consensus pattern (23 bp):
TGGCACTTCTGTGCAATTCTACG
Found at i:1124974 original size:23 final size:23
Alignment explanation
Indices: 1124916--1124974 Score: 55
Period size: 23 Copynumber: 2.6 Consensus size: 23
1124906 TGGCATTACT
* * * *
1124916 GTGCAATTCTACGCGGCACTTCT
1 GTGCAATTATATGTGGCACTTCA
*
1124939 GTGCAATTCTATGTGGCACTTCA
1 GTGCAATTATATGTGGCACTTCA
**
1124962 GTGCGTTTATATG
1 GTGCAATTATATG
1124975 AGTTGTGGTG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.19, C:0.22, G:0.24, T:0.36
Consensus pattern (23 bp):
GTGCAATTATATGTGGCACTTCA
Found at i:1131489 original size:25 final size:24
Alignment explanation
Indices: 1131460--1131527 Score: 82
Period size: 27 Copynumber: 2.7 Consensus size: 24
1131450 TCTAGATTCA
* *
1131460 ATATTTTGATACATGATCGTATTTC
1 ATATTATGATACATGAT-GCATTTC
1131485 ATATTATGATACACATGAATGCATTTC
1 ATATTATGAT--ACATG-ATGCATTTC
1131512 ATATTATGATACATGA
1 ATATTATGATACATGA
1131528 CATGAATTCA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
24 1 0.03
25 14 0.37
27 21 0.55
28 2 0.05
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (24 bp):
ATATTATGATACATGATGCATTTC
Found at i:1131537 original size:25 final size:25
Alignment explanation
Indices: 1131455--1131543 Score: 83
Period size: 25 Copynumber: 3.4 Consensus size: 25
1131445 ATAAGTCTAG
* *
1131455 ATTCAATATTTTGATACATGATCGT-A
1 ATTC-ATATTATGATACATGA-CATGA
*
1131481 TTTCATATTATGATACACATGA-ATGCA
1 ATTCATATTATGAT--ACATGACATG-A
*
1131508 TTTCATATTATGATACATGACATGA
1 ATTCATATTATGATACATGACATGA
1131533 ATTCATATTAT
1 ATTCATATTAT
1131544 ATGCATTAAG
Statistics
Matches: 54, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
25 27 0.50
26 6 0.11
27 21 0.39
ACGTcount: A:0.36, C:0.12, G:0.10, T:0.42
Consensus pattern (25 bp):
ATTCATATTATGATACATGACATGA
Found at i:1131546 original size:27 final size:27
Alignment explanation
Indices: 1131482--1131563 Score: 66
Period size: 25 Copynumber: 3.0 Consensus size: 27
1131472 ATGATCGTAT
* *
1131482 TTCATATTATGAT-ACACATGA-ATGCAT
1 TTCATATTAT-ATGATACATGACATG-AA
1131509 TTCATA-T-TATGATACATGACATGAA
1 TTCATATTATATGATACATGACATGAA
1131534 TTCATATTATATGCATTA-AGTGACATGAA
1 TTCATATTATATG-A-TACA-TGACATGAA
1131563 T
1 T
1131564 ATGCAAGAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
24 2 0.04
25 15 0.33
26 5 0.11
27 10 0.22
28 2 0.04
29 12 0.26
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (27 bp):
TTCATATTATATGATACATGACATGAA
Found at i:1131904 original size:23 final size:23
Alignment explanation
Indices: 1131878--1131922 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
1131868 TGGCACTAAT
1131878 GTGCAACTCTACGCGGCACTTCG
1 GTGCAACTCTACGCGGCACTTCG
* * *
1131901 GTGCAATTCTACGTGGTACTTC
1 GTGCAACTCTACGCGGCACTTC
1131923 AATGCATTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.18, C:0.29, G:0.24, T:0.29
Consensus pattern (23 bp):
GTGCAACTCTACGCGGCACTTCG
Found at i:1131928 original size:23 final size:23
Alignment explanation
Indices: 1131879--1131928 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 23
1131869 GGCACTAATG
**
1131879 TGCAACTCTACGCGGCACTTCGG
1 TGCAACTCTACGCGGCACTTCAA
* * *
1131902 TGCAATTCTACGTGGTACTTCAA
1 TGCAACTCTACGCGGCACTTCAA
1131925 TGCA
1 TGCA
1131929 TTTATATGAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.28
Consensus pattern (23 bp):
TGCAACTCTACGCGGCACTTCAA
Found at i:1135299 original size:20 final size:20
Alignment explanation
Indices: 1135274--1135320 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
1135264 CCCTGAGTAC
*
1135274 CGATACTATAGGGGCAATAT
1 CGATACTATACGGGCAATAT
* * *
1135294 CGATACTTTCCTGGCAATAT
1 CGATACTATACGGGCAATAT
1135314 CGATACT
1 CGATACT
1135321 CCCTAACTGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (20 bp):
CGATACTATACGGGCAATAT
Found at i:1145204 original size:2 final size:2
Alignment explanation
Indices: 1145197--1145228 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1145187 ATTATTATTT
1145197 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
1145229 AATTTTTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1146765 original size:4 final size:4
Alignment explanation
Indices: 1146737--1146784 Score: 64
Period size: 4 Copynumber: 12.5 Consensus size: 4
1146727 TGGACAAATC
* *
1146737 GACA GATA GACA GATA GAC- -ACA GACA GACA GACA GACA GACA GACA
1 GACA GACA GACA GACA GACA GACA GACA GACA GACA GACA GACA GACA
1146783 GA
1 GA
1146785 TAGATAGATA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
2 2 0.05
4 36 0.95
ACGTcount: A:0.50, C:0.21, G:0.25, T:0.04
Consensus pattern (4 bp):
GACA
Found at i:1146789 original size:4 final size:4
Alignment explanation
Indices: 1146782--1153106 Score: 11248
Period size: 4 Copynumber: 1604.2 Consensus size: 4
1146772 ACAGACAGAC
1146782 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT --AT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1146828 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
* * * * * *
1146876 AGAT AGAT AGAT AGAT AAGAG AGAC AGAT AGAT AGAA AGAC AAAT AGAC
1 AGAT AGAT AGAT AGAT -AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
* * * * * * * * * *
1146925 AGAT AAAT GGAT AGGAA AGAC ATAC AGAT AGAT GGAT AGAC AGAC AGAC
1 AGAT AGAT AGAT A-GAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
* * * * * * * * *
1146974 AGAT AGAC AGAT AAAC AGAT AGAC AAAT AGAA AAAT AGAC AAAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
* * * * * * * * * *
1147022 GGAT GAGAC AGAC AGAC AGAT AGAT GGAT GGGAC GGAC AGAC AGAT AGAT
1 AGAT -AGAT AGAT AGAT AGAT AGAT AGAT -AGAT AGAT AGAT AGAT AGAT
1147072 AGAT AGAT AGAT AGAT AGAT --AT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1147118 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1147166 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1147214 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1147262 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1147310 AGAT AGAT AGAT A-AT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1147357 AGAT AGAT AGAT AGAT AGAT AGAT AGAT A-AT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1147404 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1147452 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1147500 AGAT AGAT AGAT AGAT AGAT --AT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1147546 AGAT AGAT --AT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1147592 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT -GAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1147639 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1147687 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1147735 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT --AT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1147781 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1147829 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AG-- AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1147875 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1147923 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1147971 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1148019 AGAT AGAT AGAT AG-- AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1148065 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1148113 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1148161 AGAT AGAT AGAT AGAT AGAT AG-- AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1148207 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1148255 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1148303 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
* * *
1148351 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAG ATAG
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1148399 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1148447 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1148495 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
*
1148543 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT ATAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1148591 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1148639 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AG--
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1148685 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1148733 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT --AT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1148779 AGAT AGAT AGAT AGAT --AT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1148825 AGAT AGAT AGAT --AT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1148871 AGAT AGAT --AT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1148917 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1148965 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1149013 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1149061 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1149109 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1149157 AGAT AGAT AGAT AGAT --AT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1149203 AGAT --AT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
*
1149249 AGAT AGAT AGAG AGAT AGAT AGAT AGAT --AT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1149295 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT --AT AGAT AGAT --AT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
*
1149339 AGAT AGAT AGAT AGAT AGAT ATAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1149387 AGAT AGAT AGAT AGAT AGAT AGAT --AT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1149433 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1149481 AGAT AGAT AGAT AGAT AGAT --AT AGAT AGAT AGAT AGAT --AT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1149525 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT --AT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1149571 AGAT AGAT AGAT AGAT A-AT AGAT AGAT --AT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1149616 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1149664 --AT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
* *
1149710 AGAT AGAT AGAT ATAG AGAT AGAT AGAT --AT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1149756 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1149804 AGAT AGAT AGAT AGAT AGAT AGAT --AT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1149850 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1149898 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT --AT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1149944 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1149992 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1150040 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1150088 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1150136 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1150184 --AT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1150230 AGAT --AT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1150276 AGAT AGAT AGAT --AT AGAT AGAT AGAT --AT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1150320 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AG-- AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1150366 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1150414 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1150462 AGAT AGAT AG-- AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1150508 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1150556 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1150604 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1150652 AG-T AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1150699 AGAT AG-- AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1150745 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1150793 AGAT AGAT GAGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT -AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1150842 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1150890 AGAT AGA- AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1150937 AGAT AGAT --AT AGAT AGAT AGAT --AT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1150981 AGAT --AT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1151027 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1151075 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1151123 AG-- AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1151169 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1151217 AGAT AGAT AGAT AG-- AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1151263 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1151311 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1151359 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
*
1151407 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAG
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1151455 AGAT --AT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1151501 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1151549 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1151597 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1151645 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1151693 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1151741 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1151789 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1151837 AGAT AGAT AG-- AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1151883 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT -GAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1151930 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1151978 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1152026 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGTAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AG-AT AGAT AGAT AGAT
1152075 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1152123 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1152171 AGAT AGAT AGAT AGAT AGAT AGAT AG-- AGAT AGAT AG-T AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1152216 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
*
1152264 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAC
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
* *
1152312 AGAT AGAT AGAT AGAT AGAT AGAC AGAC AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1152360 AGAT AGAT AGAT --AT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1152406 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1152454 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1152502 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1152550 AGAT AGAT AGAT AGAT AGAT AGAT --AT AGAT AGAT AGAT AGAT AG--
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1152594 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1152642 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1152690 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1152738 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1152786 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1152834 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1152882 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1152930 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
* * * * * * * * * *
1152978 AGAT TGAT TGAT TGAT TGAT AGAT TGAT AGAC AGAC CGAC AGAC AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
* * * * * * * * * *
1153026 AGAG AG-T CAGA- ACGAT AGAC CGAT AGAC CGAT AGAC AGAC ATAC AGAC
1 AGAT AGAT -AGAT A-GAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
* * *
1153074 AGAT AGAC AGAT AGAT AGAC AGAT AGAC AGAT A
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT A
1153107 TATATATATA
Statistics
Matches: 6116, Mismatches: 97, Indels: 216
0.95 0.02 0.03
Matches are distributed among these distances:
2 90 0.01
3 25 0.00
4 5981 0.98
5 20 0.00
ACGTcount: A:0.50, C:0.01, G:0.25, T:0.25
Consensus pattern (4 bp):
AGAT
Found at i:1153111 original size:2 final size:2
Alignment explanation
Indices: 1153104--1153132 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1153094 AGATAGACAG
1153104 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 A
1153133 GATTTTCACC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1158623 original size:13 final size:13
Alignment explanation
Indices: 1158605--1158629 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1158595 TAAACGGAAA
1158605 TATGAATATGAAG
1 TATGAATATGAAG
1158618 TATGAATATGAA
1 TATGAATATGAA
1158630 ATGTAAATCT
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:0.48, C:0.00, G:0.20, T:0.32
Consensus pattern (13 bp):
TATGAATATGAAG
Found at i:1163163 original size:25 final size:25
Alignment explanation
Indices: 1163128--1163182 Score: 101
Period size: 25 Copynumber: 2.2 Consensus size: 25
1163118 AAGTATGAGG
*
1163128 AGTCATGTACCAGTAAACCTATCAC
1 AGTCATATACCAGTAAACCTATCAC
1163153 AGTCATATACCAGTAAACCTATCAC
1 AGTCATATACCAGTAAACCTATCAC
1163178 AGTCA
1 AGTCA
1163183 GAGGTTGGAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.38, C:0.27, G:0.11, T:0.24
Consensus pattern (25 bp):
AGTCATATACCAGTAAACCTATCAC
Found at i:1164761 original size:31 final size:31
Alignment explanation
Indices: 1164723--1164792 Score: 104
Period size: 31 Copynumber: 2.3 Consensus size: 31
1164713 CTTAGGGCCA
*
1164723 CAGGGCCTACCCAAGAAAAATCTAGGGGTCG
1 CAGGGCCTACCCAAGAAAAATCTAGAGGTCG
* *
1164754 CAGGGCCTACCCAAGAAAGATCTTGAGGTCG
1 CAGGGCCTACCCAAGAAAAATCTAGAGGTCG
*
1164785 CAGAGCCT
1 CAGGGCCT
1164793 CCTTAGGTCT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.30, C:0.27, G:0.29, T:0.14
Consensus pattern (31 bp):
CAGGGCCTACCCAAGAAAAATCTAGAGGTCG
Found at i:1166576 original size:18 final size:18
Alignment explanation
Indices: 1166548--1166591 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
1166538 CCTCGGATAC
* *
1166548 ATAGCAACTGAATTTACAT
1 ATAGAAACTGAACTTA-AT
1166567 -TAGAAACTGAACTTAAT
1 ATAGAAACTGAACTTAAT
1166584 ATAGAAAC
1 ATAGAAAC
1166592 CATATTGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 2 0.09
18 20 0.91
ACGTcount: A:0.48, C:0.14, G:0.11, T:0.27
Consensus pattern (18 bp):
ATAGAAACTGAACTTAAT
Found at i:1166825 original size:14 final size:13
Alignment explanation
Indices: 1166794--1166834 Score: 64
Period size: 13 Copynumber: 3.1 Consensus size: 13
1166784 AAAGTCAACA
*
1166794 AGTTGACTTAGTG
1 AGTTGACTCAGTG
1166807 AGTTGACTCAGTCG
1 AGTTGACTCAGT-G
1166821 AGTTGACTCAGTG
1 AGTTGACTCAGTG
1166834 A
1 A
1166835 CTGGACCAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
13 13 0.50
14 13 0.50
ACGTcount: A:0.24, C:0.15, G:0.29, T:0.32
Consensus pattern (13 bp):
AGTTGACTCAGTG
Found at i:1169472 original size:23 final size:23
Alignment explanation
Indices: 1169428--1169476 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
1169418 ATAAAGAACC
*
1169428 AAAATAAACTTAAATATACCATT
1 AAAATAAACTTAAACATACCATT
*
1169451 AAAATAAAGTTAAAACAT-CCATT
1 AAAATAAACTT-AAACATACCATT
1169474 AAA
1 AAA
1169477 CCAACACCAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 18 0.78
24 5 0.22
ACGTcount: A:0.59, C:0.12, G:0.02, T:0.27
Consensus pattern (23 bp):
AAAATAAACTTAAACATACCATT
Found at i:1171820 original size:15 final size:15
Alignment explanation
Indices: 1171784--1171826 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 15
1171774 ATAATAATAT
* *
1171784 TAAAATTAAAACTAA
1 TAAAAATAAAACAAA
1171799 -AAAAATAAAACAAA
1 TAAAAATAAAACAAA
1171813 TAAAAAT-AAACAAA
1 TAAAAATAAAACAAA
1171827 AAACACTCAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 19 0.76
15 6 0.24
ACGTcount: A:0.77, C:0.07, G:0.00, T:0.16
Consensus pattern (15 bp):
TAAAAATAAAACAAA
Done.