Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold12
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: 2382857
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.28
Warning! 280777 characters in sequence are not A, C, G, or T
File 6 of 12
Found at i:1056881 original size:13 final size:13
Alignment explanation
Indices: 1056863--1056891 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
1056853 ACAACATTCC
1056863 TTGTATCGATACA
1 TTGTATCGATACA
1056876 TTGTATCGATACA
1 TTGTATCGATACA
1056889 TTG
1 TTG
1056892 GGTACTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1058650 original size:19 final size:21
Alignment explanation
Indices: 1058607--1058650 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
1058597 TAATTTGAAT
*
1058607 TTATGAAATGCAATGTTTGTT
1 TTATGAAATGCAATGTTTGTG
1058628 TTATGAAATGC-AT-TTTGTG
1 TTATGAAATGCAATGTTTGTG
1058647 TTAT
1 TTAT
1058651 TTATTTTACT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 9 0.41
20 2 0.09
21 11 0.50
ACGTcount: A:0.27, C:0.05, G:0.18, T:0.50
Consensus pattern (21 bp):
TTATGAAATGCAATGTTTGTG
Found at i:1059462 original size:33 final size:34
Alignment explanation
Indices: 1059417--1059486 Score: 90
Period size: 33 Copynumber: 2.1 Consensus size: 34
1059407 CTATCACTAT
*
1059417 TTGTATCAATACATG-GGACAA-TGCATTGATACA
1 TTGTATCAATACATGAGGA-AATTGCATCGATACA
* *
1059450 TTGTATCGATACATGAGGAAATTGTATCGATACA
1 TTGTATCAATACATGAGGAAATTGCATCGATACA
1059484 TTG
1 TTG
1059487 CTTGTAACGG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
33 16 0.50
34 16 0.50
ACGTcount: A:0.34, C:0.13, G:0.20, T:0.33
Consensus pattern (34 bp):
TTGTATCAATACATGAGGAAATTGCATCGATACA
Found at i:1060198 original size:20 final size:21
Alignment explanation
Indices: 1060173--1060225 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
1060163 ATCGATACAT
**
1060173 TGTATCGATACATG-ACCAAA
1 TGTATCGATACATGTAAAAAA
*
1060193 TGTATCGATACTTGTAAAAAA
1 TGTATCGATACATGTAAAAAA
1060214 TGTATCGATACA
1 TGTATCGATACA
1060226 GGTCATTGGT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 13 0.46
21 15 0.54
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (21 bp):
TGTATCGATACATGTAAAAAA
Found at i:1066704 original size:20 final size:20
Alignment explanation
Indices: 1066669--1066709 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
1066659 CAAATTTCTT
1066669 GTTTTTCACTTCAAAATACATC
1 GTTTTTCAC-TCAAAAT-CATC
1066691 GTTTTTCA-TCAAAATCATC
1 GTTTTTCACTCAAAATCATC
1066710 AAAAAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 7 0.37
22 8 0.42
ACGTcount: A:0.32, C:0.22, G:0.05, T:0.41
Consensus pattern (20 bp):
GTTTTTCACTCAAAATCATC
Found at i:1068420 original size:22 final size:22
Alignment explanation
Indices: 1068395--1068439 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
1068385 TGAAAGTGTT
1068395 AAATTATTTT-ACTAAGGGGGAG
1 AAATT-TTTTGACTAAGGGGGAG
*
1068417 AAATTTTTTGATTAAGGGGGAG
1 AAATTTTTTGACTAAGGGGGAG
1068439 A
1 A
1068440 GAAAAGAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.36, C:0.02, G:0.29, T:0.33
Consensus pattern (22 bp):
AAATTTTTTGACTAAGGGGGAG
Found at i:1069010 original size:13 final size:13
Alignment explanation
Indices: 1068992--1069016 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1068982 ATATTGCACA
1068992 GTATCGATACATT
1 GTATCGATACATT
1069005 GTATCGATACAT
1 GTATCGATACAT
1069017 GACCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:1069135 original size:13 final size:13
Alignment explanation
Indices: 1069117--1069142 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1069107 ACACACATTA
1069117 TGTATCGATACAT
1 TGTATCGATACAT
1069130 TGTATCGATACAT
1 TGTATCGATACAT
1069143 CCAAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1074566 original size:149 final size:147
Alignment explanation
Indices: 1074385--1074791 Score: 414
Period size: 149 Copynumber: 2.8 Consensus size: 147
1074375 AAGGGACATA
* * * * * * *
1074385 AAAAAGAAAAGA-AAATCTACGCCCAATACGTACCCTCAGTATAGAAGTAACCCTATGACAAATT
1 AAAAAGAAAAAACAAACCTATGCCTAATACGTACCCTCAGCATAGAAGTGACCCTGTGACAAATT
*
1074449 AGGACTCGATTTTAAAAAATTTCGAAAATACCCCTAAGGGATACCTTCAACATGAAAGTATCCCG
66 AGGACTCGATTTTAAAAAATTTCGAAAATACCCCTAAGGGATACCTTCAACATCAAAGTATCCCG
* *
1074514 CT-AACCTTAAAGGACTTT
131 ATAAACC-TAAAAGAC-TT
* * * * *
1074532 TAAAAGAAAAAAATAAACCTATGCCTAATACGTACCCTCAACATAAAAGCGA-CCTGGTGACAAA
1 AAAAAG-AAAAAACAAACCTATGCCTAATACGTACCCTCAGCATAGAAGTGACCCT-GTGACAAA
* * * * * * * *
1074596 TTAGGACTCGATTTTAGAAAAACTACGAAAAT-GCCCTATGAG-TATCTTTCGATATCAAAGTAT
64 TTAGGACTCGATTTTA-AAAAATTTCGAAAATACCCCTAAGGGATA-CCTTCAACATCAAAGTAT
1074659 CCCGATAAACCTAAAAGACTT
127 CCCGATAAACCTAAAAGACTT
* * * ** * * *
1074680 AAAAAGGAAAAACAAACCTATGCCTAATATGTAACCTTGGCATAGAAATGACCCGGTCACAAATT
1 AAAAAGAAAAAACAAACCTATGCCTAATACGTACCCTCAGCATAGAAGTGACCCTGTGACAAATT
*
1074745 AGGACTCGATTCT--AAAATTTACGAAAATACCCCTAAGGGATACCTTC
66 AGGACTCGATTTTAAAAAATTT-CGAAAATACCCCTAAGGGATACCTTC
1074792 GACTTAGAAG
Statistics
Matches: 208, Mismatches: 42, Indels: 21
0.77 0.15 0.08
Matches are distributed among these distances:
144 5 0.02
145 7 0.03
146 11 0.05
147 63 0.30
148 19 0.09
149 86 0.41
150 17 0.08
ACGTcount: A:0.42, C:0.21, G:0.14, T:0.23
Consensus pattern (147 bp):
AAAAAGAAAAAACAAACCTATGCCTAATACGTACCCTCAGCATAGAAGTGACCCTGTGACAAATT
AGGACTCGATTTTAAAAAATTTCGAAAATACCCCTAAGGGATACCTTCAACATCAAAGTATCCCG
ATAAACCTAAAAGACTT
Found at i:1077425 original size:166 final size:166
Alignment explanation
Indices: 1076798--1077436 Score: 651
Period size: 166 Copynumber: 3.8 Consensus size: 166
1076788 TTTTAAATTG
* * * * * * * *
1076798 AGAAAAATCTCCTCGAAAACATTTAC-AGAGTCG-AAACTCAATTTTTCAGAAACAGGA-GAATT
1 AGAAAAATCCCCCCGAAAACATTTACGA-AGTAGAAAACTCTATATTTCAAAAATAGAAGGAATT
* * * * * * * *
1076860 TTAAGGAAAAAACTAAAAAACTCATAAAAATAAATAAATTTTTCAAAAATGGTTTGCTATG-AGT
65 TCAAGGAAAAAA-TGAAAAACTCATGAAAATAAATGAATTTTTCAAAACTGATTT--AATGTAAT
*
1076924 TAAATGATGATATTTGAAGAATTTTAAAAATTATAAACCA
127 TAAATGATGATATTTGATGAATTTTAAAAATTATAAACCA
* * * **
1076964 AGAAAAATCTCGCC-AAAACCATTTACGGAA-TAAAAAACTCCGTATTTCAAAAAT--AAGAGAA
1 AGAAAAATCCCCCCGAAAA-CATTTAC-GAAGTAGAAAACTCTATATTTCAAAAATAGAAG-GAA
* * * *
1077025 TTTCAAGGAAAAAATGAAAAACTCATGAAAATAAATGAGTTTTTCAAAACTAATTTAATATGAGT
63 TTTCAAGGAAAAAATGAAAAACTCATGAAAATAAATGAATTTTTCAAAACTGATTTAATGT-AAT
*
1077090 TAAATGATGATATTTGATGAATTTTAAAAATTGTAAACCA
127 TAAATGATGATATTTGATGAATTTTAAAAATTATAAACCA
* * * ** *
1077130 AGAAAAATCCTCACGAAAACATTTACGGAGTAGAAAACT-TCATATTTTGAAAATAGAA-AAATT
1 AGAAAAATCCCCCCGAAAACATTTACGAAGTAGAAAACTCT-ATATTTCAAAAATAGAAGGAATT
* *
1077193 TCAAGGAAAAAATGAAAAACTCATGAAAATAAATGAATTTTTCAAGACTGATTTAATAGAAATTA
65 TCAAGGAAAAAATGAAAAACTCATGAAAATAAATGAATTTTTCAAAACTGATTTAAT-GTAATTA
1077258 AATGATGATATTTGATGAATTTTAAAAATTATAAACCA
129 AATGATGATATTTGATGAATTTTAAAAATTATAAACCA
*
1077296 AGAAAAATCCCCCCGAAAATATTTATC-AAGTAGAAAACTCTATATTTCAAAAATAGAAGGAA-T
1 AGAAAAATCCCCCCGAAAACATTTA-CGAAGTAGAAAACTCTATATTTCAAAAATAGAAGGAATT
* ** * * **
1077359 TCAA-AAAGAAAAT-AAATTCCTTATG-AAATAAAAGGAATTTTTCAAAACTGATTTGGTGGTAA
65 TCAAGGAA-AAAATGAAA-AACTCATGAAAAT-AAATGAATTTTTCAAAACTGATTTAAT-GTAA
1077421 TTAAATGATGATATTT
126 TTAAATGATGATATTT
1077437 AAAGAATGAT
Statistics
Matches: 396, Mismatches: 57, Indels: 40
0.80 0.12 0.08
Matches are distributed among these distances:
164 2 0.01
165 16 0.04
166 335 0.85
167 40 0.10
168 3 0.01
ACGTcount: A:0.49, C:0.10, G:0.12, T:0.29
Consensus pattern (166 bp):
AGAAAAATCCCCCCGAAAACATTTACGAAGTAGAAAACTCTATATTTCAAAAATAGAAGGAATTT
CAAGGAAAAAATGAAAAACTCATGAAAATAAATGAATTTTTCAAAACTGATTTAATGTAATTAAA
TGATGATATTTGATGAATTTTAAAAATTATAAACCA
Found at i:1078809 original size:46 final size:46
Alignment explanation
Indices: 1078711--1078864 Score: 200
Period size: 46 Copynumber: 3.3 Consensus size: 46
1078701 ATTTTGACTA
* * * * * *
1078711 GATATAGTCAAATGATAATAGAAAGATGTTTGACTAGATTGGTAATC
1 GATATAGTCAAATGAGAATAGAAAG-GGTTTGACCAAAGTGGTAACC
* * *
1078758 GATATAGTCGAATGAGAATGGAAAGGGTTTGACCAAGGTGGTAACC
1 GATATAGTCAAATGAGAATAGAAAGGGTTTGACCAAAGTGGTAACC
* *
1078804 AATATAGTCAAATAAGAATAGAAAGGGTTTGACCAAAGTGGTAACC
1 GATATAGTCAAATGAGAATAGAAAGGGTTTGACCAAAGTGGTAACC
1078850 GATATAGTCAAATGA
1 GATATAGTCAAATGA
1078865 TGGTGAAAAG
Statistics
Matches: 91, Mismatches: 16, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
46 69 0.76
47 22 0.24
ACGTcount: A:0.41, C:0.09, G:0.25, T:0.25
Consensus pattern (46 bp):
GATATAGTCAAATGAGAATAGAAAGGGTTTGACCAAAGTGGTAACC
Found at i:1078880 original size:46 final size:47
Alignment explanation
Indices: 1078711--1078882 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 47
1078701 ATTTTGACTA
* * * *
1078711 GATATAGTCAAATGAT-AATAGAAAGATGTTTGACTAGATTGGTAATC
1 GATATAGTCAAATGATGAATAGAAAGA-GTTTGACCAAAGTGGTAACC
* * * *
1078758 GATATAGTCGAATGA-GAATGGAAAGGGTTTGACCAAGGTGGTAACC
1 GATATAGTCAAATGATGAATAGAAAGAGTTTGACCAAAGTGGTAACC
* * *
1078804 AATATAGTCAAAT-AAGAATAGAAAGGGTTTGACCAAAGTGGTAACC
1 GATATAGTCAAATGATGAATAGAAAGAGTTTGACCAAAGTGGTAACC
*
1078850 GATATAGTCAAATGATG-GT-GAAAAGAGTTTGAC
1 GATATAGTCAAATGATGAATAG-AAAGAGTTTGAC
1078883 TAGATACAAC
Statistics
Matches: 105, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
45 2 0.02
46 79 0.75
47 24 0.23
ACGTcount: A:0.40, C:0.09, G:0.26, T:0.26
Consensus pattern (47 bp):
GATATAGTCAAATGATGAATAGAAAGAGTTTGACCAAAGTGGTAACC
Found at i:1078880 original size:92 final size:93
Alignment explanation
Indices: 1078712--1078882 Score: 220
Period size: 92 Copynumber: 1.8 Consensus size: 93
1078702 TTTTGACTAG
* * * * * * * *
1078712 ATATAGTCAAATGATAATAGAAAGATGTTTGACTAGATTGGTAATCGATATAGTCGAATGAGAAT
1 ATATAGTCAAATAAGAATAGAAAGAGGTTTGACCAAAGTGGTAACCGATATAGTCAAATGAGAAT
* *
1078777 GGAAAGGGTTTGACCAAGGTGGTAACCA
66 GAAAAGAGTTTGACCAAGGTGGTAACCA
*
1078805 ATATAGTCAAATAAGAATAGAAAG-GGTTTGACCAAAGTGGTAACCGATATAGTCAAATGATG-G
1 ATATAGTCAAATAAGAATAGAAAGAGGTTTGACCAAAGTGGTAACCGATATAGTCAAATGA-GAA
1078868 TGAAAAGAGTTTGAC
65 TGAAAAGAGTTTGAC
1078883 TAGATACAAC
Statistics
Matches: 66, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
92 43 0.65
93 23 0.35
ACGTcount: A:0.40, C:0.09, G:0.25, T:0.26
Consensus pattern (93 bp):
ATATAGTCAAATAAGAATAGAAAGAGGTTTGACCAAAGTGGTAACCGATATAGTCAAATGAGAAT
GAAAAGAGTTTGACCAAGGTGGTAACCA
Found at i:1078907 original size:35 final size:35
Alignment explanation
Indices: 1078850--1079410 Score: 364
Period size: 35 Copynumber: 16.5 Consensus size: 35
1078840 AGTGGTAACC
* *
1078850 GATATAGTCAAATGATGGTGAAAAGAGTTTGACTA
1 GATATAGCCAAATGATGATGAAAAGAGTTTGACTA
* * * *
1078885 GATACAACCAAATGATGATGAAAAGAGTTTAACCA
1 GATATAGCCAAATGATGATGAAAAGAGTTTGACTA
* **
1078920 GATATAGCCAAATGATAATGGAAACTA-TTTGACTA
1 GATATAGCCAAATGATGAT-GAAAAGAGTTTGACTA
* *
1078955 GATACAGCCAAACGATGAT-AGAAAGAGTTTGACTA
1 GATATAGCCAAATGATGATGA-AAAGAGTTTGACTA
* * * *
1078990 GATACAACTAAATGATGATGGAAAGAGTTTGACTA
1 GATATAGCCAAATGATGATGAAAAGAGTTTGACTA
* *
1079025 GATA-AGCCAAACGATGATGGAAAA-AGTTTGACTG
1 GATATAGCCAAATGATGAT-GAAAAGAGTTTGACTA
* * *
1079059 GATATAGTCAAACT-ATAATGGAAAGAGTTTGACGT-
1 GATATAGCCAAA-TGATGATGAAAAGAGTTTGAC-TA
*
1079094 GATATAGCCAAACGATGATGAAAAGAGTTTGACTA
1 GATATAGCCAAATGATGATGAAAAGAGTTTGACTA
* * * * *
1079129 GATATAGTCAAACGATGATGGAAAGAGTTTAACCA
1 GATATAGCCAAATGATGATGAAAAGAGTTTGACTA
* **
1079164 GATA-A---AAA-GA-GTTTGACCAGA---T-AC--
1 GATATAGCCAAATGATG-ATGAAAAGAGTTTGACTA
* *
1079188 ---A-A-CCAAACGATGATGAAAAGAGTTTAAAC-A
1 GATATAGCCAAATGATGATGAAAAGAGTTT-GACTA
* *
1079218 GATATAGTCAAACGATGATGAAAAGAGTTTGACTA
1 GATATAGCCAAATGATGATGAAAAGAGTTTGACTA
* *
1079253 GATAGAGCCAAACGATGATGAAAAGAGTTTGA-TGA
1 GATATAGCCAAATGATGATGAAAAGAGTTTGACT-A
* ** * * * *
1079288 GATACAATCAAATGATGATGGATAGAGTTTAACCA
1 GATATAGCCAAATGATGATGAAAAGAGTTTGACTA
* * * *
1079323 GATATAGTCAAACGATGATGGAAAA-AGTTTAACCA
1 GATATAGCCAAATGATGAT-GAAAAGAGTTTGACTA
*** ** *
1079358 GATATAATGAAACAATGATGAAAAGAGTTTGACCA
1 GATATAGCCAAATGATGATGAAAAGAGTTTGACTA
* **
1079393 GATACAATCAAATGATGA
1 GATATAGCCAAATGATGA
1079411 ATAGGTTGGC
Statistics
Matches: 423, Mismatches: 71, Indels: 64
0.76 0.13 0.11
Matches are distributed among these distances:
21 2 0.00
23 3 0.01
24 8 0.02
25 1 0.00
26 2 0.00
27 2 0.00
29 3 0.01
30 7 0.02
31 3 0.01
33 2 0.00
34 42 0.10
35 339 0.80
36 9 0.02
ACGTcount: A:0.44, C:0.11, G:0.22, T:0.23
Consensus pattern (35 bp):
GATATAGCCAAATGATGATGAAAAGAGTTTGACTA
Found at i:1079110 original size:139 final size:139
Alignment explanation
Indices: 1078857--1079410 Score: 424
Period size: 140 Copynumber: 4.1 Consensus size: 139
1078847 ACCGATATAG
* * *
1078857 TCAAATGATGGTGAAAAGAGTTTGACTAGATACAACCAAATGATGATGAAAAGAGTTTAACCAGA
1 TCAAATGATGATGGAAAGAGTTTGACTAGATA-AACCAAACGATGATGAAAAGAGTTTAACCAGA
*
1078922 TATAGCCAAATGATAATGGAAACTATTTGACTAGATACAGCCAAACGATGAT-AGAAAGAGTTTG
65 TATAGCCAAATGATAATGGAAACGATTTGACTAGATACAGCCAAACGATGATGA-AAAGAGTTTG
1078986 ACTAGATACAAC
129 ACTAGATA-AAC
* * **
1078998 T-AAATGATGATGGAAAGAGTTTGACTAGATAAGCCAAACGATGATGGAAAA-AGTTTGACTGGA
1 TCAAATGATGATGGAAAGAGTTTGACTAGATAAACCAAACGATGAT-GAAAAGAGTTTAACCAGA
* *
1079061 TATAGTCAAACT-ATAATGGAAA-GAGTTTGACGT-GATATAGCCAAACGATGATGAAAAGAGTT
65 TATAGCCAAA-TGATAATGGAAACGA-TTTGAC-TAGATACAGCCAAACGATGATGAAAAGAGTT
* *
1079123 TGACTAGATATAG
127 TGACTAGATAAAC
* *
1079136 TCAAACGATGATGGAAAGAG--T---T---T-AACC--A-GAT-A--AAAAGAGTTTGACCAGAT
1 TCAAATGATGATGGAAAGAGTTTGACTAGATAAACCAAACGATGATGAAAAGAGTTTAACCAGAT
* * * * * * * *
1079186 ACAACCAAACGATGAT-GAAAAGAGTTTAAAC-AGATATAGTCAAACGATGATGAAAAGAGTTTG
66 ATAGCCAAATGATAATGGAAACGA-TTT-GACTAGATACAGCCAAACGATGATGAAAAGAGTTTG
*
1079249 ACTAGATAGAGC
129 ACTAGATA-AAC
* * * * * *
1079261 -CAAACGATGATGAAAAGAGTTTGA-TGAGATACAATCAAATGATGATGGATAGAGTTTAACCAG
1 TCAAATGATGATGGAAAGAGTTTGACT-AGATA-AACCAAACGATGATGAAAAGAGTTTAACCAG
* * * * * * * *** *
1079324 ATATAGTCAAACGATGATGGAAA-AAGTTTAACCAGATATAATGAAACAATGATGAAAAGAGTTT
64 ATATAGCCAAATGATAATGGAAACGA-TTTGACTAGATACAGCCAAACGATGATGAAAAGAGTTT
*
1079388 GACCAGATACAA-
128 GACTAGATA-AAC
1079400 TCAAATGATGA
1 TCAAATGATGA
1079411 ATAGGTTGGC
Statistics
Matches: 340, Mismatches: 42, Indels: 63
0.76 0.09 0.14
Matches are distributed among these distances:
123 8 0.02
124 83 0.24
125 2 0.01
126 2 0.01
127 3 0.01
128 2 0.01
130 3 0.01
131 1 0.00
132 1 0.00
134 4 0.01
136 1 0.00
137 4 0.01
138 4 0.01
139 102 0.30
140 115 0.34
141 5 0.01
ACGTcount: A:0.44, C:0.11, G:0.22, T:0.23
Consensus pattern (139 bp):
TCAAATGATGATGGAAAGAGTTTGACTAGATAAACCAAACGATGATGAAAAGAGTTTAACCAGAT
ATAGCCAAATGATAATGGAAACGATTTGACTAGATACAGCCAAACGATGATGAAAAGAGTTTGAC
TAGATAAAC
Found at i:1079174 original size:19 final size:19
Alignment explanation
Indices: 1079150--1079186 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
1079140 ACGATGATGG
1079150 AAAGAGTTTAACCAGATAA
1 AAAGAGTTTAACCAGATAA
*
1079169 AAAGAGTTTGACCAGATA
1 AAAGAGTTTAACCAGATA
1079187 CAACCAAACG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.49, C:0.11, G:0.19, T:0.22
Consensus pattern (19 bp):
AAAGAGTTTAACCAGATAA
Found at i:1079196 original size:54 final size:54
Alignment explanation
Indices: 1079114--1079221 Score: 162
Period size: 54 Copynumber: 2.0 Consensus size: 54
1079104 AACGATGATG
* * ** * *
1079114 AAAAGAGTTTGACTAGATATAGTCAAACGATGATGGAAAGAGTTTAACCAGATA
1 AAAAGAGTTTGACCAGATACAACCAAACGATGATGAAAAGAGTTTAAACAGATA
1079168 AAAAGAGTTTGACCAGATACAACCAAACGATGATGAAAAGAGTTTAAACAGATA
1 AAAAGAGTTTGACCAGATACAACCAAACGATGATGAAAAGAGTTTAAACAGATA
1079222 TAGTCAAACG
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 48 1.00
ACGTcount: A:0.47, C:0.11, G:0.20, T:0.21
Consensus pattern (54 bp):
AAAAGAGTTTGACCAGATACAACCAAACGATGATGAAAAGAGTTTAAACAGATA
Found at i:1079231 original size:89 final size:89
Alignment explanation
Indices: 1079080--1079256 Score: 266
Period size: 89 Copynumber: 2.0 Consensus size: 89
1079070 ACTATAATGG
** * * *
1079080 AAAGAGTTTGACGTGATATAGCCAAACGATGATGAAAAGAGTTTGACTAGATATAGTCAAACGAT
1 AAAGAGTTTGACCAGATACAACCAAACGATGATGAAAAGAGTTTAACTAGATATAGTCAAACGAT
*
1079145 GATGGAAAGAGTTTAACCAGATAA
66 GATGAAAAGAGTTTAACCAGATAA
1079169 AAAGAGTTTGACCAGATACAACCAAACGATGATGAAAAGAGTTTAAAC-AGATATAGTCAAACGA
1 AAAGAGTTTGACCAGATACAACCAAACGATGATGAAAAGAGTTT-AACTAGATATAGTCAAACGA
* *
1079233 TGATGAAAAGAGTTTGACTAGATA
65 TGATGAAAAGAGTTTAACCAGATA
1079257 GAGCCAAACG
Statistics
Matches: 79, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
89 77 0.97
90 2 0.03
ACGTcount: A:0.45, C:0.11, G:0.22, T:0.23
Consensus pattern (89 bp):
AAAGAGTTTGACCAGATACAACCAAACGATGATGAAAAGAGTTTAACTAGATATAGTCAAACGAT
GATGAAAAGAGTTTAACCAGATAA
Found at i:1079320 original size:159 final size:158
Alignment explanation
Indices: 1079011--1079326 Score: 451
Period size: 159 Copynumber: 2.0 Consensus size: 158
1079001 ATGATGATGG
* * * * *
1079011 AAAGAGTTTGACTAGATAAGCCAAACGATGATGGAAAAAGTTTGACTGGATATAGTCAAACTATA
1 AAAGAGTTTGACCAGATAAACCAAACGATGATGGAAAAAGTTTAACTAGATATAGTCAAACGATA
* * * *
1079076 ATGGAAAGAGTTTGACGTGATATAGCCAAACGATGATGAAAAGAGTTTGACTAGATATAGTCAAA
66 ATGAAAAGAGTTTGACGTGATAGAGCCAAACGATGATGAAAAGAGTTTGACTAGATACAATCAAA
1079141 CGATGATGGAAAGAGTTTAACCAGATAA
131 CGATGATGGAAAGAGTTTAACCAGATAA
1079169 AAAGAGTTTGACCAGATACAACCAAACGATGAT-GAAAAGAGTTTAAAC-AGATATAGTCAAACG
1 AAAGAGTTTGACCAGATA-AACCAAACGATGATGGAAAA-AGTTT-AACTAGATATAGTCAAACG
*
1079232 ATGATGAAAAGAGTTTGAC-TAGATAGAGCCAAACGATGATGAAAAGAGTTTGA-TGAGATACAA
63 ATAATGAAAAGAGTTTGACGT-GATAGAGCCAAACGATGATGAAAAGAGTTTGACT-AGATACAA
* *
1079295 TCAAATGATGATGGATAGAGTTTAACCAGATA
126 TCAAACGATGATGGAAAGAGTTTAACCAGATA
1079327 TAGTCAAACG
Statistics
Matches: 141, Mismatches: 12, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
158 24 0.17
159 115 0.82
160 2 0.01
ACGTcount: A:0.44, C:0.10, G:0.23, T:0.23
Consensus pattern (158 bp):
AAAGAGTTTGACCAGATAAACCAAACGATGATGGAAAAAGTTTAACTAGATATAGTCAAACGATA
ATGAAAAGAGTTTGACGTGATAGAGCCAAACGATGATGAAAAGAGTTTGACTAGATACAATCAAA
CGATGATGGAAAGAGTTTAACCAGATAA
Found at i:1080186 original size:20 final size:20
Alignment explanation
Indices: 1080161--1080214 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
1080151 ATTAAAAGCA
*
1080161 ATGTATCGATACAAT-TCATC
1 ATGTATCGATACAATGT-ACC
1080181 ATGTATCGATACAATGTACC
1 ATGTATCGATACAATGTACC
*
1080201 ATGTATTGATACAA
1 ATGTATCGATACAA
1080215 ACAGTGGTAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 30 0.97
21 1 0.03
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACAATGTACC
Found at i:1080288 original size:19 final size:18
Alignment explanation
Indices: 1080242--1080299 Score: 80
Period size: 19 Copynumber: 3.1 Consensus size: 18
1080232 ACTGCCAGTT
1080242 TCATGTATCGATACAATTG
1 TCATGTATCGATACAA-TG
*
1080261 TCTATGTATCAATACAATG
1 TC-ATGTATCGATACAATG
1080280 ATCATGTATCGATACAATG
1 -TCATGTATCGATACAATG
1080299 T
1 T
1080300 ATCGATACAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
18 1 0.03
19 19 0.54
20 15 0.43
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (18 bp):
TCATGTATCGATACAATG
Found at i:1080301 original size:13 final size:13
Alignment explanation
Indices: 1080283--1080309 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1080273 TACAATGATC
1080283 ATGTATCGATACA
1 ATGTATCGATACA
1080296 ATGTATCGATACA
1 ATGTATCGATACA
1080309 A
1 A
1080310 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1080325 original size:33 final size:32
Alignment explanation
Indices: 1080264--1080328 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
1080254 ACAATTGTCT
* *
1080264 ATGTATCAATACAATGATCATGTATCGATACA
1 ATGTATCAATACAAAGATAATGTATCGATACA
*
1080296 ATGTATCGATACAAAGCATAATGTATCGATACA
1 ATGTATCAATACAAAG-ATAATGTATCGATACA
1080329 TCTGAGTGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 14 0.48
33 15 0.52
ACGTcount: A:0.42, C:0.15, G:0.14, T:0.29
Consensus pattern (32 bp):
ATGTATCAATACAAAGATAATGTATCGATACA
Found at i:1082654 original size:21 final size:23
Alignment explanation
Indices: 1082630--1082672 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
1082620 GAAGTGAAAA
1082630 TGAAGAAATTTG-TGA-AAGATT
1 TGAAGAAATTTGATGAGAAGATT
*
1082651 TGAAGAATTTTGATGAGAAGAT
1 TGAAGAAATTTGATGAGAAGAT
1082673 GTTAGGGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 11 0.58
22 3 0.16
23 5 0.26
ACGTcount: A:0.42, C:0.00, G:0.26, T:0.33
Consensus pattern (23 bp):
TGAAGAAATTTGATGAGAAGATT
Found at i:1084636 original size:20 final size:20
Alignment explanation
Indices: 1084611--1084664 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
1084601 GTTAGAAGCA
* *
1084611 ATGTATCAATACAAT-TCATC
1 ATGTATCGATACAATGT-ACC
1084631 ATGTATCGATACAATGTACC
1 ATGTATCGATACAATGTACC
1084651 ATGTATCGATACAA
1 ATGTATCGATACAA
1084665 ACACTGGTAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 30 0.97
21 1 0.03
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACAATGTACC
Found at i:1084737 original size:19 final size:19
Alignment explanation
Indices: 1084692--1084765 Score: 96
Period size: 20 Copynumber: 3.8 Consensus size: 19
1084682 ACTGCTAGTT
1084692 TCATGTATCGATACAATTG-
1 TCATGTATCGATACAA-TGA
1084711 TCCATGTATCGATACAATGA
1 T-CATGTATCGATACAATGA
*
1084731 TCATGTATCGATACAAAGAA
1 TCATGTATCGATACAATG-A
*
1084751 TAATGTATCGATACA
1 TCATGTATCGATACA
1084766 TCTACGTGTG
Statistics
Matches: 50, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
19 19 0.38
20 31 0.62
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.31
Consensus pattern (19 bp):
TCATGTATCGATACAATGA
Found at i:1091495 original size:20 final size:20
Alignment explanation
Indices: 1091470--1091523 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
1091460 GTTACAAGCT
* * *
1091470 ATGTATTGATACATTTTAGC
1 ATGTATCGATACATTGTACC
1091490 ATGTATCGATACATTGTACC
1 ATGTATCGATACATTGTACC
1091510 ATGTATCGATACAT
1 ATGTATCGATACAT
1091524 ATAGTGATAG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATTGTACC
Found at i:1091596 original size:19 final size:19
Alignment explanation
Indices: 1091552--1091607 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
1091542 CTACCAATCT
* **
1091552 CATGTATCAATACAACTGTC
1 CATGTATCGATACAA-TGAA
1091572 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
1091591 CATGTATCGATACAATG
1 CATGTATCGATACAATG
1091608 TATCGATACA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 19 0.58
20 14 0.42
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.29
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:1091610 original size:13 final size:13
Alignment explanation
Indices: 1091592--1091620 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
1091582 TACAATGAAC
1091592 ATGTATCGATACA
1 ATGTATCGATACA
1091605 ATGTATCGATACA
1 ATGTATCGATACA
1091618 ATG
1 ATG
1091621 CAATATGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1091614 original size:32 final size:33
Alignment explanation
Indices: 1091573--1091637 Score: 114
Period size: 32 Copynumber: 2.0 Consensus size: 33
1091563 ACAACTGTCC
1091573 ATGTATCGATACAATG-AACATGTATCGATACA
1 ATGTATCGATACAATGCAACATGTATCGATACA
*
1091605 ATGTATCGATACAATGCAATATGTATCGATACA
1 ATGTATCGATACAATGCAACATGTATCGATACA
1091638 TCTGGGTGTG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 16 0.52
33 15 0.48
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.29
Consensus pattern (33 bp):
ATGTATCGATACAATGCAACATGTATCGATACA
Found at i:1093734 original size:33 final size:34
Alignment explanation
Indices: 1093689--1093758 Score: 108
Period size: 34 Copynumber: 2.1 Consensus size: 34
1093679 CTATCACTAT
*
1093689 TTGTATCGATACATG-GGACAA-TGTATCGATACA
1 TTGTATCCATACATGAGGA-AACTGTATCGATACA
1093722 TTGTATCCATACATGAGGAAACTGTATCGATACA
1 TTGTATCCATACATGAGGAAACTGTATCGATACA
1093756 TTG
1 TTG
1093759 CTTGTAATGG
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
33 16 0.47
34 18 0.53
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (34 bp):
TTGTATCCATACATGAGGAAACTGTATCGATACA
Found at i:1099902 original size:13 final size:13
Alignment explanation
Indices: 1099884--1099912 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
1099874 ACAACATTCC
1099884 TTGTATCGATACA
1 TTGTATCGATACA
1099897 TTGTATCGATACA
1 TTGTATCGATACA
1099910 TTG
1 TTG
1099913 GGTACTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1101672 original size:19 final size:21
Alignment explanation
Indices: 1101629--1101672 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
1101619 TAATTTGAAT
*
1101629 TTATGAAATGCAATGTTTGTT
1 TTATGAAATGCAATGTTTGTG
1101650 TTATGAAATGC-AT-TTTGTG
1 TTATGAAATGCAATGTTTGTG
1101669 TTAT
1 TTAT
1101673 TTATTTTACT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 9 0.41
20 2 0.09
21 11 0.50
ACGTcount: A:0.27, C:0.05, G:0.18, T:0.50
Consensus pattern (21 bp):
TTATGAAATGCAATGTTTGTG
Found at i:1102383 original size:19 final size:19
Alignment explanation
Indices: 1102359--1102414 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
1102349 CACACCCAGA
***
1102359 TGTATCGATACATGCTCAT
1 TGTATCGATACATGAGAAT
1102378 TGTATCGATACATGGAGAAT
1 TGTATCGATACAT-GAGAAT
1102398 TGTATCGATACATGAGA
1 TGTATCGATACATGAGA
1102415 TATGCAGTAG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.32
Consensus pattern (19 bp):
TGTATCGATACATGAGAAT
Found at i:1103221 original size:20 final size:21
Alignment explanation
Indices: 1103196--1103248 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
1103186 ATCGATACAT
*
1103196 TGTATCGATACATG-ACCA-AA
1 TGTATCGATACATGTA-AAGAA
*
1103216 TGTATCGATACTTGTAAAGAA
1 TGTATCGATACATGTAAAGAA
1103237 TGTATCGATACA
1 TGTATCGATACA
1103249 GGTCATTGGT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (21 bp):
TGTATCGATACATGTAAAGAA
Found at i:1103408 original size:20 final size:20
Alignment explanation
Indices: 1103383--1103436 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
1103373 TTTCAAATGC
1103383 ATGTATCGATACATCCCAAA
1 ATGTATCGATACATCCCAAA
*
1103403 ATGTATCGATATATCCCAAA
1 ATGTATCGATACATCCCAAA
1103423 ATGTATCGATACAT
1 ATGTATCGATACAT
1103437 TTACACGAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.30
Consensus pattern (20 bp):
ATGTATCGATACATCCCAAA
Found at i:1106377 original size:54 final size:54
Alignment explanation
Indices: 1106298--1106406 Score: 209
Period size: 54 Copynumber: 2.0 Consensus size: 54
1106288 ATGAAAGTAG
1106298 TTTTTGAATCTCAAAACTGTCACGTAATTGATACTTGTAATAATAAAACAATTT
1 TTTTTGAATCTCAAAACTGTCACGTAATTGATACTTGTAATAATAAAACAATTT
*
1106352 TTTTTGAATCTCAAAATTGTCACGTAATTGATACTTGTAATAATAAAACAATTT
1 TTTTTGAATCTCAAAACTGTCACGTAATTGATACTTGTAATAATAAAACAATTT
1106406 T
1 T
1106407 CTTAGGCCAT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.39, C:0.12, G:0.09, T:0.40
Consensus pattern (54 bp):
TTTTTGAATCTCAAAACTGTCACGTAATTGATACTTGTAATAATAAAACAATTT
Found at i:1109585 original size:13 final size:13
Alignment explanation
Indices: 1109567--1109604 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
1109557 CAGCATTCTC
*
1109567 TGTATCGATACAT
1 TGTATCGATACAG
1109580 TGTATCGATACAG
1 TGTATCGATACAG
1109593 TGTATCGATACA
1 TGTATCGATACA
1109605 AAGGGTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:1110881 original size:13 final size:13
Alignment explanation
Indices: 1110863--1110900 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
1110853 CAGCATTCTC
*
1110863 TGTATCGATACAT
1 TGTATCGATACAG
1110876 TGTATCGATACAG
1 TGTATCGATACAG
1110889 TGTATCGATACA
1 TGTATCGATACA
1110901 AAGGGTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:1112780 original size:22 final size:22
Alignment explanation
Indices: 1112755--1112799 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
1112745 CGAAAGTGTT
1112755 AAATTATTTT-ACTAAGGGGGAG
1 AAATT-TTTTGACTAAGGGGGAG
*
1112777 AAATTTTTTGATTAAGGGGGAG
1 AAATTTTTTGACTAAGGGGGAG
1112799 A
1 A
1112800 GAAAAGAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.36, C:0.02, G:0.29, T:0.33
Consensus pattern (22 bp):
AAATTTTTTGACTAAGGGGGAG
Found at i:1113497 original size:13 final size:13
Alignment explanation
Indices: 1113479--1113504 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1113469 ACACACATTA
1113479 TGTATCGATACAT
1 TGTATCGATACAT
1113492 TGTATCGATACAT
1 TGTATCGATACAT
1113505 CCAAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1118906 original size:149 final size:147
Alignment explanation
Indices: 1118729--1119134 Score: 403
Period size: 148 Copynumber: 2.8 Consensus size: 147
1118719 AAGGGACATA
* * * * * *
1118729 AAAAAGAAAAGA-AAATCTACGCCCAATACGTACCCTCAGTATAGAAGTAACCCGATGACAAATT
1 AAAAAGAAAAAACAAACCTACGCCTAATACGTACCCTCAGCATAGAAGTGACCCGGTGACAAATT
*
1118793 AGGACTCGATTTTAAAAAATTTCGAAAATACCCCTAAGGGATACCTTCAACATGAAAGTATCCCG
66 AGGACTCGATTTTAAAAAATTTCGAAAATACCCCTAAGGGATACCTTCAACATCAAAGTATCCCG
* *
1118858 CT-AACCTTAAAGGACTTT
131 ATAAACC-TAAAAGAC-TT
* * * * * * *
1118876 TAAAAGAAAAAAATAAACCTACGCCTAATACATACCCTCAACATAAAAGCGACCTGGTGAC-AAT
1 AAAAAG-AAAAAACAAACCTACGCCTAATACGTACCCTCAGCATAGAAGTGACCCGGTGACAAAT
* * * * * * * *
1118940 TAGGACTCGATTTTAGAAAAACTACGAAAAT-GCCCTATGAG-TATCTTTCGATATCAAAGTATC
65 TAGGACTCGATTTTA-AAAAATTTCGAAAATACCCCTAAGGGATA-CCTTCAACATCAAAGTATC
1119003 CCGATAAACCTAAAAGACTT
128 CCGATAAACCTAAAAGACTT
* * * * ** * *
1119023 AAAAAGGAAAAACAAACCTATGCCTAATATGTAACCTTGGCATAGAAATGACCCGGTCACAAATT
1 AAAAAGAAAAAACAAACCTACGCCTAATACGTACCCTCAGCATAGAAGTGACCCGGTGACAAATT
* *
1119088 AGGACTCGATTCT--AAAATTTATGAAAATACCCCTAAGGGATACCTTC
66 AGGACTCGATTTTAAAAAATTT-CGAAAATACCCCTAAGGGATACCTTC
1119135 GACTTAGAAG
Statistics
Matches: 204, Mismatches: 46, Indels: 19
0.76 0.17 0.07
Matches are distributed among these distances:
144 5 0.02
145 6 0.03
146 51 0.25
147 32 0.16
148 56 0.27
149 54 0.26
ACGTcount: A:0.42, C:0.21, G:0.14, T:0.23
Consensus pattern (147 bp):
AAAAAGAAAAAACAAACCTACGCCTAATACGTACCCTCAGCATAGAAGTGACCCGGTGACAAATT
AGGACTCGATTTTAAAAAATTTCGAAAATACCCCTAAGGGATACCTTCAACATCAAAGTATCCCG
ATAAACCTAAAAGACTT
Found at i:1119033 original size:148 final size:147
Alignment explanation
Indices: 1118729--1119134 Score: 351
Period size: 149 Copynumber: 2.8 Consensus size: 147
1118719 AAGGGACATA
* * * ** * ** * *
1118729 AAAAAGAAAAGA-AAATCTACGCCCAATACGTACCCTCAGTATAGAAGTAACCCGATGACAAATT
1 AAAAAGAAAA-ACAAACCTACGCCTAATACATACCCTCAACATAAAAGCGACCTGGTGACAAATT
* * *
1118793 AGGACTCGATTTTAAAAAATTTCGAAAATACCCCTAAGGGATACCTTCAACATGAAAGTATCCCG
65 AGGACTCGATTTTAAAAAACTACGAAAATACCCCTAAGGGATACCTTCAACATCAAAGTATCCCG
* *
1118858 CTAACCTTAAAGGACTTTT
130 ATAACCTTAAAAGAC-TTT
* *
1118877 AAAAGAAAAAAATAAACCTACGCCTAATACATACCCTCAACATAAAAGCGACCTGGTGAC-AATT
1 AAAA-AGAAAAACAAACCTACGCCTAATACATACCCTCAACATAAAAGCGACCTGGTGACAAATT
* * * * * *
1118941 AGGACTCGATTTTAGAAAAACTACGAAAAT-GCCCTATGAG-TATCTTTCGATATCAAAGTATCC
65 AGGACTCGATTTTA-AAAAACTACGAAAATACCCCTAAGGGATA-CCTTCAACATCAAAGTATCC
1119004 CGATAAACC-TAAAAGAC-TT
128 CGAT-AACCTTAAAAGACTTT
* ** * *** * * *
1119023 AAAAAGGAAAAACAAACCTATGCCTAATATGTAACCTTGGCATAGAAA-TGACCCGGTCACAAAT
1 AAAAA-GAAAAACAAACCTACGCCTAATACATACCCTCAACATA-AAAGCGACCTGGTGACAAAT
* ** *
1119087 TAGGACTCGATTCT-AAAATTTATGAAAATACCCCTAAGGGATACCTTC
64 TAGGACTCGATTTTAAAAAACTACGAAAATACCCCTAAGGGATACCTTC
1119135 GACTTAGAAG
Statistics
Matches: 206, Mismatches: 42, Indels: 22
0.76 0.16 0.08
Matches are distributed among these distances:
145 13 0.06
146 55 0.27
147 23 0.11
148 56 0.27
149 59 0.29
ACGTcount: A:0.42, C:0.21, G:0.14, T:0.23
Consensus pattern (147 bp):
AAAAAGAAAAACAAACCTACGCCTAATACATACCCTCAACATAAAAGCGACCTGGTGACAAATTA
GGACTCGATTTTAAAAAACTACGAAAATACCCCTAAGGGATACCTTCAACATCAAAGTATCCCGA
TAACCTTAAAAGACTTT
Found at i:1121694 original size:166 final size:165
Alignment explanation
Indices: 1121044--1121779 Score: 749
Period size: 166 Copynumber: 4.4 Consensus size: 165
1121034 TATTTTATGA
* * * * *
1121044 AAAAAATGCAAAA-TGCAT-AAAATAAATTAAATTTTCTC-AAATTGATTTACAAAGAATTTAAT
1 AAAAAATGAAAAACT-CATGAAAATAAA-TGAATTTT-TCAAAACTGATTTA-ATAGAATTAAAT
* * * * * * *** * *
1121106 AATAATATTTGATAAACTTTGAAAATTTTAAATTGAGAAAAATCTCCTCGAAAACATTTACGGAG
62 GATGATATTTGATGAATTTTAAAAATTATAAACCAAGAAAAATCCCCCCGAAAACATTTACGGAG
* * * *
1121171 TCG-AAACTCAATTTTTCAAAAATAAGAGAATTTTAAGG
127 TAGAAAACTCCATATTTCAAAAATAAGAGAATTTCAAGG
* * * * * * *
1121209 AAAAAACTAAAAAACTCATAAAAATAAATAAATTTTTCAAAAATGGTTTACTATGAGTTAAATGA
1 AAAAAA-TGAAAAACTCATGAAAATAAATGAATTTTTCAAAACTGATTTAATA-GAATTAAATGA
* * * *
1121274 TGATATTTGAAGAATTTTAAAAATTATAAACCAAGAAAAATCTCGCC-AAAACCATTTACGGAAT
64 TGATATTTGATGAATTTTAAAAATTATAAACCAAGAAAAATCCCCCCGAAAA-CATTTACGGAGT
* *
1121338 AAAAAACTCCGTATTTCAAAAATAAGAGAATTTCAAGG
128 AGAAAACTCCATATTTCAAAAATAAGAGAATTTCAAGG
* *
1121376 AAAAAATGAAAAACTCATGAAAATAAATGAATTTTTCAAAACTAATTTAATATGAGTTAAATGAT
1 AAAAAATGAAAAACTCATGAAAATAAATGAATTTTTCAAAACTGATTTAATA-GAATTAAATGAT
* * * * *
1121441 GATATTTGATGAATTTTAAAAATTGTAAACCAAGAAAAATCCTCACGAAAACATTTATGGGGTAG
65 GATATTTGATGAATTTTAAAAATTATAAACCAAGAAAAATCCCCCCGAAAACATTTACGGAGTAG
* ** *
1121506 AAAACTTCATATTTTGAAAAT-AGAAAAATTTCAAGG
130 AAAACTCCATATTTCAAAAATAAG-AGAATTTCAAGG
1121542 AAAAAATGAAAAACTCATGAAAATAAATGAATTTTTCAAAACTGATTTAATAGAAATTAAATGAT
1 AAAAAATGAAAAACTCATGAAAATAAATGAATTTTTCAAAACTGATTTAATAG-AATTAAATGAT
*
1121607 GATATTTGATGAATTTTAAAAATTATAAACCAAGAAAAATCCCCCCGAAAATATTTATC-GAGTA
65 GATATTTGATGAATTTTAAAAATTATAAACCAAGAAAAATCCCCCCGAAAACATTTA-CGGAGTA
* *
1121671 GAAAATTCCATATTTCAAAAAT-AGAAGGAA-TTCAA-A
129 GAAAACTCCATATTTCAAAAATAAG-A-GAATTTCAAGG
* * * * ** *
1121707 AAGAAAAT-AAATACCTTATG-AAATAAAAGGAATTTTTCAAAATTGATTTGGTGGTAATTAAAT
1 AA-AAAATGAAA-AACTCATGAAAAT-AAATGAATTTTTCAAAACTGATTTAATAG-AATTAAAT
1121770 GATGATATTT
62 GATGATATTT
1121780 AAAGAATGAT
Statistics
Matches: 485, Mismatches: 71, Indels: 29
0.83 0.12 0.05
Matches are distributed among these distances:
165 25 0.05
166 408 0.84
167 52 0.11
ACGTcount: A:0.49, C:0.09, G:0.11, T:0.30
Consensus pattern (165 bp):
AAAAAATGAAAAACTCATGAAAATAAATGAATTTTTCAAAACTGATTTAATAGAATTAAATGATG
ATATTTGATGAATTTTAAAAATTATAAACCAAGAAAAATCCCCCCGAAAACATTTACGGAGTAGA
AAACTCCATATTTCAAAAATAAGAGAATTTCAAGG
Found at i:1123149 original size:46 final size:46
Alignment explanation
Indices: 1123051--1123204 Score: 191
Period size: 46 Copynumber: 3.3 Consensus size: 46
1123041 ATTTTGACTA
* * * * * *
1123051 GATATAGTCAAATGATAATAGAAAGATGTTTGACTAGATTGGTAATC
1 GATATAGTCAAATGAGAATAGAAAG-GGTTTGACCAAAGTGGTAACC
* * *
1123098 GATATAGTCGAATGAGAATGGAAAGGGTTTGACCAAGGTGGTAACC
1 GATATAGTCAAATGAGAATAGAAAGGGTTTGACCAAAGTGGTAACC
* * *
1123144 AATATAGTCAAATAAGAATAGAAAGGGTTTGACCAAAGTGGTAGCC
1 GATATAGTCAAATGAGAATAGAAAGGGTTTGACCAAAGTGGTAACC
1123190 GATATAGTCAAATGA
1 GATATAGTCAAATGA
1123205 TGGTGAAAAG
Statistics
Matches: 90, Mismatches: 17, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
46 68 0.76
47 22 0.24
ACGTcount: A:0.40, C:0.09, G:0.25, T:0.25
Consensus pattern (46 bp):
GATATAGTCAAATGAGAATAGAAAGGGTTTGACCAAAGTGGTAACC
Found at i:1123220 original size:46 final size:47
Alignment explanation
Indices: 1123051--1123222 Score: 174
Period size: 46 Copynumber: 3.7 Consensus size: 47
1123041 ATTTTGACTA
* * * *
1123051 GATATAGTCAAATGAT-AATAGAAAGATGTTTGACTAGATTGGTAATC
1 GATATAGTCAAATGATGAATAGAAAGA-GTTTGACCAAAGTGGTAACC
* * * *
1123098 GATATAGTCGAATGA-GAATGGAAAGGGTTTGACCAAGGTGGTAACC
1 GATATAGTCAAATGATGAATAGAAAGAGTTTGACCAAAGTGGTAACC
* * * *
1123144 AATATAGTCAAAT-AAGAATAGAAAGGGTTTGACCAAAGTGGTAGCC
1 GATATAGTCAAATGATGAATAGAAAGAGTTTGACCAAAGTGGTAACC
*
1123190 GATATAGTCAAATGATG-GT-GAAAAGAGTTTGAC
1 GATATAGTCAAATGATGAATAG-AAAGAGTTTGAC
1123223 TAGATACAAC
Statistics
Matches: 104, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
45 2 0.02
46 78 0.75
47 24 0.23
ACGTcount: A:0.40, C:0.09, G:0.26, T:0.26
Consensus pattern (47 bp):
GATATAGTCAAATGATGAATAGAAAGAGTTTGACCAAAGTGGTAACC
Found at i:1123220 original size:92 final size:93
Alignment explanation
Indices: 1123052--1123222 Score: 211
Period size: 92 Copynumber: 1.8 Consensus size: 93
1123042 TTTTGACTAG
* * * * * * * *
1123052 ATATAGTCAAATGATAATAGAAAGATGTTTGACTAGATTGGTAATCGATATAGTCGAATGAGAAT
1 ATATAGTCAAATAAGAATAGAAAGAGGTTTGACCAAAGTGGTAACCGATATAGTCAAATGAGAAT
* *
1123117 GGAAAGGGTTTGACCAAGGTGGTAACCA
66 GAAAAGAGTTTGACCAAGGTGGTAACCA
* *
1123145 ATATAGTCAAATAAGAATAGAAAG-GGTTTGACCAAAGTGGTAGCCGATATAGTCAAATGATG-G
1 ATATAGTCAAATAAGAATAGAAAGAGGTTTGACCAAAGTGGTAACCGATATAGTCAAATGA-GAA
1123208 TGAAAAGAGTTTGAC
65 TGAAAAGAGTTTGAC
1123223 TAGATACAAC
Statistics
Matches: 65, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
92 42 0.65
93 23 0.35
ACGTcount: A:0.40, C:0.09, G:0.26, T:0.26
Consensus pattern (93 bp):
ATATAGTCAAATAAGAATAGAAAGAGGTTTGACCAAAGTGGTAACCGATATAGTCAAATGAGAAT
GAAAAGAGTTTGACCAAGGTGGTAACCA
Found at i:1123247 original size:35 final size:35
Alignment explanation
Indices: 1123190--1123508 Score: 329
Period size: 35 Copynumber: 9.1 Consensus size: 35
1123180 AGTGGTAGCC
* *
1123190 GATATAGTCAAATGATGGTGAAAAGAGTTTGACTA
1 GATATAGCCAAATGATGATGAAAAGAGTTTGACTA
* * * *
1123225 GATACAACCAAATGATGATGAAAAGAGTTTAACCA
1 GATATAGCCAAATGATGATGAAAAGAGTTTGACTA
* ** *
1123260 GATATAGCCAAATGATGATGGAAACTGTTTAACTA
1 GATATAGCCAAATGATGATGAAAAGAGTTTGACTA
* *
1123295 GATACAGCCAAACGATGAT-AGAAAGAGTTTGACTA
1 GATATAGCCAAATGATGATGA-AAAGAGTTTGACTA
* * * * *
1123330 GATACAACTAAATGATGATGGACAGAGTTTGACTA
1 GATATAGCCAAATGATGATGAAAAGAGTTTGACTA
* *
1123365 GATATAGCCAAACGATGATGGAAAA-AGTTTGACTG
1 GATATAGCCAAATGATGAT-GAAAAGAGTTTGACTA
* * * *
1123400 GATATAGTCAAACT-ATAATGGAAAGAGTTTGACTT
1 GATATAGCCAAA-TGATGATGAAAAGAGTTTGACTA
*
1123435 GATATAGCCAAACGATGATGAAAAGAGTTTGACTA
1 GATATAGCCAAATGATGATGAAAAGAGTTTGACTA
* * * * *
1123470 GATATAGTCAAACGATGATGGAAAGAGTTTAACCA
1 GATATAGCCAAATGATGATGAAAAGAGTTTGACTA
1123505 GATA
1 GATA
1123509 AAAGGAGTTT
Statistics
Matches: 234, Mismatches: 44, Indels: 12
0.81 0.15 0.04
Matches are distributed among these distances:
34 4 0.02
35 227 0.97
36 3 0.01
ACGTcount: A:0.42, C:0.11, G:0.22, T:0.25
Consensus pattern (35 bp):
GATATAGCCAAATGATGATGAAAAGAGTTTGACTA
Found at i:1123306 original size:70 final size:70
Alignment explanation
Indices: 1123190--1123508 Score: 385
Period size: 70 Copynumber: 4.6 Consensus size: 70
1123180 AGTGGTAGCC
* * * *
1123190 GATATAGTCAAATGATGGTGAAAAGAGTTTGACTAGATACAACCAAATGATGATGAAAAGAGTTT
1 GATATAGTCAAATGATGATGGAAAGAGTTTGACTAGATACAGCCAAACGATGATGAAAAGAGTTT
* *
1123255 AACCA
66 GACTA
* ** *
1123260 GATATAGCCAAATGATGATGGAAACTGTTTAACTAGATACAGCCAAACGATGAT-AGAAAGAGTT
1 GATATAGTCAAATGATGATGGAAAGAGTTTGACTAGATACAGCCAAACGATGATGA-AAAGAGTT
1123324 TGACTA
65 TGACTA
* * * *
1123330 GATACA-ACTAAATGATGATGGACAGAGTTTGACTAGATATAGCCAAACGATGATGGAAAA-AGT
1 GATATAGTC-AAATGATGATGGAAAGAGTTTGACTAGATACAGCCAAACGATGAT-GAAAAGAGT
*
1123393 TTGACTG
64 TTGACTA
* * *
1123400 GATATAGTCAAACT-ATAATGGAAAGAGTTTGACTTGATATAGCCAAACGATGATGAAAAGAGTT
1 GATATAGTCAAA-TGATGATGGAAAGAGTTTGACTAGATACAGCCAAACGATGATGAAAAGAGTT
1123464 TGACTA
65 TGACTA
* * *
1123470 GATATAGTCAAACGATGATGGAAAGAGTTTAACCAGATA
1 GATATAGTCAAATGATGATGGAAAGAGTTTGACTAGATA
1123509 AAAGGAGTTT
Statistics
Matches: 212, Mismatches: 29, Indels: 16
0.82 0.11 0.06
Matches are distributed among these distances:
69 7 0.03
70 199 0.94
71 5 0.02
72 1 0.00
ACGTcount: A:0.42, C:0.11, G:0.22, T:0.25
Consensus pattern (70 bp):
GATATAGTCAAATGATGATGGAAAGAGTTTGACTAGATACAGCCAAACGATGATGAAAAGAGTTT
GACTA
Found at i:1123386 original size:105 final size:105
Alignment explanation
Indices: 1123211--1123508 Score: 398
Period size: 105 Copynumber: 2.8 Consensus size: 105
1123201 ATGATGGTGA
* * *
1123211 AAAGAGTTTGACTAGATACAACCAAATGATGATGAAAAGAGTTTAACCAGATATAGCCAAATGAT
1 AAAGAGTTTGACTAGATACAACCAAATGATGATGAAAAGAGTTTGACTAGATATAGCCAAACGAT
** *
1123276 GATGGAAACTGTTTAACTAGATACAGCCAAACGATGATAG
66 GATGGAAAAAGTTTAACTAGATACAGCCAAACGATAATAG
* * *
1123316 AAAGAGTTTGACTAGATACAACTAAATGATGATGGACAGAGTTTGACTAGATATAGCCAAACGAT
1 AAAGAGTTTGACTAGATACAACCAAATGATGATGAAAAGAGTTTGACTAGATATAGCCAAACGAT
* * * * * *
1123381 GATGGAAAAAGTTTGACTGGATATAGTCAAACTATAATGG
66 GATGGAAAAAGTTTAACTAGATACAGCCAAACGATAATAG
* * * * *
1123421 AAAGAGTTTGACTTGATATAGCCAAACGATGATGAAAAGAGTTTGACTAGATATAGTCAAACGAT
1 AAAGAGTTTGACTAGATACAACCAAATGATGATGAAAAGAGTTTGACTAGATATAGCCAAACGAT
* *
1123486 GATGGAAAGAGTTTAACCAGATA
66 GATGGAAAAAGTTTAACTAGATA
1123509 AAAGGAGTTT
Statistics
Matches: 166, Mismatches: 27, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
105 166 1.00
ACGTcount: A:0.42, C:0.11, G:0.22, T:0.24
Consensus pattern (105 bp):
AAAGAGTTTGACTAGATACAACCAAATGATGATGAAAAGAGTTTGACTAGATATAGCCAAACGAT
GATGGAAAAAGTTTAACTAGATACAGCCAAACGATAATAG
Found at i:1123536 original size:54 final size:53
Alignment explanation
Indices: 1123455--1123562 Score: 144
Period size: 54 Copynumber: 2.0 Consensus size: 53
1123445 AACGATGATG
* * ** * *
1123455 AAAAGAGTTTGACTAGATATAGTCAAACGATGATGGAAAGAGTTTAACCAGAT
1 AAAAGAGTTTGACCAGATACAACCAAACGATGATGAAAAGAGTTTAAACAGAT
*
1123508 AAAAGGAGTTTGACCAGATACAACCAAACGATGATGAAAATAGTTTAAACAGAT
1 AAAA-GAGTTTGACCAGATACAACCAAACGATGATGAAAAGAGTTTAAACAGAT
1123562 A
1 A
1123563 TAGTCAAACG
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
53 4 0.09
54 43 0.91
ACGTcount: A:0.46, C:0.11, G:0.20, T:0.22
Consensus pattern (53 bp):
AAAAGAGTTTGACCAGATACAACCAAACGATGATGAAAAGAGTTTAAACAGAT
Found at i:1123561 original size:35 final size:35
Alignment explanation
Indices: 1123508--1123751 Score: 206
Period size: 35 Copynumber: 6.9 Consensus size: 35
1123498 TTAACCAGAT
* * **
1123508 AAAAGGAGTTTGACCAGATACAACCAAACGATGATG
1 AAAA-GAGTTTAAACAGATACAGTCAAACGATGATG
* *
1123544 AAAATAGTTTAAACAGATATAGTCAAACGATGATG
1 AAAAGAGTTTAAACAGATACAGTCAAACGATGATG
* * * *
1123579 AACAGAGTTT-GACTAGATAGAGCCAAACGATGATG
1 AAAAGAGTTTAAAC-AGATACAGTCAAACGATGATG
* * *
1123614 AAAAGAGTTT-GACGAGATACAATCAAATGATGATG
1 AAAAGAGTTTAAAC-AGATACAGTCAAACGATGATG
* * * *
1123649 GATAGAGTTTAACCAGATATAGTCAAACGATGATGG
1 AAAAGAGTTTAAACAGATACAGTCAAACGATGAT-G
* * * *
1123685 AAAA-AGTTTAACCAGATATAGTGAAACAATGATG
1 AAAAGAGTTTAAACAGATACAGTCAAACGATGATG
* * * *
1123719 AAAAGAGTTTGACCAGATACAATCAAATGATGA
1 AAAAGAGTTTAAACAGATACAGTCAAACGATGA
1123752 ATAGGTTGGC
Statistics
Matches: 170, Mismatches: 34, Indels: 9
0.80 0.16 0.04
Matches are distributed among these distances:
34 7 0.04
35 155 0.91
36 8 0.05
ACGTcount: A:0.45, C:0.11, G:0.21, T:0.22
Consensus pattern (35 bp):
AAAAGAGTTTAAACAGATACAGTCAAACGATGATG
Found at i:1123575 original size:89 final size:89
Alignment explanation
Indices: 1123424--1123597 Score: 244
Period size: 89 Copynumber: 2.0 Consensus size: 89
1123414 ATAATGGAAA
** * * *
1123424 GAGTTTGACTTGATATAGCCAAACGATGATGAAAAGAGTTTGACTAGATATAGTCAAACGATGAT
1 GAGTTTGACCAGATACAACCAAACGATGATGAAAAGAGTTTAACTAGATATAGTCAAACGATGAT
1123489 GGAA-AGAGTTTAACCAGATAAAAG
66 -GAACAGAGTTTAACCAGATAAAAG
*
1123513 GAGTTTGACCAGATACAACCAAACGATGATGAAAATAGTTTAAAC-AGATATAGTCAAACGATGA
1 GAGTTTGACCAGATACAACCAAACGATGATGAAAAGAGTTT-AACTAGATATAGTCAAACGATGA
* *
1123577 TGAACAGAGTTTGACTAGATA
65 TGAACAGAGTTTAACCAGATA
1123598 GAGCCAAACG
Statistics
Matches: 75, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
88 3 0.04
89 70 0.93
90 2 0.03
ACGTcount: A:0.43, C:0.11, G:0.22, T:0.24
Consensus pattern (89 bp):
GAGTTTGACCAGATACAACCAAACGATGATGAAAAGAGTTTAACTAGATATAGTCAAACGATGAT
GAACAGAGTTTAACCAGATAAAAG
Found at i:1123646 original size:159 final size:159
Alignment explanation
Indices: 1123354--1123667 Score: 454
Period size: 159 Copynumber: 2.0 Consensus size: 159
1123344 ATGATGGACA
* * * * * *
1123354 GAGTTTGACTAGATATAGCCAAACGATGATGGAAAAAGTTTGACTGGATATAGTCAAACTATAAT
1 GAGTTTGACCAGATACAACCAAACGATGATGGAAAAAGTTTAACTAGATATAGTCAAACGATAAT
* * * * *
1123419 GGAAAGAGTTTGACTTGATATAGCCAAACGATGATGAAAAGAGTTTGACTAGATATAGTCAAACG
66 GGAAAGAGTTTGACTAGATAGAGCCAAACGATGATGAAAAGAGTTTGACGAGATACAATCAAACG
1123484 ATGATGGAAAGAGTTTAACCAGATAAAAG
131 ATGATGGAAAGAGTTTAACCAGATAAAAG
*
1123513 GAGTTTGACCAGATACAACCAAACGATGAT-GAAAATAGTTTAAAC-AGATATAGTCAAACGATG
1 GAGTTTGACCAGATACAACCAAACGATGATGGAAAA-AGTTT-AACTAGATATAGTCAAACGATA
1123576 AT-GAACAGAGTTTGACTAGATAGAGCCAAACGATGATGAAAAGAGTTTGACGAGATACAATCAA
64 ATGGAA-AGAGTTTGACTAGATAGAGCCAAACGATGATGAAAAGAGTTTGACGAGATACAATCAA
* *
1123640 ATGATGATGGATAGAGTTTAACCAGATA
128 ACGATGATGGAAAGAGTTTAACCAGATA
1123668 TAGTCAAACG
Statistics
Matches: 138, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
158 8 0.06
159 128 0.93
160 2 0.01
ACGTcount: A:0.42, C:0.11, G:0.23, T:0.24
Consensus pattern (159 bp):
GAGTTTGACCAGATACAACCAAACGATGATGGAAAAAGTTTAACTAGATATAGTCAAACGATAAT
GGAAAGAGTTTGACTAGATAGAGCCAAACGATGATGAAAAGAGTTTGACGAGATACAATCAAACG
ATGATGGAAAGAGTTTAACCAGATAAAAG
Found at i:1123648 original size:194 final size:194
Alignment explanation
Indices: 1123311--1123702 Score: 502
Period size: 194 Copynumber: 2.0 Consensus size: 194
1123301 GCCAAACGAT
* * * * * *
1123311 GATAGAAAGAGTTTGACTAGATACAACTAAATGATGATGGACAGAGTTTGACTAGATATAGCCAA
1 GATAGAAAGAGTTTGACCAGATACAACCAAACGATGATGAAAAGAGTTTAACTAGATATAGCCAA
* * * * * ** *
1123376 ACGATGATGGAAAAAGTTTGACTGGATATAGTCAAACTATAATGGAAAGAGTTTGACTTGATATA
66 ACGATGATGGAAAAAGTTTGACTAGATAGAGCCAAACGATAATGAAAAGAGTTTGACGAGATACA
* * * *
1123441 GCCAAACGATGATGAAAAGAGTTTGACTAGATATAGTCAAACGATGATGGAAAGAGTTTAACCA
131 ACCAAACGATGATGAAAAGAGTTTAACCAGATATAGTCAAACGATGATGGAAAAAGTTTAACCA
* *
1123505 GATA-AAAGGAGTTTGACCAGATACAACCAAACGATGATGAAAATAGTTTAAAC-AGATATAGTC
1 GATAGAAA-GAGTTTGACCAGATACAACCAAACGATGATGAAAAGAGTTT-AACTAGATATAGCC
* *
1123568 AAACGATGAT-GAACAGAGTTTGACTAGATAGAGCCAAACGATGATGAAAAGAGTTTGACGAGAT
64 AAACGATGATGGAA-AAAGTTTGACTAGATAGAGCCAAACGATAATGAAAAGAGTTTGACGAGAT
* * * *
1123632 ACAATCAAATGATGATGGATAGAGTTTAACCAGATATAGTCAAACGATGATGGAAAAAGTTTAAC
128 ACAACCAAACGATGATGAAAAGAGTTTAACCAGATATAGTCAAACGATGATGGAAAAAGTTTAAC
1123697 CA
193 CA
1123699 GATA
1 GATA
1123703 TAGTGAAACA
Statistics
Matches: 169, Mismatches: 26, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
193 6 0.04
194 161 0.95
195 2 0.01
ACGTcount: A:0.43, C:0.11, G:0.22, T:0.24
Consensus pattern (194 bp):
GATAGAAAGAGTTTGACCAGATACAACCAAACGATGATGAAAAGAGTTTAACTAGATATAGCCAA
ACGATGATGGAAAAAGTTTGACTAGATAGAGCCAAACGATAATGAAAAGAGTTTGACGAGATACA
ACCAAACGATGATGAAAAGAGTTTAACCAGATATAGTCAAACGATGATGGAAAAAGTTTAACCA
Found at i:1123702 original size:105 final size:105
Alignment explanation
Indices: 1123508--1123751 Score: 337
Period size: 105 Copynumber: 2.3 Consensus size: 105
1123498 TTAACCAGAT
* * *
1123508 AAAAGGAGTTTGACCAGATACAACCAAACGATGATGAAAATAGTTTAAACAGATATAGTCAAACG
1 AAAA-GAGTTTGACCAGATACAATCAAATGATGATGAAAAGAGTTTAAACAGATATAGTCAAACG
* * * *
1123573 ATGATGAACAGAGTTTGACTAGATAGAGCCAAACGATGATG
65 ATGATGAACAAAGTTTAACCAGATAGAGCCAAACAATGATG
* * * *
1123614 AAAAGAGTTTGACGAGATACAATCAAATGATGATGGATAGAGTTTAACCAGATATAGTCAAACGA
1 AAAAGAGTTTGACCAGATACAATCAAATGATGATGAAAAGAGTTTAAACAGATATAGTCAAACGA
* **
1123679 TGATGGAA-AAAGTTTAACCAGATATAGTGAAACAATGATG
66 TGAT-GAACAAAGTTTAACCAGATAGAGCCAAACAATGATG
1123719 AAAAGAGTTTGACCAGATACAATCAAATGATGA
1 AAAAGAGTTTGACCAGATACAATCAAATGATGA
1123752 ATAGGTTGGC
Statistics
Matches: 122, Mismatches: 15, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
105 115 0.94
106 7 0.06
ACGTcount: A:0.45, C:0.11, G:0.21, T:0.22
Consensus pattern (105 bp):
AAAAGAGTTTGACCAGATACAATCAAATGATGATGAAAAGAGTTTAAACAGATATAGTCAAACGA
TGATGAACAAAGTTTAACCAGATAGAGCCAAACAATGATG
Found at i:1123745 original size:70 final size:70
Alignment explanation
Indices: 1123508--1123751 Score: 274
Period size: 70 Copynumber: 3.5 Consensus size: 70
1123498 TTAACCAGAT
* *
1123508 AAAAGGAGTTTGACCAGATACAACCAAACGATGATGAAAATAGTTTAAACAGATATAGTCAAACG
1 AAAA-GAGTTTGACCAGATACAACCAAACGATGATGAAAAGAGTTTAACCAGATATAGTCAAACG
1123573 ATGATG
65 ATGATG
* * * * * * * * *
1123579 AACAGAGTTTGACTAGATAGAGCCAAACGATGATGAAAAGAGTTTGACGAGATACAATCAAATGA
1 AAAAGAGTTTGACCAGATACAACCAAACGATGATGAAAAGAGTTTAACCAGATATAGTCAAACGA
1123644 TGATG
66 TGATG
* * * * ** * *
1123649 GATAGAGTTTAACCAGATATAGTCAAACGATGATGGAAAA-AGTTTAACCAGATATAGTGAAACA
1 AAAAGAGTTTGACCAGATACAACCAAACGATGAT-GAAAAGAGTTTAACCAGATATAGTCAAACG
1123713 ATGATG
65 ATGATG
* *
1123719 AAAAGAGTTTGACCAGATACAATCAAATGATGA
1 AAAAGAGTTTGACCAGATACAACCAAACGATGA
1123752 ATAGGTTGGC
Statistics
Matches: 142, Mismatches: 30, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
70 134 0.94
71 8 0.06
ACGTcount: A:0.45, C:0.11, G:0.21, T:0.22
Consensus pattern (70 bp):
AAAAGAGTTTGACCAGATACAACCAAACGATGATGAAAAGAGTTTAACCAGATATAGTCAAACGA
TGATG
Found at i:1124527 original size:20 final size:20
Alignment explanation
Indices: 1124502--1124555 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
1124492 GTTAGAATCA
*
1124502 ATGTATCGATACAAT-TCATC
1 ATGTATCGATACAATGT-ACC
1124522 ATGTATCGATACAATGTACC
1 ATGTATCGATACAATGTACC
*
1124542 ATGTATTGATACAA
1 ATGTATCGATACAA
1124556 ACAGTGGTAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 30 0.97
21 1 0.03
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACAATGTACC
Found at i:1124629 original size:19 final size:18
Alignment explanation
Indices: 1124583--1124672 Score: 100
Period size: 19 Copynumber: 5.1 Consensus size: 18
1124573 ACTGCCAGTT
1124583 TCATGTATCGATACAATTG
1 TCATGTATCGATACAA-TG
*
1124602 TCTATGTATCAATACAATG
1 TC-ATGTATCGATACAATG
1124621 ATCATGTATCGATACAATG
1 -TCATGTATCGATACAATG
1124640 T-A--T-T-GATACAATG
1 TCATGTATCGATACAATG
1124653 ATCATGTATCGATACAATG
1 -TCATGTATCGATACAATG
1124672 T
1 T
1124673 ATCGATACAA
Statistics
Matches: 61, Mismatches: 2, Indels: 17
0.76 0.03 0.21
Matches are distributed among these distances:
13 9 0.15
14 2 0.03
15 2 0.03
17 2 0.03
18 3 0.05
19 28 0.46
20 15 0.25
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (18 bp):
TCATGTATCGATACAATG
Found at i:1124642 original size:13 final size:13
Alignment explanation
Indices: 1124624--1124682 Score: 60
Period size: 13 Copynumber: 5.1 Consensus size: 13
1124614 TACAATGATC
1124624 ATGTATCGATACA
1 ATGTATCGATACA
*
1124637 ATGTATTGATAC-
1 ATGTATCGATACA
1124649 A---AT-GAT-C-
1 ATGTATCGATACA
1124656 ATGTATCGATACA
1 ATGTATCGATACA
1124669 ATGTATCGATACA
1 ATGTATCGATACA
1124682 A
1 A
1124683 AGCATAATGT
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
7 2 0.05
8 3 0.08
9 2 0.05
10 2 0.05
11 3 0.08
12 2 0.05
13 25 0.64
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1124649 original size:32 final size:32
Alignment explanation
Indices: 1124605--1124701 Score: 149
Period size: 32 Copynumber: 3.0 Consensus size: 32
1124595 ACAATTGTCT
*
1124605 ATGTATCAATACAATGATCATGTATCGATACA
1 ATGTATCGATACAATGATCATGTATCGATACA
*
1124637 ATGTATTGATACAATGATCATGTATCGATACA
1 ATGTATCGATACAATGATCATGTATCGATACA
* *
1124669 ATGTATCGATACAAAGCATAATGTATCGATACA
1 ATGTATCGATACAATG-ATCATGTATCGATACA
1124702 TCTGAGTGTG
Statistics
Matches: 59, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
32 44 0.75
33 15 0.25
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.31
Consensus pattern (32 bp):
ATGTATCGATACAATGATCATGTATCGATACA
Found at i:1125412 original size:17 final size:17
Alignment explanation
Indices: 1125390--1125442 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
1125380 TATAAACACA
1125390 AAGTCAAATTACAAGGT
1 AAGTCAAATTACAAGGT
1125407 AAGTCACAA--A-AA-G-
1 AAGTCA-AATTACAAGGT
1125420 AAGTCAAATTACAAGGT
1 AAGTCAAATTACAAGGT
1125437 AAGTCA
1 AAGTCA
1125443 CAAAAAGAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 12
0.71 0.00 0.29
Matches are distributed among these distances:
12 2 0.07
13 6 0.20
14 2 0.07
15 4 0.13
16 2 0.07
17 12 0.40
18 2 0.07
ACGTcount: A:0.51, C:0.13, G:0.17, T:0.19
Consensus pattern (17 bp):
AAGTCAAATTACAAGGT
Found at i:1125424 original size:30 final size:30
Alignment explanation
Indices: 1125390--1125451 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
1125380 TATAAACACA
1125390 AAGTCAAATTACAAGGTAAGTCACAAAAAG
1 AAGTCAAATTACAAGGTAAGTCACAAAAAG
1125420 AAGTCAAATTACAAGGTAAGTCACAAAAAG
1 AAGTCAAATTACAAGGTAAGTCACAAAAAG
1125450 AA
1 AA
1125452 TAAACAAGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.55, C:0.13, G:0.16, T:0.16
Consensus pattern (30 bp):
AAGTCAAATTACAAGGTAAGTCACAAAAAG
Found at i:1129019 original size:20 final size:20
Alignment explanation
Indices: 1128994--1129047 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
1128984 GTTAGAAGCA
* *
1128994 ATGTATCAATACAAT-TCATC
1 ATGTATCGATACAATGT-ACC
1129014 ATGTATCGATACAATGTACC
1 ATGTATCGATACAATGTACC
1129034 ATGTATCGATACAA
1 ATGTATCGATACAA
1129048 ACACTGGTAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 30 0.97
21 1 0.03
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACAATGTACC
Found at i:1129120 original size:19 final size:19
Alignment explanation
Indices: 1129075--1129148 Score: 96
Period size: 20 Copynumber: 3.8 Consensus size: 19
1129065 ACTGCCAGTT
1129075 TCATGTATCGATACAATTG-
1 TCATGTATCGATACAA-TGA
1129094 TCCATGTATCGATACAATGA
1 T-CATGTATCGATACAATGA
*
1129114 TCATGTATCGATACAAAGAA
1 TCATGTATCGATACAATG-A
*
1129134 TAATGTATCGATACA
1 TCATGTATCGATACA
1129149 TCTAGGTGTG
Statistics
Matches: 50, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
19 19 0.38
20 31 0.62
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.31
Consensus pattern (19 bp):
TCATGTATCGATACAATGA
Found at i:1137818 original size:13 final size:13
Alignment explanation
Indices: 1137797--1137827 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1137787 ACAATTCATC
*
1137797 ATGTGTCGATACA
1 ATGTATCGATACA
1137810 ATGTATCGATACA
1 ATGTATCGATACA
1137823 ATGTA
1 ATGTA
1137828 CCATGTACCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1137840 original size:33 final size:33
Alignment explanation
Indices: 1137777--1137840 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
1137767 ATTAGAAGCG
* **
1137777 ATGTATCGATACAATTCATCATGTGTCGATACA
1 ATGTATCGATACAATTCACCATGTACCGATACA
1137810 ATGTATCGATACAATGT-ACCATGTACCGATA
1 ATGTATCGATACAAT-TCACCATGTACCGATA
1137841 TAAACACTAG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 26 0.96
34 1 0.04
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (33 bp):
ATGTATCGATACAATTCACCATGTACCGATACA
Found at i:1137916 original size:19 final size:19
Alignment explanation
Indices: 1137871--1137924 Score: 83
Period size: 19 Copynumber: 2.8 Consensus size: 19
1137861 ACTGCTAGTT
1137871 TCATGTATCGATACAATTG
1 TCATGTATCGATACAATTG
1137890 TCCATGTATCGATACAA-TG
1 T-CATGTATCGATACAATTG
1137909 ATCATGTATCGATACA
1 -TCATGTATCGATACA
1137925 TTTGGGTGTG
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (19 bp):
TCATGTATCGATACAATTG
Found at i:1143398 original size:19 final size:18
Alignment explanation
Indices: 1143353--1143410 Score: 89
Period size: 19 Copynumber: 3.1 Consensus size: 18
1143343 ACTGCCAGTT
1143353 TCATGTATCGATACAATTG
1 TCATGTATCGATACAA-TG
1143372 TCCATGTATCGATACAATG
1 T-CATGTATCGATACAATG
1143391 ATCATGTATCGATACAATG
1 -TCATGTATCGATACAATG
1143410 T
1 T
1143411 ATCGGTACAA
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
18 1 0.03
19 20 0.54
20 16 0.43
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (18 bp):
TCATGTATCGATACAATG
Found at i:1143438 original size:33 final size:32
Alignment explanation
Indices: 1143375--1143439 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
1143365 ACAATTGTCC
* *
1143375 ATGTATCGATACAATGATCATGTATCGATACA
1 ATGTATCGATACAAAGATAATGTATCGATACA
* *
1143407 ATGTATCGGTACAAAGCATAATGTATTGATACA
1 ATGTATCGATACAAAG-ATAATGTATCGATACA
1143440 TCTGGGTGTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 14 0.50
33 14 0.50
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (32 bp):
ATGTATCGATACAAAGATAATGTATCGATACA
Found at i:1149676 original size:22 final size:22
Alignment explanation
Indices: 1149651--1149692 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
1149641 TTTTTTTTAC
1149651 TATTTGTACTTTTTTCATTTCA
1 TATTTGTACTTTTTTCATTTCA
* * *
1149673 TATTTTTTCTTTTTTTATTT
1 TATTTGTACTTTTTTCATTT
1149693 TTTTTCTCTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.14, C:0.10, G:0.02, T:0.74
Consensus pattern (22 bp):
TATTTGTACTTTTTTCATTTCA
Found at i:1149695 original size:17 final size:18
Alignment explanation
Indices: 1149675--1149712 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
1149665 TCATTTCATA
1149675 TTTTTTCT-TTTTTTATT
1 TTTTTTCTCTTTTTTATT
*
1149692 TTTTTTCTCTTTTTTGTT
1 TTTTTTCTCTTTTTTATT
1149710 TTT
1 TTT
1149713 CTTATTTAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.03, C:0.08, G:0.03, T:0.87
Consensus pattern (18 bp):
TTTTTTCTCTTTTTTATT
Found at i:1153665 original size:20 final size:19
Alignment explanation
Indices: 1153640--1153677 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
1153630 TTTTAACCCA
1153640 AATGTATCGATACACTTTTT
1 AATGTATCGATACA-TTTTT
1153660 AATGTATCGATACATTTT
1 AATGTATCGATACATTTT
1153678 GGTTTTTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.45
Consensus pattern (19 bp):
AATGTATCGATACATTTTT
Found at i:1153716 original size:52 final size:51
Alignment explanation
Indices: 1153552--1153725 Score: 154
Period size: 52 Copynumber: 3.4 Consensus size: 51
1153542 ACTAATAAAT
* * * ** * * * *
1153552 TTTTCATTATATCGATACATTCT-AGGTTTTGACCGAAATGTATTGATCCA
1 TTTTCAATGTATCGATACATTTTGATTTTTTAACCCAAATGTATCGATACA
* *
1153602 TTATTCATTGTATCGATAGATTTTGATTTTTTAACCCAAATGTATCGATACA
1 TT-TTCAATGTATCGATACATTTTGATTTTTTAACCCAAATGTATCGATACA
* * * * *
1153654 CTTTTTAATGTATCGATACATTTTGGTTTTTTGACTCACATGTATCGATACA
1 -TTTTCAATGTATCGATACATTTTGATTTTTTAACCCAAATGTATCGATACA
*
1153706 TTCTTCAATGT-TCGAAACAT
1 TT-TTCAATGTATCGATACAT
1153726 GCAGGCAATT
Statistics
Matches: 102, Mismatches: 18, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
50 2 0.02
51 28 0.27
52 70 0.69
53 2 0.02
ACGTcount: A:0.28, C:0.16, G:0.13, T:0.44
Consensus pattern (51 bp):
TTTTCAATGTATCGATACATTTTGATTTTTTAACCCAAATGTATCGATACA
Found at i:1156331 original size:80 final size:78
Alignment explanation
Indices: 1156129--1156347 Score: 251
Period size: 79 Copynumber: 2.8 Consensus size: 78
1156119 TTTCACTTTT
** * * *
1156129 AAAACACCAAAATTTTCATCTCCAAGGATACTCCAACCCCACCATTTT-TAAGAGGATACTTCAA
1 AAAACACC-AAATTTTCATCTTAAAGGATACTCCAACCCCACCATTTTCGAGGA-GATACTCCAA
*
1156193 CCTTGTTTTAATTCT
64 CCTTGTTTTAATTCC
** * *
1156208 AAAACATTGAAATTTTCATCTTAAAGGATACTCTAGCCCCACCATTTTCGAGGAGATACTCCAAC
1 AAAACA-CCAAATTTTCATCTTAAAGGATACTCCAACCCCACCATTTTCGAGGAGATACTCCAAC
*
1156273 CTTGTTTTTACTTCC
65 CTTG-TTTTAATTCC
* * * *
1156288 AAAACACCAAATTTTACATCTTTAGGGATACTCCAACCCCACCATCTTCGAGGGGATACT
1 AAAACACCAAATTTT-CATCTTAAAGGATACTCCAACCCCACCATTTTCGAGGAGATACT
1156348 TCTACCCTGA
Statistics
Matches: 117, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
79 62 0.53
80 55 0.47
ACGTcount: A:0.32, C:0.26, G:0.11, T:0.31
Consensus pattern (78 bp):
AAAACACCAAATTTTCATCTTAAAGGATACTCCAACCCCACCATTTTCGAGGAGATACTCCAACC
TTGTTTTAATTCC
Found at i:1165979 original size:79 final size:78
Alignment explanation
Indices: 1165768--1166131 Score: 351
Period size: 79 Copynumber: 4.6 Consensus size: 78
1165758 CATTCATGTT
* * * * * * *
1165768 TTTACTTCTAAAATATCTATTTTTCTACAATCGGGGATACTCCAACCTCGTTATTTCCAAGCGGA
1 TTTATTTCTAAAACATCAATTTTTC-ACAATCAGGGATACTCCAACCTCATTATTTTCGAG-GGA
*
1165833 TACTCCAAACCTGAC
64 TACTCCAACCCTGAC
* * * *
1165848 TTTATTTCTACAACATCAA-TTTCCACAATCAGGGATACTCCAACCCCATTATTTTCGAGAGCAT
1 TTTATTTCTAAAACATCAATTTTTCACAATCAGGGATACTCCAACCTCATTATTTTCGAG-GGAT
*
1165912 ACTCTAACCCT-AGC
65 ACTCCAACCCTGA-C
* * * *
1165926 TTTATTTCAAAAATATCAATTTTTCACAATCAGGGATACTCCAACCTTATTATTTTTGATGGGAT
1 TTTATTTCTAAAACATCAATTTTTCACAATCAGGGATACTCCAACCTCATTATTTTCGA-GGGAT
*
1165991 ACTCCAACCCCGAC
65 ACTCCAACCCTGAC
* *
1166005 TTTATTTCTAAAACATCAATTTTTCACAATC-GTGGATACTCCAA-CTCCGTTATTTTTGAGGGG
1 TTTATTTCTAAAACATCAATTTTTCACAATCAG-GGATACTCCAACCT-CATTATTTTCGA-GGG
* *
1166068 ATACTCCATGCCC-AAC
63 ATACTCCA-ACCCTGAC
** * * *
1166084 TTTATTTCTAAAACATTGATTATCCACAATTACGGGGATACTCCAACC
1 TTTATTTCTAAAACATCAATTTTTCACAA-T-CAGGGATACTCCAACC
1166132 CCAATTTTAT
Statistics
Matches: 238, Mismatches: 35, Indels: 20
0.81 0.12 0.07
Matches are distributed among these distances:
77 1 0.00
78 62 0.26
79 140 0.59
80 21 0.09
81 12 0.05
82 2 0.01
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.34
Consensus pattern (78 bp):
TTTATTTCTAAAACATCAATTTTTCACAATCAGGGATACTCCAACCTCATTATTTTCGAGGGATA
CTCCAACCCTGAC
Found at i:1166144 original size:53 final size:52
Alignment explanation
Indices: 1166063--1166183 Score: 156
Period size: 53 Copynumber: 2.3 Consensus size: 52
1166053 GTTATTTTTG
**
1166063 AGGGGATACTCCATGCCCAACTTTATTTCTAAAAC-ATTGATTATCCACAATT
1 AGGGGATACTCCAACCCCAACTTTATTTCT-AAACTATTGATTATCCACAATT
* * *
1166115 ACGGGGATACTCCAACCCCAATTTTATTTCTAAACTATTGATTTTCCACCATT
1 A-GGGGATACTCCAACCCCAACTTTATTTCTAAACTATTGATTATCCACAATT
*
1166168 A-GGGATACTCTAACCC
1 AGGGGATACTCCAACCC
1166184 TGTTATTTCT
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
51 14 0.23
52 5 0.08
53 42 0.69
ACGTcount: A:0.31, C:0.26, G:0.12, T:0.32
Consensus pattern (52 bp):
AGGGGATACTCCAACCCCAACTTTATTTCTAAACTATTGATTATCCACAATT
Found at i:1169703 original size:38 final size:38
Alignment explanation
Indices: 1169660--1169737 Score: 138
Period size: 38 Copynumber: 2.1 Consensus size: 38
1169650 ACCTGAGTGT
*
1169660 AAACCCATACAACAGAAGCTTAAAAGGATGAAGTTTGA
1 AAACCCATACAACAGAAGCTTAAAAGGATGAAGCTTGA
*
1169698 AAACCCATACAACAGAAGCTTAGAAGGATGAAGCTTGA
1 AAACCCATACAACAGAAGCTTAAAAGGATGAAGCTTGA
1169736 AA
1 AA
1169738 TGCTTTTAAG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.47, C:0.17, G:0.19, T:0.17
Consensus pattern (38 bp):
AAACCCATACAACAGAAGCTTAAAAGGATGAAGCTTGA
Found at i:1171045 original size:13 final size:13
Alignment explanation
Indices: 1171027--1171052 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1171017 ACATAAGTGT
1171027 TGTATCGATACAA
1 TGTATCGATACAA
1171040 TGTATCGATACAA
1 TGTATCGATACAA
1171053 AAGCTACCCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1179633 original size:31 final size:31
Alignment explanation
Indices: 1179461--1180131 Score: 491
Period size: 31 Copynumber: 21.8 Consensus size: 31
1179451 TCTTCAAATC
*
1179461 TCTCTTC-TCAAAGTCCATGACTCAGTGGCA
1 TCTCTTCTTCAAAGTCCACGACTCAGTGGCA
* * *
1179491 TCTTTTTTCTCAAAGTCCACAACTCAGTGGCA
1 TCTCTTCT-TCAAAGTCCACGACTCAGTGGCA
* **
1179523 TCTCTTTTCTCAAAGTCCATAACTCAGTGGCA
1 TCTCTTCT-TCAAAGTCCACGACTCAGTGGCA
*
1179555 TCTCTTC-TCAAAGTCCATGACTCAGTGGCA
1 TCTCTTCTTCAAAGTCCACGACTCAGTGGCA
* *
1179585 TCTTTTTTCTTCCAAGTCCACGACTCAGTGGCA
1 TC--TCTTCTTCAAAGTCCACGACTCAGTGGCA
* *
1179618 TCTTTTCTTAAAAGTCCACGACTCAGTGGCAA
1 TCTCTTCTTCAAAGTCCACGACTCAGTGGC-A
* *
1179650 TCTCTT-TTCAAAGTCCACAACTCTGTGGCA
1 TCTCTTCTTCAAAGTCCACGACTCAGTGGCA
* *
1179680 -CCCTT-TT--AAGTCCACAACTCCA-TGGCA
1 TCTCTTCTTCAAAGTCCACGACT-CAGTGGCA
* ** * *
1179707 CTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCA
1 -TC-TCTT-CTTCAAAGTCCACGACTCAGTGGCA
*
1179741 -C-C--CTTCTAAGTCCACGACTCAGTGGCA
1 TCTCTTCTTCAAAGTCCACGACTCAGTGGCA
* *
1179768 TCCTTTTTTTCAAAGTCCACGACTCAGTGGCAA
1 T-CTCTTCTTCAAAGTCCACGACTCAGTGGC-A
*
1179801 TCTCTTC-TCAAAGTCCACGACTTAGTGGCAA
1 TCTCTTCTTCAAAGTCCACGACTCAGTGGC-A
* *
1179832 TCTCTTC-CCAAAGTCCATGACTCAGTGGCA
1 TCTCTTCTTCAAAGTCCACGACTCAGTGGCA
*
1179862 TCTTTTCTTCAAAGTCCACGACTCAGTGGCAA
1 TCTCTTCTTCAAAGTCCACGACTCAGTGGC-A
*
1179894 TCTCTT-TTCAAAGTCCACAACTCTA-TGGCA
1 TCTCTTCTTCAAAGTCCACGACTC-AGTGGCA
* *
1179924 -CCCTT-TT--AAGTCCACAACTCCA-TGGCA
1 TCTCTTCTTCAAAGTCCACGACT-CAGTGGCA
* * * * *
1179951 CCTTTTTCTTTTTAAAGCCCACAACTCCA-TGGCA
1 TC-TCTTC--TTCAAAGTCCACGACT-CAGTGGCA
* ** *
1179985 CTCTTTTTCCTTTTAAGTCCACAACTTC-GTGGC-
1 -TC-TCTT-CTTCAAAGTCCACGAC-TCAGTGGCA
* *
1180018 GC-C--CTTCTAAGTCCACGACTCAGTGGCA
1 TCTCTTCTTCAAAGTCCACGACTCAGTGGCA
* * *
1180046 TCCTTTTCTTCAAAGTCCATGACTTAGTGGCAA
1 T-CTCTTCTTCAAAGTCCACGACTCAGTGGC-A
*
1180079 TCTCTTC-TCAAAGTCCATGACTCAGTGGCA
1 TCTCTTCTTCAAAGTCCACGACTCAGTGGCA
*
1180109 TCTCTTC-TCAATGTCCACGACTC
1 TCTCTTCTTCAAAGTCCACGACTC
1180132 TATGGTACCT
Statistics
Matches: 538, Mismatches: 60, Indels: 86
0.79 0.09 0.13
Matches are distributed among these distances:
26 2 0.00
27 76 0.14
28 3 0.01
29 17 0.03
30 62 0.12
31 156 0.29
32 132 0.25
33 28 0.05
34 54 0.10
35 7 0.01
36 1 0.00
ACGTcount: A:0.23, C:0.31, G:0.14, T:0.32
Consensus pattern (31 bp):
TCTCTTCTTCAAAGTCCACGACTCAGTGGCA
Found at i:1179693 original size:27 final size:27
Alignment explanation
Indices: 1179660--1179774 Score: 113
Period size: 27 Copynumber: 4.0 Consensus size: 27
1179650 TCTCTTTTCA
*
1179660 AAGTCCACAACTCTGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
*
1179687 AAGTCCACAACTCCATGGCACTCTTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCA--C-----CCTTTT
*
1179721 AAGTCCACAACTCCGTGGCACCCTTCT
1 AAGTCCACAACTCCGTGGCACCCTTTT
* * *
1179748 AAGTCCACGACTCAGTGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
1179775 TTTCAAAGTC
Statistics
Matches: 73, Mismatches: 8, Indels: 14
0.77 0.08 0.15
Matches are distributed among these distances:
27 46 0.63
29 1 0.01
32 1 0.01
34 25 0.34
ACGTcount: A:0.22, C:0.34, G:0.14, T:0.30
Consensus pattern (27 bp):
AAGTCCACAACTCCGTGGCACCCTTTT
Found at i:1179733 original size:61 final size:62
Alignment explanation
Indices: 1179503--1180374 Score: 236
Period size: 61 Copynumber: 14.0 Consensus size: 62
1179493 TTTTTTCTCA
** * *
1179503 AAGTCCACAACT-CAGTGGCA-TCTCTTTT-C-TCAAAGTCCATAACTCAGTGGCATCTCTTCTC
1 AAGTCCACAACTCCA-TGGCACTCT-TTTTCCTTTTAAGTCCACAACTCAGTGGCATCCCTT-T-
*
1179564 A
62 T
** * ** * **
1179565 AAGTCCATGACT-CAGTGGCA-TCTTTTTTCTTCCAAGTCCACGACTCAGTGGCATCTTTTCTT
1 AAGTCCACAACTCCA-TGGCACTCTTTTTCCTTTTAAGTCCACAACTCAGTGGCATCCCTT-TT
* * * *
1179627 AAAAGTCCACGACT-CAGTGGCAATCTCTTTT-C---AAAGTCCACAACTCTGTGGCA-CCCTTT
1 --AAGTCCACAACTCCA-TGGCACTCT-TTTTCCTTTTAAGTCCACAACTCAGTGGCATCCCTTT
1179686 T
62 T
* *
1179687 AAGTCCACAACTCCATGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTCT
1 AAGTCCACAACTCCATGGCACTCTTTTTCCTTTTAAGTCCACAACTCAGTGGCATCCCTTTT
* ** * *
1179748 AAGTCCACGACT-CAGTGGCA-TCCTTTTT--TTCAAAGTCCACGACTCAGTGGCAATCTCTTCT
1 AAGTCCACAACTCCA-TGGCACT-CTTTTTCCTTTTAAGTCCACAACTCAGTGGC-ATCCCTT-T
*
1179809 CA
62 -T
* * * * ** ** **
1179811 AAGTCCACGACT-TAGTGGCAATC-TCTTCC--CAAAGTCCATGACTCAGTGGCATCTTTTCTT
1 AAGTCCACAACTCCA-TGGCACTCTTTTTCCTTTTAAGTCCACAACTCAGTGGCATCCCTT-TT
* * *
1179871 CAAAGTCCACGACT-CAGTGGCAATCTCTTTT-C---AAAGTCCACAACTCTA-TGGCA-CCCTT
1 --AAGTCCACAACTCCA-TGGCACTCT-TTTTCCTTTTAAGTCCACAACTC-AGTGGCATCCCTT
1179929 TT
61 TT
* *
1179931 AAGTCCACAACTCCATGGCAC-CTTTTTCTTTTTAAAGCCCACAACTCCA-TGGCACTCTTTTTC
1 AAGTCCACAACTCCATGGCACTCTTTTTCCTTTT-AAGTCCACAACT-CAGTGGCA-TC-----C
1179994 CTTTT
58 CTTTT
* * * * * *
1179999 AAGTCCACAACTTCGTGG--CGC-----CCTTCTAAGTCCACGACTCAGTGGCATCCTTTTCTT
1 AAGTCCACAACTCCATGGCACTCTTTTTCCTTTTAAGTCCACAACTCAGTGGCATCC-CTT-TT
** * * * ** ** *
1180056 CAAAGTCCATGACT-TAGTGGCAATC-TCTT-C-TCAAAGTCCATGACTCAGTGGCATCTCTTCT
1 --AAGTCCACAACTCCA-TGGCACTCTTTTTCCTTTTAAGTCCACAACTCAGTGGCATCCCTT-T
*
1180117 C
62 T
* * * *
1180118 AATGTCCACGACTCTATGGTAC-C-TTTTCCTTTTCAAAGTCCACAACTCTGTGGCA-CCCTTTT
1 AA-GTCCACAACTCCATGGCACTCTTTTTCCTTTT--AAGTCCACAACTCAGTGGCATCCCTTTT
* ** * * *
1180180 AAGTCCACAACTCCGTGGCAC-CTTTTTGTTTTTAAAGCCCATAACTCTGTGGCACTCTTTTTCC
1 AAGTCCACAACTCCATGGCACTCTTTTTCCTTTT-AAGTCCACAACTCAGTGGCA-TC-----CC
1180244 TTTT
59 TTTT
* * * * *
1180248 AAGTCCACAACTCCGTGGCAC-CTTGTTCCTTTTAAATCCACAACTCCGTGGCATCTTTTCTTTT
1 AAGTCCACAACTCCATGGCACTCTTTTTCCTTTTAAGTCCACAACTCAGTGGCATC----CCTTT
1180312 T
62 T
** ** * * * *
1180313 AAGTCCATGACTCTGTGGCACCCTTTTCCCTTTTAAGCCCACACCTCCA-TGGCATCCCTTTT
1 AAGTCCACAACTCCATGGCACTCTTTTTCCTTTTAAGTCCACAACT-CAGTGGCATCCCTTTT
1180375 TCCTGTAAGT
Statistics
Matches: 645, Mismatches: 97, Indels: 136
0.73 0.11 0.15
Matches are distributed among these distances:
55 1 0.00
56 6 0.01
57 8 0.01
58 36 0.06
59 36 0.06
60 18 0.03
61 151 0.23
62 130 0.20
63 78 0.12
64 41 0.06
65 31 0.05
66 33 0.05
67 18 0.03
68 58 0.09
ACGTcount: A:0.22, C:0.31, G:0.14, T:0.33
Consensus pattern (62 bp):
AAGTCCACAACTCCATGGCACTCTTTTTCCTTTTAAGTCCACAACTCAGTGGCATCCCTTTT
Found at i:1179817 original size:182 final size:183
Alignment explanation
Indices: 1179503--1179960 Score: 519
Period size: 183 Copynumber: 2.5 Consensus size: 183
1179493 TTTTTTCTCA
* *
1179503 AAGTCCACAACTCAGTGGCATCTCTTTTCTCAAAGTCCATAACTCAGTGGCATCTCTTCTCAAAG
1 AAGTCCACAACTCAGTGGCATCTCTTTTCTCAAAGTCCACAACTCAGTGGCATCCCTTCT-AAAG
* * * *
1179568 TCCATGACTCAGTGGCATCTTTTTTCTTCCAAGTCCACGACTCAGTGGCATCTTTTCTTAAAAGT
65 TCCACGACTCAGTGGCATCCTTTTTCTTCAAAGTCCACGACTCAGTGGCATCTCTTCTTAAAAGT
**
1179633 CCACGACTCAGTGGCAATCTCTTTTCAAAGTCCACAACTCTGTGGCACCCTTTT
130 CCACGACTCAGTGGCAATCTCTTCCCAAAGTCCACAACTCTGTGGCACCCTTTT
** *
1179687 AAGTCCACAACTCCA-TGGCA-CTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTCT-
1 AAGTCCACAACT-CAGTGGCATCTC-TTTT-C-TCAAAGTCCACAACTCAGTGGCATCCCTTCTA
*
1179748 AAGTCCACGACTCAGTGGCATCCTTTTT-TTCAAAGTCCACGACTCAGTGGCAATCTCTTC-TCA
62 AAGTCCACGACTCAGTGGCATCCTTTTTCTTCAAAGTCCACGACTCAGTGGC-ATCTCTTCTTAA
* ** * **
1179811 AAGTCCACGACTTAGTGGCAATCTCTTCCCAAAGTCCATGACTCAGTGGCATCTTTTCTT
126 AAGTCCACGACTCAGTGGCAATCTCTTCCCAAAGTCCACAACTCTGTGGCA-CCCTT-TT
* *
1179871 CAAAGTCCACGACTCAGTGGCAATCTC-TTT-TCAAAGTCCACAACTCTA-TGGCA-CCCTT-TT
1 --AAGTCCACAACTCAGTGGC-ATCTCTTTTCTCAAAGTCCACAACTC-AGTGGCATCCCTTCTA
*
1179931 AAGTCCACAACTCCA-TGGCA-CCTTTTTCTT
62 AAGTCCACGACT-CAGTGGCATCCTTTTTCTT
1179961 TTTAAAGCCC
Statistics
Matches: 235, Mismatches: 23, Indels: 33
0.81 0.08 0.11
Matches are distributed among these distances:
182 77 0.33
183 81 0.34
184 25 0.11
185 11 0.05
186 37 0.16
187 1 0.00
188 3 0.01
ACGTcount: A:0.24, C:0.31, G:0.14, T:0.31
Consensus pattern (183 bp):
AAGTCCACAACTCAGTGGCATCTCTTTTCTCAAAGTCCACAACTCAGTGGCATCCCTTCTAAAGT
CCACGACTCAGTGGCATCCTTTTTCTTCAAAGTCCACGACTCAGTGGCATCTCTTCTTAAAAGTC
CACGACTCAGTGGCAATCTCTTCCCAAAGTCCACAACTCTGTGGCACCCTTTT
Found at i:1179937 original size:27 final size:27
Alignment explanation
Indices: 1179904--1179957 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
1179894 TCTCTTTTCA
*
1179904 AAGTCCACAACTCTATGGCACCCTTTT
1 AAGTCCACAACTCCATGGCACCCTTTT
*
1179931 AAGTCCACAACTCCATGGCACCTTTTT
1 AAGTCCACAACTCCATGGCACCCTTTT
1179958 CTTTTTAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.26, C:0.33, G:0.11, T:0.30
Consensus pattern (27 bp):
AAGTCCACAACTCCATGGCACCCTTTT
Found at i:1179974 original size:34 final size:34
Alignment explanation
Indices: 1179925--1180010 Score: 138
Period size: 34 Copynumber: 2.5 Consensus size: 34
1179915 TCTATGGCAC
1179925 CCTTTTAAGTCCACAACTCCATGGCAC-CTTTTT
1 CCTTTTAAGTCCACAACTCCATGGCACTCTTTTT
* *
1179958 CTTTTTAAAGCCCACAACTCCATGGCACTCTTTTT
1 CCTTTT-AAGTCCACAACTCCATGGCACTCTTTTT
1179993 CCTTTTAAGTCCACAACT
1 CCTTTTAAGTCCACAACT
1180011 TCGTGGCGCC
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
33 5 0.11
34 31 0.66
35 11 0.23
ACGTcount: A:0.23, C:0.33, G:0.08, T:0.36
Consensus pattern (34 bp):
CCTTTTAAGTCCACAACTCCATGGCACTCTTTTT
Found at i:1180031 original size:278 final size:273
Alignment explanation
Indices: 1179471--1180300 Score: 1018
Period size: 278 Copynumber: 3.0 Consensus size: 273
1179461 TCTCTTCTCA
* *
1179471 AAGTCCATGACTCAGTGGCAT-CTTTTTTCTCAAAGTCCACAACTCAGTGGC-ATCTCTTTTCTC
1 AAGTCCACGACTCAGTGGCATCCTTTTTT-TCAAAGTCCACGACTCAGTGGCAATCTC--TTCTC
* *
1179534 AAAGTCCATAACTCAGTGGCATCTCTTCTCAAAGTCCATGACTCAGTGGCATCTTTTTTCTTCCA
63 AAAGTCCATGACTCAGTGGCATCTCTTCTCAAAGTCCATGACTCAGTGGCATC--TTTTCTTCAA
* * *
1179599 AGTCCACGACTCAGTGGCATCTTTTCTTAAAAGTCCACGACTCAGTGGCAATCTCTTTTCAAAGT
126 AGTCCACGACTCAGTGGCATCTCTT-TT-AAAGTCCACAACTCA-TGGC-A-CCCTTTT-AAAGT
1179664 CCACAACTCTGTGGCACC-----CTTTTAAGTCCACAACTCCATGGCACTCTTTTTCCTTTTAAG
185 CCACAACTCTGTGGCACCTTTTTCTTTTAAGTCCACAACTCCATGGCACTCTTTTTCCTTTTAAG
1179724 TCCACAACTCCGTGGCACCCTTCT
250 TCCACAACTCCGTGGCACCCTTCT
1179748 AAGTCCACGACTCAGTGGCATCCTTTTTTTCAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAA
1 AAGTCCACGACTCAGTGGCATCCTTTTTTTCAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAA
* * *
1179813 GTCCACGACTTAGTGGCAATCTCTTCCCAAAGTCCATGACTCAGTGGCATCTTTTCTTCAAAGTC
66 GTCCATGACTCAGTGGC-ATCTCTTCTCAAAGTCCATGACTCAGTGGCATCTTTTCTTCAAAGTC
1179878 CACGACTCAGTGGCAATCTCTTTTCAAAGTCCACAACTCTATGGCACCCTTTT-AAGTCCACAAC
130 CACGACTCAGTGGC-ATCTCTTTT-AAAGTCCACAACTC-ATGGCACCCTTTTAAAGTCCACAAC
** *
1179942 TCCATGGCACCTTTTTCTTTTTAAAGCCCACAACTCCATGGCACTCTTTTTCCTTTTAAGTCCAC
192 TCTGTGGCACCTTTTTC-TTTT-AAGTCCACAACTCCATGGCACTCTTTTTCCTTTTAAGTCCAC
* *
1180007 AACTTCGTGGCGCCCTTCT
255 AACTCCGTGGCACCCTTCT
* * *
1180026 AAGTCCACGACTCAGTGGCATCCTTTTCTTCAAAGTCCATGACTTAGTGGCAATCTCTTCTCAAA
1 AAGTCCACGACTCAGTGGCATCCTTTTTTTCAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAA
* * * *
1180091 GTCCATGACTCAGTGGCATCTCTTCTCAATGTCCACGACTCTA-TGGTACCTTTTCCTTTTCAAA
66 GTCCATGACTCAGTGGCATCTCTTCTCAAAGTCCATGACTC-AGTGGCATCTTTT-C--TTCAAA
* * * * * *
1180155 GTCCACAACTCTGTGGCA-CCCTTTT-AAGTCCACAACTCCGTGGCACCTTTTTGTTTTTAAAGC
127 GTCCACGACTCAGTGGCATCTCTTTTAAAGTCCACAACT-CATGGCACC------CTTTTAAAGT
* * *
1180218 CCATAACTCTGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCAC-CTTGTTCCTTTTA
185 CCACAACTCTGTGGCAC-CTTTTT-CTTTTAAGTCCACAACTCCATGGCACTCTTTTTCCTTTTA
*
1180282 AATCCACAACTCCGTGGCA
248 AGTCCACAACTCCGTGGCA
1180301 TCTTTTCTTT
Statistics
Matches: 486, Mismatches: 41, Indels: 47
0.85 0.07 0.08
Matches are distributed among these distances:
271 20 0.04
273 6 0.01
274 1 0.00
275 46 0.09
276 49 0.10
277 108 0.22
278 155 0.32
279 1 0.00
280 21 0.04
282 32 0.07
283 36 0.07
284 10 0.02
285 1 0.00
ACGTcount: A:0.23, C:0.31, G:0.14, T:0.32
Consensus pattern (273 bp):
AAGTCCACGACTCAGTGGCATCCTTTTTTTCAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAA
GTCCATGACTCAGTGGCATCTCTTCTCAAAGTCCATGACTCAGTGGCATCTTTTCTTCAAAGTCC
ACGACTCAGTGGCATCTCTTTTAAAGTCCACAACTCATGGCACCCTTTTAAAGTCCACAACTCTG
TGGCACCTTTTTCTTTTAAGTCCACAACTCCATGGCACTCTTTTTCCTTTTAAGTCCACAACTCC
GTGGCACCCTTCT
Found at i:1180050 original size:27 final size:28
Alignment explanation
Indices: 1180020--1180131 Score: 109
Period size: 30 Copynumber: 3.7 Consensus size: 28
1180010 TTCGTGGCGC
1180020 CCTTCT-AAGTCCACGACTCAGTGGCAT
1 CCTTCTCAAGTCCACGACTCAGTGGCAT
* *
1180047 CCTTTTCTTCAAAGTCCATGACTTAGTGGCAAT
1 CC--TTC-TC-AAGTCCACGACTCAGTGGC-AT
*
1180080 CTCTTCTCAAAGTCCATGACTCAGTGGCAT
1 C-CTTCTC-AAGTCCACGACTCAGTGGCAT
1180110 CTCTTCTCAATGTCCACGACTC
1 C-CTTCTCAA-GTCCACGACTC
1180132 TATGGTACCT
Statistics
Matches: 73, Mismatches: 4, Indels: 13
0.81 0.04 0.14
Matches are distributed among these distances:
27 2 0.03
29 5 0.07
30 21 0.29
31 21 0.29
32 20 0.27
33 3 0.04
34 1 0.01
ACGTcount: A:0.22, C:0.31, G:0.15, T:0.31
Consensus pattern (28 bp):
CCTTCTCAAGTCCACGACTCAGTGGCAT
Found at i:1180185 original size:27 final size:27
Alignment explanation
Indices: 1180153--1180206 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
1180143 TTCCTTTTCA
*
1180153 AAGTCCACAACTCTGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
*
1180180 AAGTCCACAACTCCGTGGCACCTTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
1180207 GTTTTTAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.22, C:0.33, G:0.15, T:0.30
Consensus pattern (27 bp):
AAGTCCACAACTCCGTGGCACCCTTTT
Found at i:1180232 original size:34 final size:33
Alignment explanation
Indices: 1180174--1180405 Score: 243
Period size: 34 Copynumber: 6.9 Consensus size: 33
1180164 TCTGTGGCAC
1180174 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTT
** * * *
1180207 GTTTTTAAAGCCCATAACTCTGTGGCACTCTTTTT
1 CCTTTT-AAGTCCACAACTCCGTGGCAC-CTTTTT
*
1180242 CCTTTTAAGTCCACAACTCCGTGGCACCTTGTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTT
* *
1180275 CCTTTTAAATCCACAACTCCGTGGCATC-TTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTT
* ** * *
1180307 CTTTTTAAGTCCATGACTCTGTGGCACCCTTTTC
1 CCTTTTAAGTCCACAACTCCGTGGCA-CCTTTTT
* * *
1180341 CCTTTTAAGCCCACACCTCCATGGCATCCCTTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCA--CCTTTTT
* *
1180376 CC-TGTAAGTCCACAACTCTGTGGCACCTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTT
1180406 AAGTCCGATA
Statistics
Matches: 160, Mismatches: 34, Indels: 11
0.78 0.17 0.05
Matches are distributed among these distances:
32 29 0.18
33 36 0.22
34 76 0.47
35 19 0.12
ACGTcount: A:0.19, C:0.32, G:0.13, T:0.37
Consensus pattern (33 bp):
CCTTTTAAGTCCACAACTCCGTGGCACCTTTTT
Found at i:1180490 original size:49 final size:48
Alignment explanation
Indices: 1180418--1181096 Score: 378
Period size: 49 Copynumber: 14.4 Consensus size: 48
1180408 GTCCGATATT
* *
1180418 GCTGGCCTTGAATCAGCATATTGGCACCCTTGTCTCTAAGACTAATGTC
1 GCTGGCCTTGAATCAGCATATTGGCA-CCTTATCTCTAAGACCAATGTC
* * *
1180467 GCTGGCCTTGAATCAGCACATTGG---C--A---C-AAGCCCAATATC
1 GCTGGCCTTGAATCAGCATATTGGCACCTTATCTCTAAGACCAATGTC
* * * * * *
1180506 GTTGGCCTTGAATCAGCATATTGGCACCTTTACCATCTTGAGTCTAATATC
1 GCTGGCCTTGAATCAGCATATTGGCACC-TTATC-TC-TAAGACCAATGTC
* *
1180557 GTTGGCCTTGAATCAGCATATTGGCACCTTGTC-CTTAAGACCAATGTC
1 GCTGGCCTTGAATCAGCATATTGGCACCTTATCTC-TAAGACCAATGTC
* * * *
1180605 ACTGGCCTTGAATCAGCACATTGG---C--A---C-AAGCCCAATATC
1 GCTGGCCTTGAATCAGCATATTGGCACCTTATCTCTAAGACCAATGTC
* * *
1180644 GTTGGCCTTGAATCAGCATATTCGCACCTTATCTCCAAGACCAATGTC
1 GCTGGCCTTGAATCAGCATATTGGCACCTTATCTCTAAGACCAATGTC
* *
1180692 GCTGGCCTTGAATCAGCACATTAGG---C--A---C-AAG-CCTAATATC
1 GCTGGCCTTGAATCAGCATATT-GGCACCTTATCTCTAAGACC-AATGTC
* * *
1180732 GCTGGCCTTGAATCAACATATTGGCACCTTCATCTTTAAGACCGATGTC
1 GCTGGCCTTGAATCAGCATATTGGCACCTT-ATCTCTAAGACCAATGTC
* * * * * *
1180781 GTTAGCCTTGAATCAGCACATTAGCACCTTAACCATCTTTAAGTCCAATGTC
1 GCTGGCCTTGAATCAGCATATTGGCACCTT----ATCTCTAAGACCAATGTC
* * * * * * *
1180833 G-TCGGCTTTGAATCAGCACATTGGCATCCTCATCTTTAAGTCCGATATC
1 GCT-GGCCTTGAATCAGCATATTGGCA-CCTTATCTCTAAGACCAATGTC
* * * *
1180882 GTTGGCCTTCAATTAGCATATTGGCACCTTTATCTTTAAGACCAATGTC
1 GCTGGCCTTGAATCAGCATATTGGCACC-TTATCTCTAAGACCAATGTC
** * * * * *
1180931 ATTGGCCTTGAATCAACATATTGGCATCTTTATCTTTAAGTCCAATATC
1 GCTGGCCTTGAATCAGCATATTGGCA-CCTTATCTCTAAGACCAATGTC
** * * * *
1180980 ATTGGCCTTGAATCAACATATTGGCATCTTTAACATTCCTAAGCCCAATGTC
1 GCTGGCCTTGAATCAGCATATTGGCA-CCTTATC--T-CTAAGACCAATGTC
** * * * * *
1181032 GCTGGCCTTGTCTCAGCACATTGGCATTCTTCT-TC-AAGTCTAATGTC
1 GCTGGCCTTGAATCAGCATATTGGCA-CCTTATCTCTAAGACCAATGTC
*
1181079 GCTGGCCATGAATCAGCA
1 GCTGGCCTTGAATCAGCA
1181097 CATTATCATT
Statistics
Matches: 501, Mismatches: 84, Indels: 92
0.74 0.12 0.14
Matches are distributed among these distances:
39 65 0.13
40 29 0.06
41 2 0.00
42 3 0.01
44 2 0.00
45 4 0.01
46 1 0.00
47 26 0.05
48 65 0.13
49 183 0.37
50 7 0.01
51 39 0.08
52 72 0.14
53 3 0.01
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (48 bp):
GCTGGCCTTGAATCAGCATATTGGCACCTTATCTCTAAGACCAATGTC
Found at i:1180580 original size:90 final size:88
Alignment explanation
Indices: 1180420--1180583 Score: 238
Period size: 90 Copynumber: 1.8 Consensus size: 88
1180410 CCGATATTGC
** *
1180420 TGGCCTTGAATCAGCATATTGGCACCCTTGTCTCTAAGACTAATGTCGCTGGCCTTGAATCAGCA
1 TGGCCTTGAATCAGCATATTGGCACCCTTACCTCTAAGACTAATATCGCTGGCCTTGAATCAGCA
1180485 CATTGGCACAAGCCCAATATCGT
66 CATTGGCACAAGCCCAATATCGT
* * * *
1180508 TGGCCTTGAATCAGCATATTGGCACCTTTACCATCTTGAGTCTAATATCGTTGGCCTTGAATCAG
1 TGGCCTTGAATCAGCATATTGGCACCCTTACC-TC-TAAGACTAATATCGCTGGCCTTGAATCAG
*
1180573 CATATTGGCAC
64 CACATTGGCAC
1180584 CTTGTCCTTA
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
88 29 0.44
89 2 0.03
90 35 0.53
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (88 bp):
TGGCCTTGAATCAGCATATTGGCACCCTTACCTCTAAGACTAATATCGCTGGCCTTGAATCAGCA
CATTGGCACAAGCCCAATATCGT
Found at i:1180661 original size:87 final size:87
Alignment explanation
Indices: 1180551--1180807 Score: 372
Period size: 87 Copynumber: 2.9 Consensus size: 87
1180541 TCTTGAGTCT
* *
1180551 AATATCGTTGGCCTTGAATCAGCATATTGGCACCTTGTCCTTAAGACCAATGTCACTGGCCTTGA
1 AATATCGTTGGCCTTGAATCAGCATATTGGCACCTTATCCTTAAGACCAATGTCGCTGGCCTTGA
1180616 ATCAGCACATTGGCACAAGCCC
66 ATCAGCACATTGGCACAAGCCC
* *
1180638 AATATCGTTGGCCTTGAATCAGCATATTCGCACCTTAT-CTCCAAGACCAATGTCGCTGGCCTTG
1 AATATCGTTGGCCTTGAATCAGCATATTGGCACCTTATCCT-TAAGACCAATGTCGCTGGCCTTG
*
1180702 AATCAGCACATTAGGCACAAGCCT
65 AATCAGCACATT-GGCACAAGCCC
* * * * * *
1180726 AATATCGCTGGCCTTGAATCAACATATTGGCACCTTCATCTTTAAGACCGATGTCGTTAGCCTTG
1 AATATCGTTGGCCTTGAATCAGCATATTGGCACCTT-ATCCTTAAGACCAATGTCGCTGGCCTTG
*
1180791 AATCAGCACATTAGCAC
65 AATCAGCACATTGGCAC
1180808 CTTAACCATC
Statistics
Matches: 152, Mismatches: 14, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
86 2 0.01
87 69 0.45
88 47 0.31
89 33 0.22
90 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.27
Consensus pattern (87 bp):
AATATCGTTGGCCTTGAATCAGCATATTGGCACCTTATCCTTAAGACCAATGTCGCTGGCCTTGA
ATCAGCACATTGGCACAAGCCC
Found at i:1180671 original size:138 final size:139
Alignment explanation
Indices: 1180420--1180673 Score: 458
Period size: 138 Copynumber: 1.8 Consensus size: 139
1180410 CCGATATTGC
* *
1180420 TGGCCTTGAATCAGCATATTGGCACCCTTGTCTCTAAGACTAATGTCGCTGGCCTTGAATCAGCA
1 TGGCCTTGAATCAGCATATTGGCACCCTTGTCTCTAAGACCAATGTCACTGGCCTTGAATCAGCA
*
1180485 CATTGGCACAAGCCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTTACCATCTTGAGTC
66 CATTGGCACAAGCCCAATATCGTTGGCCTTGAATCAGCATATTCGCACCTTTACCATCTTGAGTC
1180550 TAATATCGT
131 TAATATCGT
1180559 TGGCCTTGAATCAGCATATTGGCA-CCTTGTC-CTTAAGACCAATGTCACTGGCCTTGAATCAGC
1 TGGCCTTGAATCAGCATATTGGCACCCTTGTCTC-TAAGACCAATGTCACTGGCCTTGAATCAGC
1180622 ACATTGGCACAAGCCCAATATCGTTGGCCTTGAATCAGCATATTCGCACCTT
65 ACATTGGCACAAGCCCAATATCGTTGGCCTTGAATCAGCATATTCGCACCTT
1180674 ATCTCCAAGA
Statistics
Matches: 111, Mismatches: 3, Indels: 3
0.95 0.03 0.03
Matches are distributed among these distances:
137 1 0.01
138 86 0.77
139 24 0.22
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (139 bp):
TGGCCTTGAATCAGCATATTGGCACCCTTGTCTCTAAGACCAATGTCACTGGCCTTGAATCAGCA
CATTGGCACAAGCCCAATATCGTTGGCCTTGAATCAGCATATTCGCACCTTTACCATCTTGAGTC
TAATATCGT
Found at i:1181055 original size:150 final size:148
Alignment explanation
Indices: 1180720--1181057 Score: 363
Period size: 150 Copynumber: 2.3 Consensus size: 148
1180710 CATTAGGCAC
* * * *
1180720 AAGCCTAATATCGCTGGCCTTGAATCAACATATTGGCACCTTCATCTTTAAGACCGATGTCGTTA
1 AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGTCATTA
* * * * *
1180785 GCCTTGAATCAGCACATTAGCACCTTAACCATCTTTAAGTCCAATGTCGTCGGCTTTGAATCAGC
66 GCCTTGAATCAACACATTAGCACCTT-A-CATCTTTAAGTCCAATATCATCGGCCTTGAATCAAC
*
1180850 ACATTGGCATCCTCATCTTT
129 ACATTGGCATCCTCAACTTT
* * * * * * *
1180870 AAGTCCGATATCGTTGGCCTTCAATTAGCATATTGGCACCTTTATCTTTAAGACCAATGTCATTG
1 AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGTCATTA
* * * * * *
1180935 GCCTTGAATCAACATATTGGCATCTT-TATCTTTAAGTCCAATATCATTGGCCTTGAATCAACAT
66 GCCTTGAATCAACACATTAGCACCTTACATCTTTAAGTCCAATATCATCGGCCTTGAATCAACAC
* *
1180999 ATTGGCATCTTTAACATTCCT
131 ATTGGCATCCTCAAC-TT--T
* ** *
1181020 AAGCCCAATGTCGCTGGCCTTGTCTCAGCACATTGGCA
1 AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
1181058 TTCTTCTTCA
Statistics
Matches: 151, Mismatches: 34, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
147 43 0.28
148 2 0.01
150 106 0.70
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.33
Consensus pattern (148 bp):
AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGTCATTA
GCCTTGAATCAACACATTAGCACCTTACATCTTTAAGTCCAATATCATCGGCCTTGAATCAACAC
ATTGGCATCCTCAACTTT
Found at i:1182825 original size:79 final size:78
Alignment explanation
Indices: 1182678--1183084 Score: 447
Period size: 79 Copynumber: 5.2 Consensus size: 78
1182668 CATTCATGTT
* * * * * ***
1182678 TTTACTTCTAAAATATCTATTTTTCTACAATTGGGGATACTCCAACCTCGTTATTTCCAAGGAGA
1 TTTATTTCTAAAACATCAATTTTTC-ACAATCGGGGATACTCCAACCCCGTTATTTTTGAGG-GA
* *
1182743 TACTCCAACCCCAAA
64 TACTCCAACCCCGAC
*
1182758 TTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTCCAACCCCATTATTTTTGAGGGCAT
1 TTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTTGAGGG-AT
* *
1182823 ACTCCAACCCTGGC
65 ACTCCAACCCCGAC
* * ****
1182837 TTTATTTCAAAAACATCAATTTTCCACAATCGGGGATACTCCAACTTTATTATTTTTGAGGGGAT
1 TTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTTGA-GGGAT
* * *
1182902 ACTCTAACCCAGGC
65 ACTCCAACCCCGAC
* * * * *
1182916 TTTATTTCTAAAACATCAATTTTTCACAATTGTGGATACTCCAACTCTGTTATTTTTAAAGGGAT
1 TTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTT-GAGGGAT
*
1182981 ACTCCAACCCTGAC
65 ACTCCAACCCCGAC
* * * *
1182995 TTTATTTCT-AAACATCGATTATCCACAATCGGGGATCCTCCAACCCCGTTATTTTTGAAGGGAT
1 TTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTTG-AGGGAT
* *
1183059 AGTCCAACCCCGAT
65 ACTCCAACCCCGAC
1183073 TTTATTTCTAAA
1 TTTATTTCTAAA
1183085 CTATTGATTT
Statistics
Matches: 280, Mismatches: 42, Indels: 11
0.84 0.13 0.03
Matches are distributed among these distances:
78 66 0.24
79 188 0.67
80 26 0.09
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.35
Consensus pattern (78 bp):
TTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTTGAGGGATA
CTCCAACCCCGAC
Found at i:1183110 original size:157 final size:158
Alignment explanation
Indices: 1182704--1183140 Score: 506
Period size: 158 Copynumber: 2.8 Consensus size: 158
1182694 CTATTTTTCT
* ** *
1182704 ACAATTGGGGATACTCCAACCTCGTTA-TTTCCAAGGAGATACTCCAACCCCAAATTTATTTCTA
1 ACAATCGGGGATACTCCAACCTCGTTATTTTTGAAGG-GATACTCCAACCCCGAATTTATTTCTA
* * ** *
1182768 AAACATCAATTTTTCACAATCGGGGATACTCCAACCCCATTATTTTT-GAGGGCATACTCCAACC
65 AAACATCAATTTTTCACAATTGAGGATACTCCAACCCTGTTATTTTTAAAGGG-ATACTCCAACC
* *
1182832 CTGGCTTTATTTCAAAAACATCAATTTTCC
129 CTGACTTTATTTCAAAAACATCAATTATCC
* ** * * * **
1182862 ACAATCGGGGATACTCCAACTTTATTATTTTTGAGGGGATACTCTAACCCAGGCTTTATTTCTAA
1 ACAATCGGGGATACTCCAACCTCGTTATTTTTGAAGGGATACTCCAACCCCGAATTTATTTCTAA
* *
1182927 AACATCAATTTTTCACAATTGTGGATACTCCAACTCTGTTATTTTTAAAGGGATACTCCAACCCT
66 AACATCAATTTTTCACAATTGAGGATACTCCAACCCTGTTATTTTTAAAGGGATACTCCAACCCT
* *
1182992 GACTTTATTTC-TAAACATCGATTATCC
131 GACTTTATTTCAAAAACATCAATTATCC
* * * *
1183019 ACAATCGGGGATCCTCCAACCCCGTTATTTTTGAAGGGATAGTCCAACCCCGATTTTATTTCT-A
1 ACAATCGGGGATACTCCAACCTCGTTATTTTTGAAGGGATACTCCAACCCCGAATTTATTTCTAA
** * * * *
1183083 AACTATTGATTTTCCACCATTAAGGATACTCCAACCCTGTTATTTCTGAAA-GGATACT
66 AAC-ATCAATTTTTCACAATTGAGGATACTCCAACCCTGTTATTT-TTAAAGGGATACT
1183141 TTGACCCCGT
Statistics
Matches: 234, Mismatches: 41, Indels: 9
0.82 0.14 0.03
Matches are distributed among these distances:
156 4 0.02
157 106 0.45
158 114 0.49
159 10 0.04
ACGTcount: A:0.30, C:0.24, G:0.13, T:0.33
Consensus pattern (158 bp):
ACAATCGGGGATACTCCAACCTCGTTATTTTTGAAGGGATACTCCAACCCCGAATTTATTTCTAA
AACATCAATTTTTCACAATTGAGGATACTCCAACCCTGTTATTTTTAAAGGGATACTCCAACCCT
GACTTTATTTCAAAAACATCAATTATCC
Found at i:1183138 original size:79 final size:77
Alignment explanation
Indices: 1182712--1183140 Score: 304
Period size: 79 Copynumber: 5.4 Consensus size: 77
1182702 CTACAATTGG
** * * * *
1182712 GGATACTCCAA-CCTCGTTATTTCCAAGGAGATACTCCAACCCCAAATTTATTTCTAAAACATCA
1 GGATACTCCAACCCT-GTTATTTTGAAAG-GATACTCCAACCCCGACTTTATTTCT-AAACATCG
* * **
1182776 ATTTTTCACAATCGG
63 ATTATCCACAATCAA
** * * * * *
1182791 GGATACTCCAACCCCATTATTTTTG-AGGGCATACTCCAACCCTGGCTTTATTTCAAAAACATCA
1 GGATACTCCAACCCTGTTA-TTTTGAAAGG-ATACTCCAACCCCGACTTTATTTC-TAAACATCG
* **
1182855 ATTTTCCACAATCGG
63 ATTATCCACAATCAA
** * ** * * * *
1182870 GGATACTCCAACTTTATTATTTTTGAGGGGATACTCTAACCCAGGCTTTATTTCTAAAACATCAA
1 GGATACTCCAACCCTGTTA-TTTTGAAAGGATACTCCAACCCCGACTTTATTTCT-AAACATCGA
* * ***
1182935 TTTTTCACAATTGT
64 TTATCCACAATCAA
* * *
1182949 GGATACTCCAACTCTGTTATTTTTAAAGGGATACTCCAACCCTGACTTTATTTCTAAACATCGAT
1 GGATACTCCAACCCTGTTATTTTGAAA-GGATACTCCAACCCCGACTTTATTTCTAAACATCGAT
**
1183014 TATCCACAATCGG
65 TATCCACAATCAA
* * * * * *
1183027 GGATCCTCCAACCCCGTTATTTTTGAAGGGATAGTCCAACCCCGATTTTATTTCTAAACTATTGA
1 GGATACTCCAACCCTGTTA-TTTTGAAAGGATACTCCAACCCCGACTTTATTTCTAAAC-ATCGA
* * *
1183092 TTTTCCACCATTAA
64 TTATCCACAATCAA
1183106 GGATACTCCAACCCTGTTATTTCTGAAAGGATACT
1 GGATACTCCAACCCTGTTATTT-TGAAAGGATACT
1183141 TTGACCCCGT
Statistics
Matches: 289, Mismatches: 51, Indels: 20
0.80 0.14 0.06
Matches are distributed among these distances:
78 71 0.25
79 210 0.73
80 8 0.03
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.34
Consensus pattern (77 bp):
GGATACTCCAACCCTGTTATTTTGAAAGGATACTCCAACCCCGACTTTATTTCTAAACATCGATT
ATCCACAATCAA
Found at i:1183156 original size:157 final size:157
Alignment explanation
Indices: 1182704--1183140 Score: 436
Period size: 157 Copynumber: 2.8 Consensus size: 157
1182694 CTATTTTTCT
* * * ** *
1182704 ACAATTGGGGATACTCCAACCTCGTTA-TTTCCAAGGAGATACTCCAACCCCA-AATTTATTTCT
1 ACAATCGGGGATACTCCAACCCCATTATTTTTGAAGG-GATACTCCAA-CCCAGACTTTATTTCT
* *** **
1182767 AAAACATCAATTTTTCACAATCGGGGATACTCCAACCCCATTATTTTTG--AGGGCATACTCCAA
64 AAAACATCAATTTTCCACAATTAAGGATACTCCAACCCTGTTA-TTTTGAAAGGG-ATACTCCAA
* * * *
1182830 CCCTGGCTTTATTTCAAAAACATCAATTTTCC
127 CCCCGACTTTATTTC-TAAACATCAATTATCC
*** * * *
1182862 ACAATCGGGGATACTCCAACTTTATTATTTTTGAGGGGATACTCTAACCCAGGCTTTATTTCTAA
1 ACAATCGGGGATACTCCAACCCCATTATTTTTGAAGGGATACTCCAACCCAGACTTTATTTCTAA
* ** * * *
1182927 AACATCAATTTTTCACAATTGTGGATACTCCAACTCTGTTATTTTTAAAGGGATACTCCAACCCT
66 AACATCAATTTTCCACAATTAAGGATACTCCAACCCTGTTATTTTGAAAGGGATACTCCAACCCC
*
1182992 GACTTTATTTCTAAACATCGATTATCC
131 GACTTTATTTCTAAACATCAATTATCC
* * * * *
1183019 ACAATCGGGGATCCTCCAACCCCGTTATTTTTGAAGGGATAGTCCAACCCCGATTTTATTTCT-A
1 ACAATCGGGGATACTCCAACCCCATTATTTTTGAAGGGATACTCCAACCCAGACTTTATTTCTAA
** *
1183083 AACTATTGATTTTCCACCATTAAGGATACTCCAACCCTGTTATTTCTGAAA-GGATACT
66 AAC-ATCAATTTTCCACAATTAAGGATACTCCAACCCTGTTATTT-TGAAAGGGATACT
1183141 TTGACCCCGT
Statistics
Matches: 234, Mismatches: 39, Indels: 13
0.82 0.14 0.05
Matches are distributed among these distances:
156 4 0.02
157 114 0.49
158 106 0.45
159 10 0.04
ACGTcount: A:0.30, C:0.24, G:0.13, T:0.33
Consensus pattern (157 bp):
ACAATCGGGGATACTCCAACCCCATTATTTTTGAAGGGATACTCCAACCCAGACTTTATTTCTAA
AACATCAATTTTCCACAATTAAGGATACTCCAACCCTGTTATTTTGAAAGGGATACTCCAACCCC
GACTTTATTTCTAAACATCAATTATCC
Found at i:1191514 original size:67 final size:67
Alignment explanation
Indices: 1191442--1191640 Score: 160
Period size: 67 Copynumber: 3.0 Consensus size: 67
1191432 TGGTTTTCCT
* * * * * *
1191442 TTTTTTTAAAAAAAGGCCCACACAAGTTGGTGGCACCCTTTA-TTTTGGTCCTCAAAGAGTAGGA
1 TTTTTTTAAAAAAA-GCCCACACAAGCTGATGGCACCCTTTACTTTTAGTCATCAAAAAGCAGGA
1191506 TGC
65 TGC
** *
1191509 TTTTTTT--TTAAAGCCCACACAAGCTGATGGCACCTTTTATCCTTTTAGTCATCAAAAAGCAGG
1 TTTTTTTAAAAAAAGCCCACACAAGCTGATGGCACCCTTTA--CTTTTAGTCATCAAAAAGCAGG
1191572 ATGC
64 ATGC
* * * *
1191576 CTTTTTT---AAAAG-CCACACAAGCTGGTGGCACACCCTTTTATCCTTTTAGTCCTCAAAGAGC
1 TTTTTTTAAAAAAAGCCCACACAAGCTGATGG--CACCC-TTTA--CTTTTAGTCATCAAAAAGC
1191637 AGGA
61 AGGA
1191641 CGTCTTTTCT
Statistics
Matches: 111, Mismatches: 15, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
64 24 0.22
65 18 0.16
66 4 0.04
67 38 0.34
68 27 0.24
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.32
Consensus pattern (67 bp):
TTTTTTTAAAAAAAGCCCACACAAGCTGATGGCACCCTTTACTTTTAGTCATCAAAAAGCAGGAT
GC
Found at i:1191826 original size:139 final size:136
Alignment explanation
Indices: 1191457--1192383 Score: 546
Period size: 137 Copynumber: 6.7 Consensus size: 136
1191447 TTAAAAAAAG
* * * * * **
1191457 GCCCACACAAGTTGGTGGCACCCTTTA--TTTTGGTCCTCAAAGAGTAGGA-TGCTTTT-TTTTT
1 GCCCACACAAGCTGGTGGCACCTTTTATCTTTTAGTCCT-AAAAAGCAGGACACCTTTTCTTTTT
* * * *
1191518 AAAGCCCACACAAGCTGATGGCACCTTTTATCCTTTTAGTCATCAAAAAGCAGGATGCC--TTT-
65 AAAGCCCACACAAGCTGGTGGCACCTTTTATCCTTTTAGTCCTCAAAAAGCAAGACGCCTTTTTC
*
1191580 TTTAAAA
130 TTTTAAA
* **
1191587 G-CCACACAAGCTGGTGGCACACCCTTTTATCCTTTTAGTCCTCAAAGAGCAGGACGTCTTTTCT
1 GCCCACACAAGCTGGTGG--CA-CCTTTTAT-CTTTTAGTCCT-AAAAAGCAGGACACCTTTTCT
* * * * * * *
1191651 TTTTAAAGCCCACATAAG-TAGCTGACACCTTTTATCCTTTCAGTCCTCAAAGAGTAAGACACCT
61 TTTTAAAGCCCACACAAGCT-GGTGGCACCTTTTATCCTTTTAGTCCTCAAAAAGCAAGACGCCT
1191715 TTTTCTTTTAAA
125 TTTTCTTTTAAA
* * *
1191727 GCCCACACAAGCTAGTGGCACCTTTTATCTATTTAGTCCTAAAAAAGTATGACACCATTTTCTTT
1 GCCCACACAAGCTGGTGGCACCTTTTATCT-TTTAGTCCT-AAAAAGCAGGACACC-TTTTCTTT
* * *
1191792 TAAAAGCCCACACAAGCTGGTGGCACATTTTATCCTTTTA-TGCCTCAAAAAGCAAAACGCCTTT
63 TTAAAGCCCACACAAGCTGGTGGCACCTTTTATCCTTTTAGT-CCTCAAAAAGCAAGACGCCTTT
1191856 TTCTTTTAAA
127 TTCTTTTAAA
* * * *
1191866 GCCCATATAAGCTGGTGGCACCTTTTATCTTTTCAGTCCTCAAAAGCAGGATACCTTTT-TCTTT
1 GCCCACACAAGCTGGTGGCACCTTTTATCTTTT-AGTCCTAAAAAGCAGGACACCTTTTCT-TTT
* * * * * *
1191930 TAAAGCTCACACAAGTTTGTGGTACCTGGCACCTTTTATCTTTTTAGTCCTCAAAGAGTAAGATG
64 TAAAGCCCACACAAG---CTGG----TGGCACCTTTTATCCTTTTAGTCCTCAAAAAGCAAGACG
*
1191995 CCTTTTTTTTTTAAA
122 CCTTTTTCTTTTAAA
* * * * * ***
1192010 GTCCACACAAACTGGTGG---C----AGCTTTTAGTCCTCAAAGAGTAGGA-TGTTTTTCTTTTT
1 GCCCACACAAGCTGGTGGCACCTTTTATCTTTTAGTCCT-AAAAAGCAGGACACCTTTTC----T
*** * * * * * *
1192067 CTTTTAAAGCTTGCACAAGCTGGAGGCACCCTTTA---TTTTAGTCCT-AAAAGTGTAGGACACT
61 -TTTTAAAGCCCACACAAGCTGGTGGCACCTTTTATCCTTTTAGTCCTCAAAA-AGCAAGACGC-
*
1192128 TTTTCTTTTCTTTTAAA
123 --CT-TTTTCTTTTAAA
** * * *
1192145 GCCCACACAAGCTGGTGGCACCTTTTA--TTTTAGTCCTCAAGGAGTAGGAC-GCTTTCTTTTTT
1 GCCCACACAAGCTGGTGGCACCTTTTATCTTTTAGTCCT-AAAAAGCAGGACACCTTT-TCTTTT
* * * * * *
1192207 TAAAAGCTCACACAAGTTGGTGGCACCCTTTA---TTTTAGTCCTCAAAGAGCAGGACACTTTTC
64 T-AAAGCCCACACAAGCTGGTGGCACCTTTTATCCTTTTAGTCCTCAAAAAGCAAGACGC----C
* *
1192269 CTTTTCTTTTAAG
124 TTTTTCTTTTAAA
* * * * * **
1192282 GCCCACACAAGTTGGTGGCACCCCTTCTATCCTTTGAGTCCTCAAAGAGTAGGATGCCTTTT-TT
1 GCCCACACAAGCTGGTGGCA--CCTTTTAT-CTTTTAGTCCT-AAAAAGCAGGACACCTTTTCTT
* *
1192346 TTCAAAGCCCACACAAGCTAGTGGCACCTTTTAGTCCT
62 TTTAAAGCCCACACAAGCTGGTGGCACCTTTTA-TCCT
1192384 CAAAGAACAT
Statistics
Matches: 637, Mismatches: 100, Indels: 106
0.76 0.12 0.13
Matches are distributed among these distances:
129 15 0.02
130 4 0.01
131 18 0.03
132 6 0.01
134 11 0.02
135 47 0.07
136 21 0.03
137 163 0.26
138 52 0.08
139 112 0.18
140 62 0.10
141 39 0.06
142 22 0.03
143 4 0.01
144 60 0.09
145 1 0.00
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.35
Consensus pattern (136 bp):
GCCCACACAAGCTGGTGGCACCTTTTATCTTTTAGTCCTAAAAAGCAGGACACCTTTTCTTTTTA
AAGCCCACACAAGCTGGTGGCACCTTTTATCCTTTTAGTCCTCAAAAAGCAAGACGCCTTTTTCT
TTTAAA
Found at i:1191935 original size:68 final size:68
Alignment explanation
Indices: 1191457--1192378 Score: 642
Period size: 70 Copynumber: 13.4 Consensus size: 68
1191447 TTAAAAAAAG
* * * * *
1191457 GCCCACACAAGTTGGTGGCACCCTTTA--TTTTGGTCCTCAAAGAGTAGGAT-GCTTTTT-TTTT
1 GCCCACACAAGCTGGTGGCACCTTTTATCTTTTAGTCCTCAAAGAGCAGGATACCTTTTTCTTTT
1191518 AAA
66 AAA
* * * *
1191521 GCCCACACAAGCTGATGGCACCTTTTATCCTTTTAGTCATCAAAAAGCAGGATGCC--TTT-TTT
1 GCCCACACAAGCTGGTGGCACCTTTTAT-CTTTTAGTCCTCAAAGAGCAGGATACCTTTTTCTTT
*
1191583 AAAA
65 TAAA
*
1191587 G-CCACACAAGCTGGTGGCACACCCTTTTATCCTTTTAGTCCTCAAAGAGCAGG--ACGTCTTTT
1 GCCCACACAAGCTGGTGG--CA-CCTTTTAT-CTTTTAGTCCTCAAAGAGCAGGATACCT-TTTT
1191649 CTTTTTAAA
61 C-TTTTAAA
* * * * * * *
1191658 GCCCACATAAG-TAGCTGACACCTTTTATCCTTTCAGTCCTCAAAGAGTAAGACACCTTTTTCTT
1 GCCCACACAAGCT-GGTGGCACCTTTTAT-CTTTTAGTCCTCAAAGAGCAGGATACCTTTTTCTT
1191722 TTAAA
64 TTAAA
* * * * * * *
1191727 GCCCACACAAGCTAGTGGCACCTTTTATCTATTTAGTCCTAAAAAAGTATGACACCATTTTCTTT
1 GCCCACACAAGCTGGTGGCACCTTTTATCT-TTTAGTCCTCAAAGAGCAGGATACCTTTTTCTTT
1191792 TAAAA
65 T-AAA
* * ** **
1191797 GCCCACACAAGCTGGTGGCACATTTTATCCTTTTA-TGCCTCAAAAAGCAAAACGCCTTTTTCTT
1 GCCCACACAAGCTGGTGGCACCTTTTAT-CTTTTAGT-CCTCAAAGAGCAGGATACCTTTTTCTT
1191861 TTAAA
64 TTAAA
* *
1191866 GCCCATATAAGCTGGTGGCACCTTTTATCTTTTCAGTCCTCAAA-AGCAGGATACCTTTTTCTTT
1 GCCCACACAAGCTGGTGGCACCTTTTATCTTTT-AGTCCTCAAAGAGCAGGATACCTTTTTCTTT
1191930 TAAA
65 TAAA
* * * * *
1191934 GCTCACACAAGTTTGTGGTACCTGGCACCTTTTATCTTTTTAGTCCTCAAAGAGTAAGATGCCTT
1 GCCCACACAAG---CTGG----TGGCACCTTTTATC-TTTTAGTCCTCAAAGAGCAGGATACCTT
*
1191999 TTTTTTTTAAA
58 TTTCTTTTAAA
* * * * **
1192010 GTCCACACAAACTGGTGG---C----AGCTTTTAGTCCTCAAAGAGTAGGATGTTTTTCTTTTTC
1 GCCCACACAAGCTGGTGGCACCTTTTATCTTTTAGTCCTCAAAGAGCAGGA----TACCTTTTTC
1192068 TTTTAAA
62 TTTTAAA
*** * * * * * * *
1192075 GCTTGCACAAGCTGGAGGCACCCTTTA--TTTTAGTCCTAAAAGTGTAGGACACTTTTTCTTTTC
1 GCCCACACAAGCTGGTGGCACCTTTTATCTTTTAGTCCTCAAAGAGCAGGATAC---CT-TTTTC
1192138 TTTTAAA
62 TTTTAAA
* * *
1192145 GCCCACACAAGCTGGTGGCACCTTTTA--TTTTAGTCCTCAAGGAGTAGG--ACGCTTTCTTTTT
1 GCCCACACAAGCTGGTGGCACCTTTTATCTTTTAGTCCTCAAAGAGCAGGATAC-CTTT-TTCTT
1192206 TTAAAA
64 TT-AAA
* * * * *
1192212 GCTCACACAAGTTGGTGGCACCCTTTA--TTTTAGTCCTCAAAGAGCAGGACACTTTTCCTTTTC
1 GCCCACACAAGCTGGTGGCACCTTTTATCTTTTAGTCCTCAAAGAGCAGGATAC----CTTTTTC
*
1192275 TTTTAAG
62 TTTTAAA
* * * * *
1192282 GCCCACACAAGTTGGTGGCACCCCTTCTATCCTTTGAGTCCTCAAAGAGTAGGATGCCTTTTT-T
1 GCCCACACAAGCTGGTGGCA--CCTTTTAT-CTTTTAGTCCTCAAAGAGCAGGATACCTTTTTCT
*
1192346 TTCAAA
63 TTTAAA
*
1192352 GCCCACACAAGCTAGTGGCACCTTTTA
1 GCCCACACAAGCTGGTGGCACCTTTTA
1192379 GTCCTCAAAG
Statistics
Matches: 691, Mismatches: 108, Indels: 114
0.76 0.12 0.12
Matches are distributed among these distances:
61 21 0.03
62 2 0.00
64 24 0.03
65 43 0.06
66 19 0.03
67 67 0.10
68 74 0.11
69 133 0.19
70 181 0.26
71 27 0.04
72 20 0.03
73 3 0.00
75 45 0.07
76 32 0.05
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (68 bp):
GCCCACACAAGCTGGTGGCACCTTTTATCTTTTAGTCCTCAAAGAGCAGGATACCTTTTTCTTTT
AAA
Found at i:1192140 original size:70 final size:70
Alignment explanation
Indices: 1192032--1192671 Score: 481
Period size: 70 Copynumber: 9.3 Consensus size: 70
1192022 TGGTGGCAGC
** ** *
1192032 TTTTAGTCCTCAAAGAGTAGGA-TGTTTTTCTTTTTCTTTTAAAGCTTGCACAAGCTGGAGGCAC
1 TTTTAGTCCTCAAAGAGTAGGACACTTTTTC-TTTTCTTTTAAAGCTCACACAAGCTGGTGGCAC
1192096 CCTTTA
65 CCTTTA
* * *
1192102 TTTTAGTCCTAAAAGTGTAGGACACTTTTTCTTTTCTTTTAAAGCCCACACAAGCTGGTGGCACC
1 TTTTAGTCCTCAAAGAGTAGGACACTTTTTCTTTTCTTTTAAAGCTCACACAAGCTGGTGGCACC
*
1192167 TTTTA
66 CTTTA
* * * *
1192172 TTTTAGTCCTCAAGGAGTAGGACGC--TTTCTTTT-TTTAAAAGCTCACACAAGTTGGTGGCACC
1 TTTTAGTCCTCAAAGAGTAGGACACTTTTTCTTTTCTTTTAAAGCTCACACAAGCTGGTGGCACC
1192234 CTTTA
66 CTTTA
* * * * *
1192239 TTTTAGTCCTCAAAGAGCAGGACACTTTTCCTTTTCTTTTAAGGCCCACACAAGTTGGTGGCACC
1 TTTTAGTCCTCAAAGAGTAGGACACTTTTTCTTTTCTTTTAAAGCTCACACAAGCTGGTGGCA-C
1192304 CCTTCTA
65 CCTT-TA
** * * *
1192311 TCCTTTGAGTCCTCAAAGAGTAGGATGCCTTTT-TTTTC----AAAGCCCACACAAGCTAGTGGC
1 T--TTT-AGTCCTCAAAGAGTAGGACACTTTTTCTTTTCTTTTAAAGCTCACACAAGCTGGTGGC
1192371 A-CC----
63 ACCCTTTA
** * * * *** *
1192374 TTTTAGTCCTCAAAGAACATGACA-GTTTTCCTTT-TTTTAAAGC-CTGTGCAAGCTGATGGCAC
1 TTTTAGTCCTCAAAGAGTAGGACACTTTTTCTTTTCTTTTAAAGCTC-ACACAAGCTGGTGGCAC
*
1192436 CCGTTA
65 CCTTTA
* * * ** * * * *
1192442 TTTTAGTCTTCAAAGAGCAAGATGC-TTTTCATTTTTCTTTCAAAGCCCACATAAACTGGTGGCA
1 TTTTAGTCCTCAAAGAGTAGGACACTTTTTC--TTTTCTTTTAAAGCTCACACAAGCTGGTGGCA
1192506 CCCTTTA
64 CCCTTTA
* * * ** * * *
1192513 TTTTAGTCTTTAAAGAGCAAAACAC-TTTTCTATTTCTTTTCAAGCCCACACAAGCTAGTGGCAC
1 TTTTAGTCCTCAAAGAGTAGGACACTTTTTCT-TTTCTTTTAAAGCTCACACAAGCTGGTGGCAC
1192577 CCTTTA
65 CCTTTA
* * * * * * * * * * *
1192583 TTTTAATCCTTAAAAAGCAAGACGCTTTTCCTTTTCTTTTAAAGCCCACATAATCTGATGGCACC
1 TTTTAGTCCTCAAAGAGTAGGACACTTTTTCTTTTCTTTTAAAGCTCACACAAGCTGGTGGCACC
*
1192648 CTTTC
66 CTTTA
* *
1192653 TTATAGCCCTCAAAGAGTA
1 TTTTAGTCCTCAAAGAGTA
1192672 TAATGCTTTC
Statistics
Matches: 458, Mismatches: 85, Indels: 54
0.77 0.14 0.09
Matches are distributed among these distances:
59 4 0.01
60 18 0.04
61 3 0.01
62 1 0.00
63 17 0.04
64 2 0.00
67 52 0.11
68 34 0.07
69 8 0.02
70 220 0.48
71 66 0.14
72 4 0.01
74 8 0.02
75 21 0.05
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.35
Consensus pattern (70 bp):
TTTTAGTCCTCAAAGAGTAGGACACTTTTTCTTTTCTTTTAAAGCTCACACAAGCTGGTGGCACC
CTTTA
Found at i:1192847 original size:411 final size:405
Alignment explanation
Indices: 1192000--1192921 Score: 937
Period size: 411 Copynumber: 2.3 Consensus size: 405
1191990 AGATGCCTTT
* * * * * *
1192000 TTTTTTTAAAGTCCACA-CAAACTGGTGGCAGCTTTTAGTCCTCAAAGAGTAGGATGTTTTTCTT
1 TTTTTTAAAAG-CCACAGCAAGCTGATGGCACCTTTTAGTCCTCAAAGAGCAAGATGTTTTTCTT
* *** * * * * **
1192064 TTTCTTTTAAAGCTTGCACAAGCTGGAGGCACCCTTTATTTTAGTCCTAAAAGTGTAGGACACTT
65 TTTCTTTCAAAGCCCACACAAACTGGTGGCACCCTTTATTTTAGTCCTAAAAGAGCAAAACACTT
* * * ** * *
1192129 TTTCTTTTCTTTTAAAGCCCACACAAGCTGGTGGCACCTTTTATTTTAGTCCTCAAGGAGTAGGA
130 TTTCTTTTCTTTTAAAGCCCACACAAGCTAGTGGCACCCTTTATTTTAATCCTCAAAAAGCAAGA
* * * *
1192194 CGCTTTCTTTTTTTAAAAGCTCACACAAGTTGGTGGCACCCTTTATTTTAGTCCTCAAAGAGCAG
195 CGCTTTCTTTTTTTAAAAGCCCACACAAGTTGATGGCACCCTTTATTATAGCCCTCAAAGAGCAG
* * * * *
1192259 GACACTTTTCCTTTTCTTTTAAGGCCCACACAAGTTGGTGGCACCCCTTCTATCCTTTGAGTCCT
260 AACACTTTTCCTTTTCTTTAAAAGCCCACACAAGATGGTGGCACCCCTTCTATCCTTTGAATCCT
* * * * *
1192324 CAAAGAGTAGGATGCCTTTTTTTTCAAAGCCCACACAAGCTAGTGGCACCTTTTAGTCCTCAAAG
325 CAAAAAGTAGGACGCATTTTTTTTCAAAGCCCACACAAGCTAGTGGCAACATTTAGTCCTCAAAG
** * *
1192389 AACATGACAGTTTTCC
390 AACAAAAAACTTTTCC
* *** * *
1192405 TTTTTTTAAAGCCTGTGCAAGCTGATGGCACCCGTTATTTTAGTCTTCAAAGAGCAAGATGCTTT
1 TTTTTTAAAAGCCACAGCAAGCTGATGGCA-CC----TTTTAGTCCTCAAAGAGCAAGATGTTTT
* * *
1192470 TCATTTTTCTTTCAAAGCCCACATAAACTGGTGGCACCCTTTATTTTAGTCTTTAAAGAGCAAAA
61 TC-TTTTTCTTTCAAAGCCCACACAAACTGGTGGCACCCTTTATTTTAGTCCTAAAAGAGCAAAA
* *
1192535 CAC-TTTTCTATTTCTTTTCAAGCCCACACAAGCTAGTGGCACCCTTTATTTTAATCCTTAAAAA
125 CACTTTTTCT-TTTCTTTTAAAGCCCACACAAGCTAGTGGCACCCTTTATTTTAATCCTCAAAAA
* * *
1192599 GCAAGACGCTTTTCCTTTTCTTTTAAAGCCCACATAA-TCTGATGGCACCCTTTCTTATAGCCCT
189 GCAAGACGC-TTT-CTTTT-TTTAAAAGCCCACACAAGT-TGATGGCACCCTTTATTATAGCCCT
* * ** * * *
1192663 CAAAGAGTATAATGC-TTTCCTTTT-TTTAAAAAGCCCACACAAGATGGTGGCACTCTTTTTATC
250 CAAAGAGCAGAACACTTTTCCTTTTCTTT-AAAAGCCCACACAAGATGGTGGCACCCCTTCTATC
* ** * * * *
1192726 CTTTTAATTTTCAAAAAGTATGACGCATTTTTTTT-AAAGCCTATACAAGC-CG-GCGCAACATT
314 CTTTGAATCCTCAAAAAGTAGGACGCATTTTTTTTCAAAGCCCACACAAGCTAGTG-GCAACATT
* *
1192788 TAGTCCTCAAAGAGCAAAAAACCTTTTTC
378 TAGTCCTCAAAGAACAAAAAA-CTTTTCC
*
1192817 -TTTTTAAAAGCCCACAG-AAGCTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGATGATTTTTCT
1 TTTTTTAAAAG-CCACAGCAAGCTGATGGCACCTTTTAGTCCTCAAAGAGCAAGATG-TTTTTCT
* *
1192880 TTTCGTTTTTCAAAGCCCACACAAACTGGTGGCACCTTTTAT
64 TTT--TCTTTCAAAGCCCACACAAACTGGTGGCACCCTTTAT
1192922 CCTTTTAAGA
Statistics
Matches: 419, Mismatches: 79, Indels: 35
0.79 0.15 0.07
Matches are distributed among these distances:
404 2 0.00
405 22 0.05
406 28 0.07
407 5 0.01
408 34 0.08
410 35 0.08
411 150 0.36
412 27 0.06
413 71 0.17
414 45 0.11
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.35
Consensus pattern (405 bp):
TTTTTTAAAAGCCACAGCAAGCTGATGGCACCTTTTAGTCCTCAAAGAGCAAGATGTTTTTCTTT
TTCTTTCAAAGCCCACACAAACTGGTGGCACCCTTTATTTTAGTCCTAAAAGAGCAAAACACTTT
TTCTTTTCTTTTAAAGCCCACACAAGCTAGTGGCACCCTTTATTTTAATCCTCAAAAAGCAAGAC
GCTTTCTTTTTTTAAAAGCCCACACAAGTTGATGGCACCCTTTATTATAGCCCTCAAAGAGCAGA
ACACTTTTCCTTTTCTTTAAAAGCCCACACAAGATGGTGGCACCCCTTCTATCCTTTGAATCCTC
AAAAAGTAGGACGCATTTTTTTTCAAAGCCCACACAAGCTAGTGGCAACATTTAGTCCTCAAAGA
ACAAAAAACTTTTCC
Found at i:1192881 original size:62 final size:62
Alignment explanation
Indices: 1192786--1192976 Score: 179
Period size: 68 Copynumber: 3.0 Consensus size: 62
1192776 CGGCGCAACA
* * * * *
1192786 TTTAGTCCTCAAAGAGCAAAAAACCTTTTTCTTTTTAAAAGCCCACAGAAGCTGGTGGCACCT
1 TTTAGTCCTCAAAGAGCAAGATA-TTTTTTCTTTTTCAAAGCCCACACAAGCTGGTGGCACCT
*
1192849 TTTAGTCCTCAAAGAGCAAGATGATTTTTCTTTTCGTTTTTCAAAGCCCACACAAACTGGTGGCA
1 TTTAGTCCTCAAAGAGCAAGAT-A---TT-TTTTC-TTTTTCAAAGCCCACACAAGCTGGTGGCA
1192914 CCT
60 CCT
** * * * *
1192917 TTTA-TCCTTTTAAGAGCAAGACT-CTTTTTCTTTCTCAAAGCCCACACAAGTTGATGGCAC
1 TTTAGTCC-TCAAAGAGCAAGA-TATTTTTTCTTTTTCAAAGCCCACACAAGCTGGTGGCAC
1192977 TTATCTATTT
Statistics
Matches: 107, Mismatches: 14, Indels: 15
0.79 0.10 0.11
Matches are distributed among these distances:
62 26 0.24
63 25 0.23
64 2 0.02
66 1 0.01
67 8 0.07
68 44 0.41
69 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.32
Consensus pattern (62 bp):
TTTAGTCCTCAAAGAGCAAGATATTTTTTCTTTTTCAAAGCCCACACAAGCTGGTGGCACCT
Found at i:1193707 original size:52 final size:52
Alignment explanation
Indices: 1193598--1193697 Score: 137
Period size: 52 Copynumber: 1.9 Consensus size: 52
1193588 AATATATCGG
* * * * *
1193598 TACATTTTTCATTATATCGATACATTTTGGGTTTTTGACCCAAATGTATCAA
1 TACATTATTCATTGTATCGACACATTCTAGGTTTTTGACCCAAATGTATCAA
* *
1193650 TACATTATTCATTGTATCGACACATTCTAGTTTTTTTACCCAAATGTA
1 TACATTATTCATTGTATCGACACATTCTAGGTTTTTGACCCAAATGTA
1193698 CTGATACATT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
52 41 1.00
ACGTcount: A:0.29, C:0.17, G:0.10, T:0.44
Consensus pattern (52 bp):
TACATTATTCATTGTATCGACACATTCTAGGTTTTTGACCCAAATGTATCAA
Found at i:1197016 original size:157 final size:157
Alignment explanation
Indices: 1196692--1197015 Score: 580
Period size: 157 Copynumber: 2.1 Consensus size: 157
1196682 ATGTTCACAC
*
1196692 GAAGGCTTTTTCTTTTTATCATTGTTGGATTCAATGTCCTTTGAAACTAGGGCTGAGTTTTCCTT
1 GAAGGTTTTTTCTTTTTATCATTGTTGGATTCAATGTCCTTTGAAACTAGGGCTGAGTTTTCCTT
* * *
1196757 ATTTATTGTTTTTTTACTTCTCATGTATTTAACATAACCTTCATCCTAGTCTCTTCTCTTCTAAT
66 ATTAATTATTTTTTTACTTCTCATGCATTTAACATAACCTTCATCCTAGTCTCTTCTCTTCTAAT
1196822 CTTAGAAAAAACTTCATGAAAAAATGA
131 CTTAGAAAAAACTTCATGAAAAAATGA
*
1196849 GAAGGTTTTTTCTTTTTATCATTGTTGGATTCAATG-CTCTTTGAAATTAGGGCTGAGTTTTCCT
1 GAAGGTTTTTTCTTTTTATCATTGTTGGATTCAATGTC-CTTTGAAACTAGGGCTGAGTTTTCCT
1196913 TATTAATTATTTTTTTACTTCTCATGCATTTAACAT-ACCTTCATCCTAGTCTCTTCTCTTCTAA
65 TATTAATTATTTTTTTACTTCTCATGCATTTAACATAACCTTCATCCTAGTCTCTTCTCTTCTAA
1196977 TCTTAGAAAAAACTTCATGAAAAAATGA
130 TCTTAGAAAAAACTTCATGAAAAAATGA
1197005 GAAGGTTTTTT
1 GAAGGTTTTTT
1197016 TTTCAAAAGA
Statistics
Matches: 161, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
156 68 0.42
157 93 0.58
ACGTcount: A:0.26, C:0.16, G:0.12, T:0.45
Consensus pattern (157 bp):
GAAGGTTTTTTCTTTTTATCATTGTTGGATTCAATGTCCTTTGAAACTAGGGCTGAGTTTTCCTT
ATTAATTATTTTTTTACTTCTCATGCATTTAACATAACCTTCATCCTAGTCTCTTCTCTTCTAAT
CTTAGAAAAAACTTCATGAAAAAATGA
Found at i:1197301 original size:28 final size:28
Alignment explanation
Indices: 1197261--1197317 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
1197251 TAGAAAGAAT
*
1197261 TTTCTACATCAGAATAGGTTTCATGCAC
1 TTTCTACATCAGAATAGGTTTCACGCAC
1197289 TTTCTACATCAGAATAGGTTTCACGCAC
1 TTTCTACATCAGAATAGGTTTCACGCAC
1197317 T
1 T
1197318 GCTTCCTATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (28 bp):
TTTCTACATCAGAATAGGTTTCACGCAC
Found at i:1200531 original size:85 final size:85
Alignment explanation
Indices: 1200388--1200557 Score: 252
Period size: 85 Copynumber: 2.0 Consensus size: 85
1200378 GATAACAAAT
* * *
1200388 AATTTTGACAAAAGAGGAGTTCAAATCTTAATAAATTTTGAAGAGTGGGGTTGGAGTATCCCCTC
1 AATTTTGAAAAAAGAGGAGTTCAAATCTTAATAAATTTTGAAGAGCGAGGTTGGAGTATCCCCTC
*
1200453 GAAAGATTAAGGTTAGAGTA
66 GAAAGATCAAGGTTAGAGTA
* *
1200473 AATTTTGAAAAAAGAGGATTTCAAATC-TAGATAAATTTTGAAGAGCGAGGTTTGAGTATCCCCT
1 AATTTTGAAAAAAGAGGAGTTCAAATCTTA-ATAAATTTTGAAGAGCGAGGTTGGAGTATCCCCT
* *
1200537 CGAAAGGTCAGGGTTAGAGTA
65 CGAAAGATCAAGGTTAGAGTA
1200558 TCCCTGTGAA
Statistics
Matches: 76, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
84 2 0.03
85 74 0.97
ACGTcount: A:0.36, C:0.10, G:0.25, T:0.29
Consensus pattern (85 bp):
AATTTTGAAAAAAGAGGAGTTCAAATCTTAATAAATTTTGAAGAGCGAGGTTGGAGTATCCCCTC
GAAAGATCAAGGTTAGAGTA
Found at i:1203772 original size:52 final size:52
Alignment explanation
Indices: 1203665--1204357 Score: 634
Period size: 52 Copynumber: 13.3 Consensus size: 52
1203655 ATGTAGATTT
* * * * * * * *
1203665 AAGGCCTGCGATACTGGACTTAAAGATGACATAGGTGTCAACGTGCTAATTC
1 AAGGCCAGCGACATTGGACTTAAAGATGACAAAGGTGCCAATGTGCTGATCC
* * * * * *
1203717 AAGGCTAGCGATATTAGTCTTAAAGATGGCAAAGGTGCCAATATGCTGATCC
1 AAGGCCAGCGACATTGGACTTAAAGATGACAAAGGTGCCAATGTGCTGATCC
* * * * *
1203769 AAGGCCAGCAACATTGGACTTAAAGATGA-TACGGATGCCTATGTGCTGATTC
1 AAGGCCAGCGACATTGGACTTAAAGATGACAAAGG-TGCCAATGTGCTGATCC
** * * ** * * *
1203821 AAGGCCAATGAAACTGGTTTTAGAGATGACAAACGTGCCAATGTCCTGATCC
1 AAGGCCAGCGACATTGGACTTAAAGATGACAAAGGTGCCAATGTGCTGATCC
** ** * * * *
1203873 AAGGTTAATGACATTGGACTTAGAA-ATGATAGAGGTGCTAATGTGTTGATCC
1 AAGGCCAGCGACATTGGACTTA-AAGATGACAAAGGTGCCAATGTGCTGATCC
* * * * *
1203925 AAGGCCAGCAACATTAGACTTAGAGATGACAAAGGTACCAATATGCTGATCC
1 AAGGCCAGCGACATTGGACTTAAAGATGACAAAGGTGCCAATGTGCTGATCC
* ** * *
1203977 AAGGCCAGGGACATTGGACTTAAAGATGTTAAAGGTGCCAATGTGCTTATTC
1 AAGGCCAGCGACATTGGACTTAAAGATGACAAAGGTGCCAATGTGCTGATCC
* *
1204029 AAGGCCAGCGACATTGGACTTAAAGATAACAAAGGTGCCAATGTGCTAATCC
1 AAGGCCAGCGACATTGGACTTAAAGATGACAAAGGTGCCAATGTGCTGATCC
* * * * * * * *
1204081 AAGGCCAACAACTTTAGACTTACAGATGACAAAGGTGCTAATGTACTCATCC
1 AAGGCCAGCGACATTGGACTTAAAGATGACAAAGGTGCCAATGTGCTGATCC
** ** *
1204133 AAGGCCAATGACATTGGACTTAAAGATGATGAAGGTGCCAATGTGTTGATCC
1 AAGGCCAGCGACATTGGACTTAAAGATGACAAAGGTGCCAATGTGCTGATCC
** * * *
1204185 AAGGCCAGCGACATTGGACTTAAAGATGGTAAGGGTGCCAAGGTGTTGATCC
1 AAGGCCAGCGACATTGGACTTAAAGATGACAAAGGTGCCAATGTGCTGATCC
* * * * * **
1204237 AAGGCTAGTGACATTGGACTTAAAGAAGATAAAGGTGCCAATGTGTTGATTT
1 AAGGCCAGCGACATTGGACTTAAAGATGACAAAGGTGCCAATGTGCTGATCC
* * ** * *
1204289 AAGGCCAACGACATTGGACTTAAAGATGATAAAGGTGATAATGTGTTGATTC
1 AAGGCCAGCGACATTGGACTTAAAGATGACAAAGGTGCCAATGTGCTGATCC
*
1204341 AAGGCCAGCAACATTGG
1 AAGGCCAGCGACATTGG
1204358 TTTTAGAGAT
Statistics
Matches: 515, Mismatches: 122, Indels: 8
0.80 0.19 0.01
Matches are distributed among these distances:
51 4 0.01
52 508 0.99
53 3 0.01
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.24
Consensus pattern (52 bp):
AAGGCCAGCGACATTGGACTTAAAGATGACAAAGGTGCCAATGTGCTGATCC
Found at i:1205574 original size:18 final size:18
Alignment explanation
Indices: 1205548--1205606 Score: 82
Period size: 18 Copynumber: 3.2 Consensus size: 18
1205538 TAGACCCCTC
1205548 TATTTTTTGTGATTTTTT
1 TATTTTTTGTGATTTTTT
*
1205566 TATTCTTTGATTGATTTTTT
1 TATTTTTTG--TGATTTTTT
*
1205586 TCTTTTTTGTGATTTTTT
1 TATTTTTTGTGATTTTTT
1205604 TAT
1 TAT
1205607 ATGATTTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
18 19 0.54
20 16 0.46
ACGTcount: A:0.12, C:0.03, G:0.10, T:0.75
Consensus pattern (18 bp):
TATTTTTTGTGATTTTTT
Found at i:1213603 original size:153 final size:153
Alignment explanation
Indices: 1213322--1213626 Score: 511
Period size: 153 Copynumber: 2.0 Consensus size: 153
1213312 CATTTGAATT
*
1213322 TGTTCAGTGAGGTGTTCATGTTGTGCTTGGTAGTTCAGACGTGCTTGGTTGATTGTCGCTTGCTA
1 TGTTCAGTGAGGTGTTCATGTTGTGCTTGGTAGTTCAGACGTGCTTGGTCGATTGTCGCTTGCTA
* *
1213387 GTCTAATTTGCATTGCTCGAAAGCCTTTGTTAGCTCATTGATATGATCTTGACAGACCTAAAGGG
66 GTCTAATTTGCATTGCTCAAAAGCCTTTGTTAGCTCATTGATATGATCTTGACAGACCGAAAGGG
1213452 ACTACTCTAACTCTTGGATTCTG
131 ACTACTCTAACTCTTGGATTCTG
* * * *
1213475 TGTTCAGTGAGGTGTTGATGTTGTGCTTGGTAGTTTAGATGTGCTTGGTCGATTGTCTCTTGCTA
1 TGTTCAGTGAGGTGTTCATGTTGTGCTTGGTAGTTCAGACGTGCTTGGTCGATTGTCGCTTGCTA
* * *
1213540 GTCTAATTTGCATTGCTTAAAAGCCTTTGTTAGCTTATTGATATGATCTTGACAGATCGAAAGGG
66 GTCTAATTTGCATTGCTCAAAAGCCTTTGTTAGCTCATTGATATGATCTTGACAGACCGAAAGGG
*
1213605 ACTACTTTAACTCTTGGATTCT
131 ACTACTCTAACTCTTGGATTCT
1213627 ATAAGTAAAG
Statistics
Matches: 141, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
153 141 1.00
ACGTcount: A:0.20, C:0.16, G:0.25, T:0.40
Consensus pattern (153 bp):
TGTTCAGTGAGGTGTTCATGTTGTGCTTGGTAGTTCAGACGTGCTTGGTCGATTGTCGCTTGCTA
GTCTAATTTGCATTGCTCAAAAGCCTTTGTTAGCTCATTGATATGATCTTGACAGACCGAAAGGG
ACTACTCTAACTCTTGGATTCTG
Found at i:1218928 original size:20 final size:20
Alignment explanation
Indices: 1218903--1219025 Score: 102
Period size: 20 Copynumber: 5.6 Consensus size: 20
1218893 TTAACTAGAG
1218903 GTATCGATACATTGAAAAAT
1 GTATCGATACATTGAAAAAT
1218923 GTATCGATACATCTAGGTAAAAAGATAGAAT
1 GTATCGATACAT-T--G----AA-A-A-A-T
* *
1218954 GTATCGATATATTGAAGAAT
1 GTATCGATACATTGAAAAAT
* * *
1218974 GTATCGATACATTCATACAT
1 GTATCGATACATTGAAAAAT
1218994 GTATCGATACATTGAAAAAT
1 GTATCGATACATTGAAAAAT
1219014 GTATCGATACAT
1 GTATCGATACAT
1219026 CTGGATACTT
Statistics
Matches: 82, Mismatches: 10, Indels: 22
0.72 0.09 0.19
Matches are distributed among these distances:
20 57 0.70
21 2 0.02
22 1 0.01
23 1 0.01
24 2 0.02
27 2 0.02
28 2 0.02
29 1 0.01
30 2 0.02
31 12 0.15
ACGTcount: A:0.41, C:0.11, G:0.16, T:0.31
Consensus pattern (20 bp):
GTATCGATACATTGAAAAAT
Found at i:1219990 original size:28 final size:28
Alignment explanation
Indices: 1219876--1220295 Score: 383
Period size: 28 Copynumber: 14.4 Consensus size: 28
1219866 CACTAATTTA
* **
1219876 TGTGGGCTTTGAAAAGAGTTGCCACCAACT
1 TGTGGGCTTTG-AAAG-GGTGCCACTGACT
* * *
1219906 CGTGTGGGCTTTGAAAAGAGTGACCATTGGCT
1 --TGTGGGCTTTG-AAAGGGTG-CCACTGACT
* **
1219938 TGTGGGCTTTGAAAAGAGTGCCACTGGGT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
*
1219967 TGTGGGCTTTGAAAGGGTGCCACTGGCT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
1219995 TGTGGGCTTTGAAAGGGTGCCAC-GACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
1220022 TGTGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
1220050 TGTGGGCTTTGAAAAGTGTTGCCACTGACT
1 TGTGGGCTTTG-AAAG-GGTGCCACTGACT
* * *
1220080 TGTGGGCTTTGATAAGAGTTGCCACAGACACG
1 TGTGGGCTTTGA-AAG-GGTGCCACTG--ACT
* *
1220112 TGTGGGCTTTGAAAAGAGTGCCACTAACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
* * * *
1220141 TATGGGCTTTGAAATGGTGCCACTCAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
1220169 TGTGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
1220197 TGTGGGCTTTGAAAAGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * **
1220225 TGTGGGCTTTGAAAAGAGTTACCACCAACT
1 TGTGGGCTTTG-AAAG-GGTGCCACTGACT
*
1220255 CGTGTGGGCTTTGAAAAGAGTGCCACTGACT
1 --TGTGGGCTTTG-AAAGGGTGCCACTGACT
1220286 TGTGGGCTTT
1 TGTGGGCTTT
1220296 AAAAAAATGA
Statistics
Matches: 332, Mismatches: 44, Indels: 27
0.82 0.11 0.07
Matches are distributed among these distances:
27 25 0.08
28 125 0.38
29 48 0.14
30 64 0.19
31 16 0.05
32 53 0.16
33 1 0.00
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.29
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGGTGCCACTGACT
Found at i:1220174 original size:174 final size:173
Alignment explanation
Indices: 1219857--1220300 Score: 572
Period size: 174 Copynumber: 2.5 Consensus size: 173
1219847 TTTTTTTAAA
* *
1219857 AAAAGGTGTCACTAATTTATGTGGGCTTTGAAAAGAGTTGCCACCAACTCGTGTGGGCTTTGAAA
1 AAAAGGTGCCACTAA-CT-TGTGGGCTTTGAAAAGAGTTGCCACCAACTC-TGTGGGCTTTGAAA
** * * *** *
1219922 AGAGTGACCATTGGCTTGTGGGCTTTGAAAAGAGTGCCACTGGGTTGTGGGCTTTGAAAGGGTGC
63 AGAGTG-CCACAGACGTGTGGGCTTTGAAAAGAGTGCCACTAACTTATGGGCTTTGAAAGGGTGC
* * *
1219987 CACTGGCTTGTGGGCTTTGAAAGGGTGCCAC-GACTTGTGGGCTTTG
127 CACTAGCTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTG
* ** *
1220033 -AAAGGATGCCACTAACTTGTGGGCTTTGAAAAGTGTTGCCACTGACT-TGTGGGCTTTGATAAG
1 AAAAGG-TGCCACTAACTTGTGGGCTTTGAAAAGAGTTGCCACCAACTCTGTGGGCTTTGAAAAG
*
1220096 AGTTGCCACAGACACGTGTGGGCTTTGAAAAGAGTGCCACTAACTTATGGGCTTTGAAATGGTGC
65 AG-TGCCACAG--ACGTGTGGGCTTTGAAAAGAGTGCCACTAACTTATGGGCTTTGAAAGGGTGC
1220161 CACTCAG-TTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTG
127 CACT-AGCTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTG
*
1220208 AAAAGGTGCCACTAACTTGTGGGCTTTGAAAAGAGTTACCACCAACTCGTGTGGGCTTTGAAAAG
1 AAAAGGTGCCACTAACTTGTGGGCTTTGAAAAGAGTTGCCACCAACTC-TGTGGGCTTTGAAAAG
* * *
1220273 AGTGCCACTGACTTGTGGGCTTTAAAAA
65 AGTGCCACAGACGTGTGGGCTTTGAAAA
1220301 AATGAACGTT
Statistics
Matches: 233, Mismatches: 26, Indels: 20
0.84 0.09 0.07
Matches are distributed among these distances:
172 21 0.09
173 2 0.01
174 115 0.49
175 58 0.25
176 20 0.09
177 17 0.07
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.28
Consensus pattern (173 bp):
AAAAGGTGCCACTAACTTGTGGGCTTTGAAAAGAGTTGCCACCAACTCTGTGGGCTTTGAAAAGA
GTGCCACAGACGTGTGGGCTTTGAAAAGAGTGCCACTAACTTATGGGCTTTGAAAGGGTGCCACT
AGCTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTG
Found at i:1220259 original size:145 final size:145
Alignment explanation
Indices: 1219876--1220295 Score: 546
Period size: 145 Copynumber: 2.9 Consensus size: 145
1219866 CACTAATTTA
* * * *
1219876 TGTGGGCTTTGAAAAGAGTTGCCACCAACTCGTGTGGGCTTTGAAAAGAGTGACCATTGGCTTGT
1 TGTGGGCTTTG-AAAG-GATGCCACTAACT--TGTGGGCTTTGAAAAGAGTG-CCACTGACTTGT
**** * *
1219941 GGGCTTTGAAAAGAG-TGCCACTGGGT--TGTGGGCTTTG-AAAGGGTGCCACTGGCTTGTGGGC
61 GGGCTTTGAAAAGAGTTGCCACCAACTCGTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGC
*
1220002 TTTGAAAGGGTGCCACGACT
126 TTTGAAAGGGTGCCACCACT
*
1220022 TGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAAGTGTTGCCACTGACTTGTGGGC
1 TGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAAGAG-TGCCACTGACTTGTGGGC
* * * *
1220087 TTTGATAAGAGTTGCCA-CAGACACGTGTGGGCTTTGAAAAGAGTGCCACTAACTTATGGGCTTT
65 TTTGAAAAGAGTTGCCACCA-ACTCGTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTT
* *
1220151 GAAATGGTGCCACTCAGT
129 GAAAGGGTGCCAC-CACT
*
1220169 TGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAAG-GTGCCACTAACTTGTGGGCT
1 TGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCT
*
1220233 TTGAAAAGAGTTACCACCAACTCGTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTT
66 TTGAAAAGAGTTGCCACCAACTCGTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTT
1220296 AAAAAAATGA
Statistics
Matches: 242, Mismatches: 24, Indels: 17
0.86 0.08 0.06
Matches are distributed among these distances:
142 41 0.17
143 7 0.03
144 11 0.05
145 88 0.36
146 49 0.20
147 46 0.19
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.29
Consensus pattern (145 bp):
TGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCT
TTGAAAAGAGTTGCCACCAACTCGTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGA
AAGGGTGCCACCACT
Found at i:1221554 original size:9 final size:9
Alignment explanation
Indices: 1221532--1221597 Score: 57
Period size: 9 Copynumber: 7.4 Consensus size: 9
1221522 TTTTTGTTAT
1221532 TTTTTTCTTGG
1 TTTTTT-TT-G
1221543 TTTTTTTTG
1 TTTTTTTTG
1221552 -TTTTTTT-
1 TTTTTTTTG
* *
1221559 ATTTTTTTA
1 TTTTTTTTG
* *
1221568 TTTATTTGG
1 TTTTTTTTG
1221577 TTTTTTTTG
1 TTTTTTTTG
1221586 TTTTTTTT-
1 TTTTTTTTG
1221594 TTTT
1 TTTT
1221598 GGGTATGAAG
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
8 18 0.38
9 21 0.45
10 2 0.04
11 6 0.13
ACGTcount: A:0.05, C:0.02, G:0.09, T:0.85
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:1221557 original size:8 final size:8
Alignment explanation
Indices: 1221520--1221597 Score: 61
Period size: 8 Copynumber: 9.6 Consensus size: 8
1221510 CCCCTTTCTA
1221520 TTTTTTTG
1 TTTTTTTG
*
1221528 TTATTTT-
1 TTTTTTTG
* *
1221535 TTTCTTGG
1 TTTTTTTG
1221543 TTTTTTTTG
1 -TTTTTTTG
*
1221552 TTTTTTTA
1 TTTTTTTG
*
1221560 TTTTTTTA
1 TTTTTTTG
*
1221568 TTTATTTGG
1 TTT-TTTTG
1221577 TTTTTTTTG
1 -TTTTTTTG
1221586 TTTTTTT-
1 TTTTTTTG
1221593 TTTTT
1 TTTTT
1221598 GGGTATGAAG
Statistics
Matches: 56, Mismatches: 10, Indels: 9
0.75 0.13 0.12
Matches are distributed among these distances:
7 9 0.16
8 31 0.55
9 13 0.23
10 3 0.05
ACGTcount: A:0.05, C:0.01, G:0.09, T:0.85
Consensus pattern (8 bp):
TTTTTTTG
Found at i:1235362 original size:20 final size:20
Alignment explanation
Indices: 1235338--1235392 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
1235328 TATATTGAAG
*
1235338 AATGTATCGATACATTCATA
1 AATGTATCGATACATTCAAA
* *
1235358 CATGTATCGATACATTGAAA
1 AATGTATCGATACATTCAAA
1235378 AATGTATCGATACAT
1 AATGTATCGATACAT
1235393 CTGGGTACTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTCAAA
Found at i:1243652 original size:21 final size:21
Alignment explanation
Indices: 1243611--1243670 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
1243601 TTTTTATTAG
*
1243611 CCAACTTA-TCATTTTCATTTT
1 CCAACTCATTCATTTTC-TTTT
*
1243632 GCAACTCATTTC-TTTTCTTTT
1 CCAACTCA-TTCATTTTCTTTT
1243653 CCAACTCATTCATTTTCT
1 CCAACTCATTCATTTTCT
1243671 CCTCTAGTTC
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
20 3 0.09
21 23 0.70
22 5 0.15
23 2 0.06
ACGTcount: A:0.20, C:0.27, G:0.02, T:0.52
Consensus pattern (21 bp):
CCAACTCATTCATTTTCTTTT
Found at i:1245800 original size:22 final size:22
Alignment explanation
Indices: 1245766--1245817 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
1245756 ATGTATAGTG
* *
1245766 ATGAAAAGTGATGTATCGATAC
1 ATGAACAGAGATGTATCGATAC
1245788 ATGAACAGAGATGTATCGATAC
1 ATGAACAGAGATGTATCGATAC
*
1245810 ATAAACAG
1 ATGAACAG
1245818 TGATAAATAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.44, C:0.12, G:0.21, T:0.23
Consensus pattern (22 bp):
ATGAACAGAGATGTATCGATAC
Done.