Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008302.1 Hibiscus syriacus cultivar Beakdansim tig00110988_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 3402722
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 13 of 17
Found at i:2441157 original size:31 final size:31
Alignment explanation
Indices: 2441122--2441250 Score: 109
Period size: 31 Copynumber: 4.0 Consensus size: 31
2441112 ATTGTGGGAC
* *
2441122 TATTTTTTAAATTGTTTTCAAAACTATATAT
1 TATTTTTCAAAATGTTTTCAAAACTATATAT
*
2441153 TA-TTTTCAAAATGTTTTTCAAACCTATATAACAT
1 TATTTTTCAAAATG-TTTTCAAAACTATAT---AT
* * *
2441187 ATAATATTTTTAAAATATTTTCAAAATTATATAT
1 -T-AT-TTTTCAAAATGTTTTCAAAACTATATAT
*
2441221 T-GTTTTCAAAATGTTTTCTAAAACTATATA
1 TATTTTTCAAAATGTTTTC-AAAACTATATA
2441251 ATAGATAATA
Statistics
Matches: 78, Mismatches: 11, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
30 23 0.29
31 26 0.33
33 1 0.01
34 4 0.05
35 1 0.01
36 1 0.01
37 13 0.17
38 9 0.12
ACGTcount: A:0.40, C:0.09, G:0.03, T:0.49
Consensus pattern (31 bp):
TATTTTTCAAAATGTTTTCAAAACTATATAT
Found at i:2441169 original size:30 final size:29
Alignment explanation
Indices: 2441122--2441308 Score: 80
Period size: 30 Copynumber: 6.1 Consensus size: 29
2441112 ATTGTGGGAC
*
2441122 TATTTTTTAAATTG-TTTTCAAAACTATA
1 TATTTTTTAAAATGTTTTTCAAAACTATA
*
2441150 TATTATTTTCAAAATGTTTTTCAAACCTATATAACA
1 TATT-TTTT-AAAATGTTTTTCAAAAC--TAT---A
* * *
2441186 TATAATATTTTTAAA-ATATTTTCAAAATTATA
1 TAT--T-TTTTAAAATGT-TTTTCAAAACTATA
2441218 TATTGTTTTCAAAATG-TTTTCTAAAACTATA
1 TATT-TTTT-AAAATGTTTTTC-AAAACTATA
* *** *
2441249 TAATAGATAATAT-TTTTT-AAAACTATA
1 TATTTTTTAAAATGTTTTTCAAAACTATA
* *
2441276 TATTATTTTCAAAACGTTTCT-AAAACTATA
1 TATT-TTTT-AAAATGTTTTTCAAAACTATA
2441306 TAT
1 TAT
2441309 AATATTTTTC
Statistics
Matches: 119, Mismatches: 22, Indels: 34
0.68 0.13 0.19
Matches are distributed among these distances:
27 12 0.10
28 5 0.04
29 15 0.13
30 32 0.27
31 23 0.19
32 4 0.03
33 3 0.03
35 3 0.03
36 5 0.04
37 11 0.09
38 6 0.05
ACGTcount: A:0.41, C:0.09, G:0.03, T:0.48
Consensus pattern (29 bp):
TATTTTTTAAAATGTTTTTCAAAACTATA
Found at i:2441218 original size:37 final size:38
Alignment explanation
Indices: 2441147--2441264 Score: 101
Period size: 38 Copynumber: 3.3 Consensus size: 38
2441137 TTTCAAAACT
* * *
2441147 ATATATTATTTTCAAAATGTTTTTCAAACCTATATAAC
1 ATATAATATTTTCAAAATGATTTTCAAAACTATATAAC
*
2441185 ATATAATATTTTTAAAAT-ATTTTCAAAA-T-TAT---
1 ATATAATATTTTCAAAATGATTTTCAAAACTATATAAC
* *
2441217 ATAT--TGTTTTCAAAATG-TTTTCTAAAACTATATAAT
1 ATATAATATTTTCAAAATGATTTTC-AAAACTATATAAC
*
2441253 AGATAATATTTT
1 ATATAATATTTT
2441265 TTAAAACTAT
Statistics
Matches: 63, Mismatches: 8, Indels: 18
0.71 0.09 0.20
Matches are distributed among these distances:
30 15 0.24
31 4 0.06
32 5 0.08
33 3 0.05
35 3 0.05
36 4 0.06
37 8 0.13
38 21 0.33
ACGTcount: A:0.42, C:0.08, G:0.03, T:0.47
Consensus pattern (38 bp):
ATATAATATTTTCAAAATGATTTTCAAAACTATATAAC
Found at i:2441234 original size:68 final size:69
Alignment explanation
Indices: 2441122--2441270 Score: 212
Period size: 68 Copynumber: 2.2 Consensus size: 69
2441112 ATTGTGGGAC
* * *
2441122 TATTTTTTAAATTGTTTTCAAAACTATATATTATTTTCAAAATGTTTT-TCAAACCTATATAACA
1 TATTTTTTAAAATATTTTCAAAACTATATATTATTTTCAAAATGTTTTCT-AAAACTATATAACA
*
2441186 TATAA
65 GATAA
* * *
2441191 TA-TTTTTAAAATATTTTCAAAATTATATATTGTTTTCAAAATGTTTTCTAAAACTATATAATAG
1 TATTTTTTAAAATATTTTCAAAACTATATATTATTTTCAAAATGTTTTCTAAAACTATATAACAG
2441255 ATAA
66 ATAA
2441259 TATTTTTTAAAA
1 TATTTTTTAAAA
2441271 CTATATATTA
Statistics
Matches: 71, Mismatches: 7, Indels: 4
0.87 0.09 0.05
Matches are distributed among these distances:
68 59 0.83
69 12 0.17
ACGTcount: A:0.41, C:0.07, G:0.03, T:0.48
Consensus pattern (69 bp):
TATTTTTTAAAATATTTTCAAAACTATATATTATTTTCAAAATGTTTTCTAAAACTATATAACAG
ATAA
Found at i:2441285 original size:58 final size:56
Alignment explanation
Indices: 2441200--2441326 Score: 163
Period size: 58 Copynumber: 2.3 Consensus size: 56
2441190 ATATTTTTAA
* * *
2441200 AATATTTTCAAAATTATATATTGTTTTCAAAATGTTTTCTAAAACTATATAATAGAT
1 AATATTTTCAAAACTATATATTATTTTCAAAACG-TTTCTAAAACTATATAATAGAT
*
2441257 AATATTTTTTAAAACTATATATTATTTTCAAAACGTTTCTAAAACTATAT-ATA-AT
1 AATA-TTTTCAAAACTATATATTATTTTCAAAACGTTTCTAAAACTATATAATAGAT
*
2441312 -AT-TTTTCAAAGCTAT
1 AATATTTTCAAAACTAT
2441327 TTTAAAACTA
Statistics
Matches: 63, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
52 11 0.17
54 2 0.03
55 2 0.03
56 3 0.05
57 19 0.30
58 26 0.41
ACGTcount: A:0.42, C:0.09, G:0.04, T:0.46
Consensus pattern (56 bp):
AATATTTTCAAAACTATATATTATTTTCAAAACGTTTCTAAAACTATATAATAGAT
Found at i:2441315 original size:32 final size:31
Alignment explanation
Indices: 2441266--2441339 Score: 89
Period size: 33 Copynumber: 2.4 Consensus size: 31
2441256 TAATATTTTT
2441266 TAAAACTATATATTA-TTTTCAAAACGT-TTC
1 TAAAACTATATATTATTTTTCAAAAC-TATTC
* *
2441296 TAAAACTATATATAATATTTTTCAAAGCTATTT
1 TAAAACTATATAT--TATTTTTCAAAACTATTC
2441329 TAAAACTATAT
1 TAAAACTATAT
2441340 TTTTCCAAGA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
30 13 0.34
32 3 0.08
33 22 0.58
ACGTcount: A:0.43, C:0.11, G:0.03, T:0.43
Consensus pattern (31 bp):
TAAAACTATATATTATTTTTCAAAACTATTC
Found at i:2441333 original size:33 final size:30
Alignment explanation
Indices: 2441185--2441339 Score: 102
Period size: 30 Copynumber: 5.1 Consensus size: 30
2441175 CCTATATAAC
* * ** * *
2441185 ATATAATATTTTTAAAATATTTTCAAAATT
1 ATATATTATTTTCAAAACGTTTTTAAAACT
* *
2441215 ATATATTGTTTTCAAAATGTTTTCTAAAACT
1 ATATATTATTTTCAAAACGTTTT-TAAAACT
* ** * *
2441246 ATATAATA-GAT-AATA-TTTTTTAAAACT
1 ATATATTATTTTCAAAACGTTTTTAAAACT
*
2441273 ATATATTATTTTCAAAACGTTTCTAAAACT
1 ATATATTATTTTCAAAACGTTTTTAAAACT
*
2441303 ATATATAATATTTTTCAAAGC-TATTTTAAAACT
1 ATATAT--TA-TTTTCAAAACGT-TTTTAAAACT
2441336 ATAT
1 ATAT
2441340 TTTTCCAAGA
Statistics
Matches: 97, Mismatches: 20, Indels: 13
0.75 0.15 0.10
Matches are distributed among these distances:
27 14 0.14
28 5 0.05
29 6 0.06
30 36 0.37
31 11 0.11
32 3 0.03
33 22 0.23
ACGTcount: A:0.43, C:0.08, G:0.03, T:0.46
Consensus pattern (30 bp):
ATATATTATTTTCAAAACGTTTTTAAAACT
Found at i:2441491 original size:16 final size:17
Alignment explanation
Indices: 2441472--2441510 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
2441462 ATTTTTAAAA
*
2441472 AAAATAATTGGATGAC-
1 AAAATAATTGAATGACT
2441488 AAAATAATTGAATGACT
1 AAAATAATTGAATGACT
2441505 AAAATA
1 AAAATA
2441511 GAATAATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 15 0.71
17 6 0.29
ACGTcount: A:0.56, C:0.05, G:0.13, T:0.26
Consensus pattern (17 bp):
AAAATAATTGAATGACT
Found at i:2443256 original size:63 final size:64
Alignment explanation
Indices: 2443155--2443280 Score: 182
Period size: 63 Copynumber: 2.0 Consensus size: 64
2443145 CTTCGCTTTG
** * *
2443155 CTCTTCCTTTTCATATTCATCTTCTATTTCCGGTTGACTGTTCAATTTCTCTTCATC-TCCTTC
1 CTCTTCCTTTTCATATTCATCACCTATTTCCAGCTGACTGTTCAATTTCTCTTCATCTTCCTTC
* * *
2443218 CTCTTCCTTTTCATCTTCATCACCTATTTCCAGCTGACTGTTCGATTTCTCTTCTTCTTCCTT
1 CTCTTCCTTTTCATATTCATCACCTATTTCCAGCTGACTGTTCAATTTCTCTTCATCTTCCTT
2443281 GTCAGGCTCT
Statistics
Matches: 55, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
63 50 0.91
64 5 0.09
ACGTcount: A:0.12, C:0.32, G:0.06, T:0.50
Consensus pattern (64 bp):
CTCTTCCTTTTCATATTCATCACCTATTTCCAGCTGACTGTTCAATTTCTCTTCATCTTCCTTC
Found at i:2444120 original size:14 final size:14
Alignment explanation
Indices: 2444101--2444156 Score: 58
Period size: 14 Copynumber: 3.9 Consensus size: 14
2444091 CCCTTTTACC
*
2444101 AAATAGAGTTCTAG
1 AAATAGACTTCTAG
* *
2444115 AAATAGACTTTTACC
1 AAATAGACTTCTA-G
* *
2444130 AAGTAGAGTTCTAG
1 AAATAGACTTCTAG
2444144 AAATAGACTTCTA
1 AAATAGACTTCTA
2444157 ACATGTGGTT
Statistics
Matches: 32, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
14 22 0.69
15 10 0.31
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.30
Consensus pattern (14 bp):
AAATAGACTTCTAG
Found at i:2444136 original size:29 final size:29
Alignment explanation
Indices: 2444093--2444153 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
2444083 TTTCTCCCCC
2444093 CTTTTACCAAATAGAGTTCTAGAAATAGA
1 CTTTTACCAAATAGAGTTCTAGAAATAGA
*
2444122 CTTTTACCAAGTAGAGTTCTAGAAATAGA
1 CTTTTACCAAATAGAGTTCTAGAAATAGA
2444151 CTT
1 CTT
2444154 CTAACATGTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.33
Consensus pattern (29 bp):
CTTTTACCAAATAGAGTTCTAGAAATAGA
Found at i:2446947 original size:23 final size:23
Alignment explanation
Indices: 2446912--2446956 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
2446902 AGCCTTAAAA
* * *
2446912 TAAGGCTGCCTTATAGTAGAACC
1 TAAGGATGCCTTACAGCAGAACC
*
2446935 TAAGGATGGCTTACAGCAGAAC
1 TAAGGATGCCTTACAGCAGAAC
2446957 TGTAACATCC
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.22
Consensus pattern (23 bp):
TAAGGATGCCTTACAGCAGAACC
Found at i:2448347 original size:20 final size:19
Alignment explanation
Indices: 2448310--2448349 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
2448300 GTGTTCCATG
**
2448310 AGCTATGTGAATGTATATA
1 AGCTATGTGAATAAATATA
2448329 AGCTATGTGGAATAAATATA
1 AGCTATGT-GAATAAATATA
2448349 A
1 A
2448350 AGGATTGTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.42, C:0.05, G:0.20, T:0.33
Consensus pattern (19 bp):
AGCTATGTGAATAAATATA
Found at i:2450092 original size:16 final size:17
Alignment explanation
Indices: 2450063--2450098 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
2450053 AAATTTTAGT
2450063 TGTTTTGTAAAAGTAAA
1 TGTTTTGTAAAAGTAAA
*
2450080 TGTTTTG-AAAAGTTAA
1 TGTTTTGTAAAAGTAAA
2450096 TGT
1 TGT
2450099 GACACCTATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.36, C:0.00, G:0.19, T:0.44
Consensus pattern (17 bp):
TGTTTTGTAAAAGTAAA
Found at i:2450575 original size:15 final size:16
Alignment explanation
Indices: 2450555--2450587 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
2450545 ATCCCCTTTA
2450555 ATAGG-AGATAAAAAC
1 ATAGGAAGATAAAAAC
*
2450570 ATAGGAAGATGAAAAC
1 ATAGGAAGATAAAAAC
2450586 AT
1 AT
2450588 TTCATCTTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.58, C:0.06, G:0.21, T:0.15
Consensus pattern (16 bp):
ATAGGAAGATAAAAAC
Found at i:2452821 original size:13 final size:14
Alignment explanation
Indices: 2452803--2452831 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
2452793 TTTTAAACGT
2452803 ATAAATGTA-AATG
1 ATAAATGTATAATG
2452816 ATAAATGTATAATG
1 ATAAATGTATAATG
2452830 AT
1 AT
2452832 GAACGTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.52, C:0.00, G:0.14, T:0.34
Consensus pattern (14 bp):
ATAAATGTATAATG
Found at i:2454917 original size:15 final size:17
Alignment explanation
Indices: 2454898--2454932 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
2454888 GCTTAAGAAC
*
2454898 AAAA-AGTTTGAGGACT
1 AAAAGAGTTTAAGGACT
2454914 AAAAGAGTTTAAGGACT
1 AAAAGAGTTTAAGGACT
2454931 AA
1 AA
2454933 TTAATGAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.49, C:0.06, G:0.23, T:0.23
Consensus pattern (17 bp):
AAAAGAGTTTAAGGACT
Found at i:2454928 original size:17 final size:16
Alignment explanation
Indices: 2454885--2454932 Score: 53
Period size: 17 Copynumber: 3.0 Consensus size: 16
2454875 TGAGAATTCT
* *
2454885 AAAGCTTAAGAAC-AA
1 AAAGTTTAAGGACTAA
*
2454900 AAAGTTTGAGGACTAA
1 AAAGTTTAAGGACTAA
2454916 AAGAGTTTAAGGACTAA
1 AA-AGTTTAAGGACTAA
2454933 TTAATGAATC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
15 10 0.37
16 4 0.15
17 13 0.48
ACGTcount: A:0.50, C:0.08, G:0.21, T:0.21
Consensus pattern (16 bp):
AAAGTTTAAGGACTAA
Found at i:2456887 original size:204 final size:204
Alignment explanation
Indices: 2456535--2456928 Score: 664
Period size: 204 Copynumber: 1.9 Consensus size: 204
2456525 TATCTAATGC
*
2456535 TACAAAATTAATAATATGGAAATTAAGGAACTCCATTTATAAGTTCAAGTATTACTCTCGTTAAT
1 TACAAAATTAATAATATGGAAACTAAGGAACTCCATTTATAAGTTCAAGTATTACTCTCGTTAAT
* * *
2456600 TGTATAACAAACTTCACCAATTAATTATCTCGTTTGGTTTTGAGATGAATTTGGTTGACAACTGT
66 TGTATAACAAACTTCACCAAGTAATTATCTCGTTTGATTTTAAGATGAATTTGGTTGACAACTGT
* *
2456665 ATATATTATAATTTCAGTGGGGGTTAACCAAATAATACACCTTATTGCTAAAGGAACCAAATAAT
131 ATATATTATAAGTTCAGTGGGAGTTAACCAAATAATACACCTTATTGCTAAAGGAACCAAATAAT
2456730 ACCCCTTAT
196 ACCCCTTAT
* *
2456739 TACAAAATTAATAATATGGAAACTAAGGGAA-TCCATTTATAAGTTCAAGTATTGCTCTTGTTAA
1 TACAAAATTAATAATATGGAAACTAA-GGAACTCCATTTATAAGTTCAAGTATTACTCTCGTTAA
* * *
2456803 TTGTATAACAAACTTCTCTAAGTAATTATCTCGTTTGATTTTAAGATGAATTTGGTTGATAACTG
65 TTGTATAACAAACTTCACCAAGTAATTATCTCGTTTGATTTTAAGATGAATTTGGTTGACAACTG
*
2456868 TATATATTATAAGTTCAGTGGGAGTTAACCAAATAATACCCCTTATTGCTAAAGGAACCAA
130 TATATATTATAAGTTCAGTGGGAGTTAACCAAATAATACACCTTATTGCTAAAGGAACCAA
2456929 GTTTAGTCTT
Statistics
Matches: 177, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
204 173 0.98
205 4 0.02
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.36
Consensus pattern (204 bp):
TACAAAATTAATAATATGGAAACTAAGGAACTCCATTTATAAGTTCAAGTATTACTCTCGTTAAT
TGTATAACAAACTTCACCAAGTAATTATCTCGTTTGATTTTAAGATGAATTTGGTTGACAACTGT
ATATATTATAAGTTCAGTGGGAGTTAACCAAATAATACACCTTATTGCTAAAGGAACCAAATAAT
ACCCCTTAT
Found at i:2458514 original size:2 final size:2
Alignment explanation
Indices: 2458507--2458535 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2458497 TGTATGTATG
2458507 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2458536 CATGTTTTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2460085 original size:26 final size:26
Alignment explanation
Indices: 2460036--2460086 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
2460026 AGCATTAATC
**
2460036 ATGATATTATTCATTATATTATTTTT
1 ATGATATTATTCACCATATTATTTTT
*
2460062 ATGATATTATT-ACCATATTAATTTT
1 ATGATATTATTCACCATATTATTTTT
2460087 GACCTTTCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 11 0.50
26 11 0.50
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.57
Consensus pattern (26 bp):
ATGATATTATTCACCATATTATTTTT
Found at i:2460322 original size:45 final size:45
Alignment explanation
Indices: 2460271--2460372 Score: 116
Period size: 45 Copynumber: 2.3 Consensus size: 45
2460261 TAATCCAAAG
* * *
2460271 CTTTTGATTATT-AGAATGACAAAAGTAAAATAAAAGGATTAGTTT
1 CTTTTGATTATTAAG-ATGACAAAAGTAAAACAAAAGAATTAGTTA
* * * * *
2460316 CTTTTGATTTTTAAGTTGTCAAAAGTAAAACCAAAGAATTCGTTA
1 CTTTTGATTATTAAGATGACAAAAGTAAAACAAAAGAATTAGTTA
2460361 CTTTTGATTATT
1 CTTTTGATTATT
2460373 GTGCTGCGAA
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
45 45 0.96
46 2 0.04
ACGTcount: A:0.38, C:0.08, G:0.14, T:0.40
Consensus pattern (45 bp):
CTTTTGATTATTAAGATGACAAAAGTAAAACAAAAGAATTAGTTA
Found at i:2460461 original size:45 final size:44
Alignment explanation
Indices: 2460291--2460485 Score: 135
Period size: 45 Copynumber: 4.3 Consensus size: 44
2460281 TTAGAATGAC
* * * * * *
2460291 AAAAGTAAAATAAAAGGATTAGTTTC-TTTTGATTTTTAAGTTGTC
1 AAAATTAAAATCAAATGATTAG-TTCATTTTGATTATT-GGTTGTG
* * * * *
2460336 AAAAGTAAAACCAAA-GAATTCGTT-ACTTTTGATTATTGTGCTGCG
1 AAAATTAAAATCAAATG-ATTAGTTCA-TTTTGATTATTG-GTTGTG
* ***
2460381 AAAATTAAAATCAAATGATTAGTTCCTTCCAATTATTGGATTGTG
1 AAAATTAAAATCAAATGATTAGTTCATTTTGATTATTGG-TTGTG
* * *
2460426 AAAATTACAATCAAATGATTATTTCATTTTGATTATTGGGTTGTT
1 AAAATTAAAATCAAATGATTAGTTCATTTTGATTATT-GGTTGTG
*
2460471 AAAATTAAAAGCAAA
1 AAAATTAAAATCAAA
2460486 ATTCCTTTTG
Statistics
Matches: 116, Mismatches: 26, Indels: 16
0.73 0.16 0.10
Matches are distributed among these distances:
44 4 0.03
45 109 0.94
46 3 0.03
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.38
Consensus pattern (44 bp):
AAAATTAAAATCAAATGATTAGTTCATTTTGATTATTGGTTGTG
Found at i:2460726 original size:58 final size:57
Alignment explanation
Indices: 2460632--2460975 Score: 304
Period size: 58 Copynumber: 5.9 Consensus size: 57
2460622 TTTTATCATC
* *
2460632 AGAATCTTGAATTGATTCTAACTTCATAAGGAAAATAAATTGTTGAATTTATTTCCTTA
1 AGAATCTT-AAATGATTCTAACTTTATAA-GAAAATAAATTGTTGAATTTATTTCCTTA
* * *
2460691 AGAATCTTAAATGATTCTAATTTTTTAATGAAAATAAATAGTTGAATTTATTTCC-TA
1 AGAATCTTAAATGATTCTAACTTTATAA-GAAAATAAATTGTTGAATTTATTTCCTTA
* * * **
2460748 GAGAATCTTAAATAATTCTAACTTTGTAAGAAAAATAAATAGTTGAATTTATTTATTTA
1 -AGAATCTTAAATGATTCTAACTTTATAAG-AAAATAAATTGTTGAATTTATTTCCTTA
** * * *
2460807 AGAATCTTGGATTATTCTAACTTTGTAAGAAAAATAAATCAT-TTG-ATTTATTTCCTTG
1 AGAATCTTAAATGATTCTAACTTTATAAG-AAAATAAAT--TGTTGAATTTATTTCCTTA
* * * * *
2460865 ATAATCTTGAATGATTCTAAAC-TTATAAGAAAAATAAATAGTTGATTTTATTTTCTTA
1 AGAATCTTAAATGATTCT-AACTTTATAAG-AAAATAAATTGTTGAATTTATTTCCTTA
* * * * *
2460923 ATAATTTTAAATGATTCT-A-TTTCATAGAAGGAAACAAATTGTTAAATTTATTT
1 AGAATCTTAAATGATTCTAACTTT-AT--AAGAAAATAAATTGTTGAATTTATTT
2460976 TCTTGATAAC
Statistics
Matches: 240, Mismatches: 33, Indels: 25
0.81 0.11 0.08
Matches are distributed among these distances:
56 3 0.01
57 8 0.03
58 210 0.88
59 19 0.08
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.42
Consensus pattern (57 bp):
AGAATCTTAAATGATTCTAACTTTATAAGAAAATAAATTGTTGAATTTATTTCCTTA
Found at i:2460811 original size:116 final size:115
Alignment explanation
Indices: 2460632--2460941 Score: 365
Period size: 116 Copynumber: 2.7 Consensus size: 115
2460622 TTTTATCATC
* * * * *
2460632 AGAATCTTGAATTGATTCTAACTTCATAAGGAAAATAAATTGTTGAATTTATTTCCTTAAGAATC
1 AGAATCTT-AAATGATTCTAACTTTATAAGAAAAATAAATAGTTGAATTTATTT-TTTAAGAATC
* *
2460697 TTAAATGATTCTAATTTTTTAATG-AAAATAAAT-AGTTGAATTTATTTCCTAG
64 TTAAATGATTCTAACTTTGTAA-GAAAAATAAATCAGTTG-ATTTATTTCCTAG
* *
2460749 AGAATCTTAAATAATTCTAACTTTGTAAGAAAAATAAATAGTTGAATTTATTTATTTAAGAATCT
1 AGAATCTTAAATGATTCTAACTTTATAAGAAAAATAAATAGTTGAATTTATTT-TTTAAGAATCT
** * * *
2460814 TGGATTATTCTAACTTTGTAAGAAAAATAAATCATTTGATTTATTTCCTTG
65 TAAATGATTCTAACTTTGTAAGAAAAATAAATCAGTTGATTTATTTCCTAG
* * * * *
2460865 ATAATCTTGAATGATTCTAAAC-TTATAAGAAAAATAAATAGTTGATTTTATTTTCTTAATAATT
1 AGAATCTTAAATGATTCT-AACTTTATAAGAAAAATAAATAGTTGAATTTATTTT-TTAAGAATC
2460929 TTAAATGATTCTA
64 TTAAATGATTCTA
2460942 TTTCATAGAA
Statistics
Matches: 164, Mismatches: 25, Indels: 9
0.83 0.13 0.05
Matches are distributed among these distances:
115 2 0.01
116 147 0.90
117 15 0.09
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.43
Consensus pattern (115 bp):
AGAATCTTAAATGATTCTAACTTTATAAGAAAAATAAATAGTTGAATTTATTTTTTAAGAATCTT
AAATGATTCTAACTTTGTAAGAAAAATAAATCAGTTGATTTATTTCCTAG
Found at i:2460972 original size:116 final size:114
Alignment explanation
Indices: 2460634--2460984 Score: 352
Period size: 116 Copynumber: 3.0 Consensus size: 114
2460624 TTATCATCAG
* * *
2460634 AATCTTGAATTGATTCTAACTTCATAAGGAAAATAAATTGTTGAATTTATTTCCTTAAGAATCTT
1 AATCTTGAA-TGATTCTAACTT-ATAAGAAAAATAAATAGTTGAATTTATTTTCTTAAGAATCTT
* * * * *
2460699 AAATGATTCTAATTTTTTA-ATGAAAATAAATAGTTGAATTTATTTCCTAGAG
64 AAATGATTCTAA-TTTATAGAAG-AAATAAATAGTTAAATTTATTTCCTTGAT
* * *
2460751 AATCTTAAATAATTCTAACTTTGTAAGAAAAATAAATAGTTGAATTTATTTAT-TTAAGAATCTT
1 AATCTTGAATGATTCTAAC-TTATAAGAAAAATAAATAGTTGAATTTATTT-TCTTAAGAATCTT
** * * **
2460815 GGATTATTCTAACTTTGTAAGAA-AAATAAATCA-TTTGATTTATTTCCTTGAT
64 AAATGATTCTAA-TTTAT-AGAAGAAATAAAT-AGTTAAATTTATTTCCTTGAT
* * *
2460867 AATCTTGAATGATTCTAAACTTATAAGAAAAATAAATAGTTGATTTTATTTTCTTAATAATTTTA
1 AATCTTGAATGATTCT-AACTTATAAGAAAAATAAATAGTTGAATTTATTTTCTTAAGAATCTTA
* * *
2460932 AATGATTCT-ATTTCATAGAAGGAAACAAATTGTTAAATTTATTTTCTTGAT
65 AATGATTCTAATTT-ATAGAA-GAAATAAATAGTTAAATTTATTTCCTTGAT
2460983 AA
1 AA
2460985 CCTAAATAAT
Statistics
Matches: 192, Mismatches: 31, Indels: 23
0.78 0.13 0.09
Matches are distributed among these distances:
114 7 0.04
115 3 0.02
116 166 0.86
117 15 0.08
118 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.43
Consensus pattern (114 bp):
AATCTTGAATGATTCTAACTTATAAGAAAAATAAATAGTTGAATTTATTTTCTTAAGAATCTTAA
ATGATTCTAATTTATAGAAGAAATAAATAGTTAAATTTATTTCCTTGAT
Found at i:2460973 original size:174 final size:175
Alignment explanation
Indices: 2460632--2460975 Score: 398
Period size: 174 Copynumber: 2.0 Consensus size: 175
2460622 TTTTATCATC
*
2460632 AGAATCTTGAATTGATTCTAACTTCATAAGGAAAATAAATTGTTGAATTTATTTCCTTAAGAATC
1 AGAATCTTGAATTGATTCTAACTTCATAAGAAAAATAAATTGTTGAATTTATTTCCTTAAGAATC
** *
2460697 TTAAATGATTCTAATTTTTTAATGAAAATAAATAGTTGAATTTATTTCCTAGAGAATCTTAAATA
66 TTAAATGATTCTAAACTTATAATGAAAATAAATAGTTGAATTTATTTCCTAGAGAATCTTAAATA
* * *
2460762 ATTCTAACTTTGTAAGAAAAATAAATAGTTGAATTTATTTATTTA
131 ATTCTAACTTTATAAGAAAAACAAATAGTTAAATTTATTTATTTA
* ** * *
2460807 AGAATCTTGGATT-ATTCTAACTTTGTAAGAAAAATAAATCAT-TTG-ATTTATTTCCTTGATAA
1 AGAATCTTGAATTGATTCTAACTTCATAAGAAAAATAAAT--TGTTGAATTTATTTCCTTAAGAA
* * * * *
2460869 TCTTGAATGATTCTAAACTTATAA-GAAAAATAAATAGTTGATTTTATTTTCTTA-ATAATTTTA
64 TCTTAAATGATTCTAAACTTATAATG-AAAATAAATAGTTGAATTTA-TTTCCTAGAGAATCTTA
* *
2460932 AATGATTCT-A-TTTCAT-AGAAGGAAACAAATTGTTAAATTTATTT
127 AATAATTCTAACTTT-ATAAGAA--AAACAAATAGTTAAATTTATTT
2460976 TCTTGATAAC
Statistics
Matches: 143, Mismatches: 19, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
172 7 0.05
173 3 0.02
174 111 0.78
175 21 0.15
176 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.42
Consensus pattern (175 bp):
AGAATCTTGAATTGATTCTAACTTCATAAGAAAAATAAATTGTTGAATTTATTTCCTTAAGAATC
TTAAATGATTCTAAACTTATAATGAAAATAAATAGTTGAATTTATTTCCTAGAGAATCTTAAATA
ATTCTAACTTTATAAGAAAAACAAATAGTTAAATTTATTTATTTA
Found at i:2460976 original size:58 final size:57
Alignment explanation
Indices: 2460911--2461035 Score: 153
Period size: 57 Copynumber: 2.2 Consensus size: 57
2460901 AATAGTTGAT
** * *
2460911 TTTATTTTCTTAATAATTTTAAATGATTCTA-TTTCATAGAAGGAAACAAATTGTTAAA
1 TTTATTTTCTTAATAA-CCTAAATAATTATATTTTCATA-AAGGAAACAAATTGTTAAA
* ** *
2460969 TTTATTTTCTTGATAACCTAAATAATTATATTTTGTTAAAGGAAATAAATTGTTAAA
1 TTTATTTTCTTAATAACCTAAATAATTATATTTTCATAAAGGAAACAAATTGTTAAA
2461026 TTTATTTTCT
1 TTTATTTTCT
2461036 CTAGAGTGTT
Statistics
Matches: 58, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
57 38 0.66
58 20 0.34
ACGTcount: A:0.38, C:0.06, G:0.08, T:0.48
Consensus pattern (57 bp):
TTTATTTTCTTAATAACCTAAATAATTATATTTTCATAAAGGAAACAAATTGTTAAA
Found at i:2461165 original size:39 final size:38
Alignment explanation
Indices: 2461072--2461260 Score: 207
Period size: 39 Copynumber: 4.8 Consensus size: 38
2461062 CTATCTTTTA
* *
2461072 AAAAGGAAATAAATCGTTGAATTTTATTTTTCTAGTTTAT
1 AAAAGGAAATAAATCGTTGAA-TTTA-TTTTCTATTTTGT
* * * *
2461112 AAAAGAAAATAAATCATTGAATTTAATTTTATGTTTTGT
1 AAAAGGAAATAAATCGTTGAATTT-ATTTTCTATTTTGT
*
2461151 AAAAGGAAATAAATCGTTGGATTTATTTTCTTATTTTGT
1 AAAAGGAAATAAATCGTTGAATTTATTTTC-TATTTTGT
* ** *
2461190 AAAAAGAAATAAATTATTGGATTTATTTTCCTATTTTGT
1 AAAAGGAAATAAATCGTTGAATTTATTTT-CTATTTTGT
* *
2461229 AAAAGGAAATAACTTGTTGAATTTTATTTTCT
1 AAAAGGAAATAAATCGTTGAA-TTTATTTTCT
2461261 TGATAATCTT
Statistics
Matches: 127, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
38 5 0.04
39 93 0.73
40 29 0.23
ACGTcount: A:0.38, C:0.05, G:0.12, T:0.45
Consensus pattern (38 bp):
AAAAGGAAATAAATCGTTGAATTTATTTTCTATTTTGT
Found at i:2461227 original size:78 final size:79
Alignment explanation
Indices: 2461072--2461261 Score: 244
Period size: 78 Copynumber: 2.4 Consensus size: 79
2461062 CTATCTTTTA
2461072 AAAAGGAAATAAATCGTTGAATTTTATTTT-TCTAGTTTATAAAAGAAAATAAATCATTGAATTT
1 AAAAGGAAATAAATCGTTGAATTTTATTTTCT-TAGTTTATAAAAGAAAATAAATCATTGAATTT
*
2461136 AATTTTATGTTTTGT
65 AATTTTATATTTTGT
* * * * *
2461151 AAAAGGAAATAAATCGTTGGA-TTTATTTTCTTATTTTGTAAAA-AGAAATAAATTATTGGATTT
1 AAAAGGAAATAAATCGTTGAATTTTATTTTCTTAGTTTATAAAAGA-AAATAAATCATTGAATTT
*
2461214 -ATTTTCCTATTTTGT
65 AATTTT-ATATTTTGT
* *
2461229 AAAAGGAAATAACTTGTTGAATTTTATTTTCTT
1 AAAAGGAAATAAATCGTTGAATTTTATTTTCTT
2461262 GATAATCTTA
Statistics
Matches: 97, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
77 6 0.06
78 59 0.61
79 32 0.33
ACGTcount: A:0.38, C:0.05, G:0.12, T:0.45
Consensus pattern (79 bp):
AAAAGGAAATAAATCGTTGAATTTTATTTTCTTAGTTTATAAAAGAAAATAAATCATTGAATTTA
ATTTTATATTTTGT
Found at i:2466712 original size:703 final size:705
Alignment explanation
Indices: 2465492--2466904 Score: 2212
Period size: 703 Copynumber: 2.0 Consensus size: 705
2465482 TGCAATGGTA
* * *
2465492 ATAAAATGTCTAAATGGATTGTATTAGACTAGATATTGCTTTCACTATGAGTAGTTTAAGCAGAC
1 ATAAAATGTCTAAATGGATTGTATTAGACTAGATATTGCTTTCACTATGAGCAATTTAAGAAGAC
* * *
2465557 TCACATGATGTTTAAGGTTAAACTTTTGAAAAATGATTGTGAGAGAATTGAGGTATTTCAAATAT
66 TCACATGATATTCAAGGTTAAACTTTTGAAAAATGATTGTGAGAGAATTGAGATATTTCAAATAT
* * * *
2465622 GCTCAAGATCATGAATTGCATTATTCCATAAATATATTCTTATGCTAATTGAATATCTTATATTC
131 GCTCAAGATCATGAATTGCATTATTCCATAAAGATACTCTTATACTAATTGAATATCATATATTC
* * * *
2465687 AAGATATCAAAGGCGCAAATGAATATTCTTTACATTGAAAAGATAAGTCGTGTCATGAAGTTCCT
196 AAGATATCAAAGGCACAAATGAATATGCTTTACATTGAAAAGATAAGTCATGTCATGAAGATCCT
* * * *
2465752 TAAGAAAATGGTTATAAATTAATCCATAATTGAATCTAAGCTTGTAGCTTTAAACAAGTCTAGAG
261 TAAGAAAATGGTTATAAACTAATCCATAATGGAATCTAAGCATGTAGCTCTAAACAAGTCTAGAG
* * *
2465817 AATAAGTTGAATAACTTTAGAATTTCTTGGAGGATATTCTTAAATGACCAAAGTGTGTGCCTACA
326 AACAAGTTGAAAAACTTTAGAATTTCTTGGACGATATTCTTAAATGACCAAAGTGTGTGCCTACA
*
2465882 ATATTCATATACTGAAACACACGAAACTAATAGAACACAAAACTTTATATATAATGGTAAGTCGA
391 ATATTCATATACTGAAACAAACGAAACTAATAGAACACAAAACTTTATATATAATGGTAAGTCGA
* *
2465947 GATATATGCATCATCGACATGATACCATTAGAGAACTAATCTCAAAGAGAGTTATTTCTATTGAT
456 GATATATGCATCATCGACACGATACCATTAGAGAACTAATCTCAAAGAGAGTTATCTCTATTGAT
* *
2466012 TTTGTAAGATCAAAGGATAACATC-TCAGATCCA-TAAACCAAAGGGTTAAATTGAGATCAAGTT
521 TTCGTAAAATCAAAGGATAACATCGT-AGATCCACT-AACCAAAGGGTTAAATTGAGATCAAGTT
2466075 GAGAAAACATCTAAAGGAATAAGACTAAAGCCCATGAAATTTA-A-ATTTTACATATGAAGAAAA
584 GAGAAAACATCTAAAGGAATAAGACTAAAGCCCATGAAATTTACAGATTTT--ATATGAAGAAAA
* *
2466138 ATCCTACCTAGTTGACTGGAGAT-CCCAATATCTAGGTTCAAATGGACAACCTAATTGC
647 ATCCTACCTAGTTGACTGGAGATCCCCAAGATCTAGGTTCAAAAGGACAACCTAATTGC
* *
2466196 ATAAAATGTCTAAATGGATTGTATTAGACTAGATATTGCTTTCACTATGAGCAATTTAAGAATAT
1 ATAAAATGTCTAAATGGATTGTATTAGACTAGATATTGCTTTCACTATGAGCAATTTAAGAAGAC
*
2466261 TCACATGCTATTCAAGGTTAAACTTTTGAAAAATGATTGTGAGAGAATTGAGATATTTCAAATAT
66 TCACATGATATTCAAGGTTAAACTTTTGAAAAATGATTGTGAGAGAATTGAGATATTTCAAATAT
* * *
2466326 GCTCAAGTTCATGAATTTCATTATTCCATAAAGATACTCTTATACTAGTTGAATATCATATATTC
131 GCTCAAGATCATGAATTGCATTATTCCATAAAGATACTCTTATACTAATTGAATATCATATATTC
* * *
2466391 AAGATATCAAAGGCATAAATGAATATGCTTTACATT-AGAAAGATGAGTCATGTTATGAAGATCC
196 AAGATATCAAAGGCACAAATGAATATGCTTTACATTGA-AAAGATAAGTCATGTCATGAAGATCC
* * *
2466455 TTGAGAAAATGGTTAT-AACTAGA-CCATAATGGAATCTAAGCATGTAGCTCTAGACAAGTCTGG
260 TTAAGAAAATGGTTATAAACTA-ATCCATAATGGAATCTAAGCATGTAGCTCTAAACAAGTCTAG
*
2466518 AGAACAAGTTGAAAAACTTTAGAATTTCTTGGACGATATTCTTGAATGACCAAAGTGTGTGCCTA
324 AGAACAAGTTGAAAAACTTTAGAATTTCTTGGACGATATTCTTAAATGACCAAAGTGTGTGCCTA
* *
2466583 CAATATTCATATACTGAAACAAACGAAATTAATAGAACACAAAACTTTATGTATAATGGTAAGTC
389 CAATATTCATATACTGAAACAAACGAAACTAATAGAACACAAAACTTTATATATAATGGTAAGTC
* * *
2466648 GAGATATATGCATCTTCGACACGATACCATTAGAGAACTGATCTCAAAGGGAGTTATCTCTATTG
454 GAGATATATGCATCATCGACACGATACCATTAGAGAACTAATCTCAAAGAGAGTTATCTCTATTG
* *
2466713 ATTTCGTAAAATCAAAGGATAACATCGTGGATCCACTAACGAAAGGGTTAAATTGAGATCAAGTT
519 ATTTCGTAAAATCAAAGGATAACATCGTAGATCCACTAACCAAAGGGTTAAATTGAGATCAAGTT
* * * *
2466778 GAGAAAACATTTAAAGGAATAAGACTAAATCCCATGAAATTTACAGGTTTTATGTGAAGAAAAAT
584 GAGAAAACATCTAAAGGAATAAGACTAAAGCCCATGAAATTTACAGATTTTATATGAAGAAAAAT
* * * *
2466843 CTTACCTAGTTGACTGGAGATCCCCAAGATCTAGGTTCAAAAGTATAACCTAATTTC
649 CCTACCTAGTTGACTGGAGATCCCCAAGATCTAGGTTCAAAAGGACAACCTAATTGC
2466900 ATAAA
1 ATAAA
2466905 TCATGTGCAA
Statistics
Matches: 646, Mismatches: 56, Indels: 14
0.90 0.08 0.02
Matches are distributed among these distances:
703 354 0.55
704 288 0.45
705 4 0.01
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.31
Consensus pattern (705 bp):
ATAAAATGTCTAAATGGATTGTATTAGACTAGATATTGCTTTCACTATGAGCAATTTAAGAAGAC
TCACATGATATTCAAGGTTAAACTTTTGAAAAATGATTGTGAGAGAATTGAGATATTTCAAATAT
GCTCAAGATCATGAATTGCATTATTCCATAAAGATACTCTTATACTAATTGAATATCATATATTC
AAGATATCAAAGGCACAAATGAATATGCTTTACATTGAAAAGATAAGTCATGTCATGAAGATCCT
TAAGAAAATGGTTATAAACTAATCCATAATGGAATCTAAGCATGTAGCTCTAAACAAGTCTAGAG
AACAAGTTGAAAAACTTTAGAATTTCTTGGACGATATTCTTAAATGACCAAAGTGTGTGCCTACA
ATATTCATATACTGAAACAAACGAAACTAATAGAACACAAAACTTTATATATAATGGTAAGTCGA
GATATATGCATCATCGACACGATACCATTAGAGAACTAATCTCAAAGAGAGTTATCTCTATTGAT
TTCGTAAAATCAAAGGATAACATCGTAGATCCACTAACCAAAGGGTTAAATTGAGATCAAGTTGA
GAAAACATCTAAAGGAATAAGACTAAAGCCCATGAAATTTACAGATTTTATATGAAGAAAAATCC
TACCTAGTTGACTGGAGATCCCCAAGATCTAGGTTCAAAAGGACAACCTAATTGC
Found at i:2469145 original size:78 final size:79
Alignment explanation
Indices: 2469012--2469170 Score: 302
Period size: 78 Copynumber: 2.0 Consensus size: 79
2469002 TCTAACTAGA
2469012 AACGGAGGAAATGAAGAAAAGAGAGAAAAACTTATCTTGCCTCCCTTTCTCACGTTTTCTTAAGG
1 AACGGAGGAAATGAAGAAAAGAGAGAAAAACTTATCTTGCCTCCCTTTCTCACGTTTTCTTAAGG
2469077 AAGAAGAAGAATAT
66 AAGAAGAAGAATAT
*
2469091 AACGGAGGAAATGAAGAAAAGAGAG-AAAACTTATCTTGCCTCTCTTTCTCACGTTTTCTTAAGG
1 AACGGAGGAAATGAAGAAAAGAGAGAAAAACTTATCTTGCCTCCCTTTCTCACGTTTTCTTAAGG
2469155 AAGAAGAAGAATAT
66 AAGAAGAAGAATAT
2469169 AA
1 AA
2469171 TCCTTTCATA
Statistics
Matches: 79, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
78 54 0.68
79 25 0.32
ACGTcount: A:0.41, C:0.14, G:0.20, T:0.25
Consensus pattern (79 bp):
AACGGAGGAAATGAAGAAAAGAGAGAAAAACTTATCTTGCCTCCCTTTCTCACGTTTTCTTAAGG
AAGAAGAAGAATAT
Found at i:2480707 original size:30 final size:29
Alignment explanation
Indices: 2480649--2480707 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
2480639 GATTAAAATA
** *
2480649 ATATATGGTCACTTTTATTTTTATTTAAT
1 ATATATGACCACTTTTATTTTTAGTTAAT
*
2480678 ATATATGACCACTTTTGTTTTTTAGTTAAT
1 ATATATGACCACTTTT-ATTTTTAGTTAAT
2480708 TAAGATGTGG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 14 0.56
30 11 0.44
ACGTcount: A:0.27, C:0.08, G:0.08, T:0.56
Consensus pattern (29 bp):
ATATATGACCACTTTTATTTTTAGTTAAT
Found at i:2480787 original size:183 final size:182
Alignment explanation
Indices: 2480475--2480832 Score: 517
Period size: 183 Copynumber: 2.0 Consensus size: 182
2480465 AAAAATATAC
* *
2480475 TCACTTTTGTTTTTATTTAATATATATGACCACTTTTGTTTTTATTTAATTAAGATATGGTCACT
1 TCACTTTTATTTTTATTTAATATATATGACCACTTTTGTTTTTAGTTAATTAAGATATGGTCACT
* * *
2480540 ACTGGTTAACTGTCGTTAATTAGGTGATGCGATATTTTAATATAATTACATATTGGCCCCCTATT
66 ACTGGTTAACTATCGTTAACTAGATGATGCGATATTTTAATATAATTACATATTGGCCCCCTATT
* *
2480605 ATTTTATTATCTCAATTTAGTATTAATTTTAATAGATTAAAATAATATATGG
131 ATTTTAGTATCTCAATTTAATATTAATTTTAATAGATTAAAATAATATATGG
*
2480657 TCACTTTTATTTTTATTTAATATATATGACCACTTTTGTTTTTTAGTTAATTAAGATGTGGTCAC
1 TCACTTTTATTTTTATTTAATATATATGACCACTTTTG-TTTTTAGTTAATTAAGATATGGTCAC
* * * * *
2480722 TTC-GAGTTAATTATCGTTGACTAGATGACATG-G-TATTTTACTATAATTATATATTTGG-CCC
65 TACTG-GTTAACTATCGTTAACTAGATG--ATGCGATATTTTAATATAATTACATA-TTGGCCCC
*
2480783 CTATTATTTTAGTATCTCAATTTAATATTACTTTTAATAGATTAAAATAA
126 CTATTATTTTAGTATCTCAATTTAATATTAATTTTAATAGATTAAAATAA
2480833 ATTAAAGGTA
Statistics
Matches: 157, Mismatches: 14, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
182 38 0.24
183 111 0.71
184 5 0.03
185 3 0.02
ACGTcount: A:0.31, C:0.11, G:0.11, T:0.47
Consensus pattern (182 bp):
TCACTTTTATTTTTATTTAATATATATGACCACTTTTGTTTTTAGTTAATTAAGATATGGTCACT
ACTGGTTAACTATCGTTAACTAGATGATGCGATATTTTAATATAATTACATATTGGCCCCCTATT
ATTTTAGTATCTCAATTTAATATTAATTTTAATAGATTAAAATAATATATGG
Found at i:2480958 original size:32 final size:33
Alignment explanation
Indices: 2480896--2480976 Score: 103
Period size: 32 Copynumber: 2.5 Consensus size: 33
2480886 TTTAGTCAAT
2480896 TAAG-ATAAAATATATACTTTAAAAAATTAAAA
1 TAAGAATAAAATATATACTTTAAAAAATTAAAA
* * *
2480928 TAATAATAAAATATAT-TTTTAAAAAGTTAAAA
1 TAAGAATAAAATATATACTTTAAAAAATTAAAA
* *
2480960 TGAGAATAATATATATA
1 TAAGAATAAAATATATA
2480977 TATATTTAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
32 30 0.73
33 11 0.27
ACGTcount: A:0.59, C:0.01, G:0.05, T:0.35
Consensus pattern (33 bp):
TAAGAATAAAATATATACTTTAAAAAATTAAAA
Found at i:2481044 original size:26 final size:25
Alignment explanation
Indices: 2481008--2481078 Score: 76
Period size: 25 Copynumber: 2.9 Consensus size: 25
2480998 ATTTTTAAAT
2481008 TAAGTTAATAATATAATATATTTAA
1 TAAGTTAATAATATAATATATTTAA
* *
2481033 TAAGTTATATAA-AAAATAT-TTTTA
1 TAAGTTA-ATAATATAATATATTTAA
*
2481057 T-AGTTAATATATATAAAATATT
1 TAAGTTAATA-ATATAATATATT
2481079 ATGAATTTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
22 3 0.08
23 6 0.16
24 10 0.26
25 15 0.39
26 4 0.11
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (25 bp):
TAAGTTAATAATATAATATATTTAA
Found at i:2489566 original size:2 final size:2
Alignment explanation
Indices: 2489559--2489593 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
2489549 GTGCAATTGT
2489559 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2489594 TTTGTATAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2489932 original size:31 final size:31
Alignment explanation
Indices: 2489890--2489952 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 31
2489880 GGGGGACTAA
2489890 GAAGGACAACCGGAAGAAATCGA-GAAGCGAT
1 GAAGGACAACCGGAAGAAATC-ATGAAGCGAT
* *
2489921 GAAGGATAACCGGAAGCAATCATGAAGCGAT
1 GAAGGACAACCGGAAGAAATCATGAAGCGAT
2489952 G
1 G
2489953 GGGACTGGAG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 1 0.03
31 28 0.97
ACGTcount: A:0.43, C:0.16, G:0.32, T:0.10
Consensus pattern (31 bp):
GAAGGACAACCGGAAGAAATCATGAAGCGAT
Found at i:2490743 original size:28 final size:27
Alignment explanation
Indices: 2490688--2490744 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 27
2490678 TAAATAAATT
* *
2490688 TAAAAATATTTAACTATTTATTTGATA
1 TAAAAATATTCAACTATTTATATGATA
2490715 TAAAAACTATTCAACTATTTAATAT-ATA
1 TAAAAA-TATTCAACTATTT-ATATGATA
2490743 TA
1 TA
2490745 TTAATAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
27 6 0.23
28 17 0.65
29 3 0.12
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.44
Consensus pattern (27 bp):
TAAAAATATTCAACTATTTATATGATA
Found at i:2494215 original size:27 final size:28
Alignment explanation
Indices: 2494177--2494241 Score: 105
Period size: 27 Copynumber: 2.4 Consensus size: 28
2494167 ATTATAGAAT
2494177 TACCCCTAAAGTGTAAAATGACC-AAAC
1 TACCCCTAAAGTGTAAAATGACCTAAAC
*
2494204 TACCCCTAAAGTGTAAAATGACCTAAAG
1 TACCCCTAAAGTGTAAAATGACCTAAAC
*
2494232 TACCTCTAAA
1 TACCCCTAAA
2494242 CCCTGGAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
27 23 0.66
28 12 0.34
ACGTcount: A:0.43, C:0.25, G:0.11, T:0.22
Consensus pattern (28 bp):
TACCCCTAAAGTGTAAAATGACCTAAAC
Found at i:2495171 original size:19 final size:19
Alignment explanation
Indices: 2495147--2495185 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
2495137 ATGGATGCTT
2495147 TCTCTGATTT-ATGTTCTGA
1 TCTCTGATTTGAT-TTCTGA
*
2495166 TCTCTGCTTTGATTTCTGA
1 TCTCTGATTTGATTTCTGA
2495185 T
1 T
2495186 ATCTCTGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 16 0.89
20 2 0.11
ACGTcount: A:0.13, C:0.18, G:0.15, T:0.54
Consensus pattern (19 bp):
TCTCTGATTTGATTTCTGA
Found at i:2495360 original size:66 final size:66
Alignment explanation
Indices: 2495248--2495371 Score: 167
Period size: 66 Copynumber: 1.9 Consensus size: 66
2495238 ATGAAGACTC
* * *
2495248 TGGCAGGTTCAGTCACTGAGGGTAATTCCTTATATAGGTTCTGCACCGATTGGTAATTCCTATCT
1 TGGCAGGTTCAGTCACTGAGGGCAATTCCTTATATAGGTTCAGCACCGACTGGTAATTCCTATCT
2495313 T
66 T
* ** * * *
2495314 TGGCAGGTTCAGTCGCTGTTGGCAATTTCTTTTATAGGTTGAGCACCGACTGGTAATT
1 TGGCAGGTTCAGTCACTGAGGGCAATTCCTTATATAGGTTCAGCACCGACTGGTAATT
2495372 TGTTATGGAC
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
66 49 1.00
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.36
Consensus pattern (66 bp):
TGGCAGGTTCAGTCACTGAGGGCAATTCCTTATATAGGTTCAGCACCGACTGGTAATTCCTATCT
T
Found at i:2495534 original size:13 final size:14
Alignment explanation
Indices: 2495511--2495544 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
2495501 AGGGACTACT
2495511 ATGGTTTTGAAAAC
1 ATGGTTTTGAAAAC
2495525 ATGG-TTTGAAAAC
1 ATGGTTTTGAAAAC
2495538 AT-GTTTT
1 ATGGTTTT
2495545 AAATGGTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 1 0.05
13 14 0.74
14 4 0.21
ACGTcount: A:0.32, C:0.06, G:0.21, T:0.41
Consensus pattern (14 bp):
ATGGTTTTGAAAAC
Found at i:2509568 original size:30 final size:29
Alignment explanation
Indices: 2509530--2509631 Score: 73
Period size: 31 Copynumber: 3.3 Consensus size: 29
2509520 AACTATTTAA
* *
2509530 AATATA-TTTATTAATATTTCTAATAATAT
1 AATATATTTTATTAATA-TTATAATAAAAT
*
2509559 AATATTATTTTTTTAATATTATAATAAAAT
1 AATA-TATTTTATTAATATTATAATAAAAT
* *
2509589 AATCA-ATTATATTATAATAATATAATATAAGAT
1 AAT-ATATTTTA-T-TAATATTATAATA-AA-AT
*
2509622 ATTATATTTT
1 AATATATTTT
2509632 TATTTTAATA
Statistics
Matches: 57, Mismatches: 8, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
29 8 0.14
30 16 0.28
31 22 0.39
32 3 0.05
33 8 0.14
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.50
Consensus pattern (29 bp):
AATATATTTTATTAATATTATAATAAAAT
Found at i:2509623 original size:23 final size:23
Alignment explanation
Indices: 2509574--2509627 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
2509564 TATTTTTTTA
**
2509574 ATATTATAATAAAATAATCAATT
1 ATATTATAATAAAATAATCAAAG
*
2509597 ATATTATAATAATATAAT-ATAAG
1 ATATTATAATAAAATAATCA-AAG
2509620 ATATTATA
1 ATATTATA
2509628 TTTTTATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 1 0.04
23 26 0.96
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (23 bp):
ATATTATAATAAAATAATCAAAG
Found at i:2509749 original size:27 final size:27
Alignment explanation
Indices: 2509669--2509754 Score: 70
Period size: 27 Copynumber: 3.1 Consensus size: 27
2509659 AATAAAATTT
* *
2509669 ATATTATTTAT-TAATTTCATAGAAATA
1 ATATTATTTATAT-ATTTAATATAAATA
* *
2509696 ATATTA-TTAAAGTA-TTAATAATGAATA
1 ATATTATTTATA-TATTTAAT-ATAAATA
2509723 ATATTATTTATATATTTAATATTAATATA
1 ATATTATTTATATATTTAATA-TAA-ATA
2509752 ATA
1 ATA
2509755 ATCTAATAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 12
0.72 0.09 0.19
Matches are distributed among these distances:
26 7 0.15
27 21 0.46
28 12 0.26
29 6 0.13
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (27 bp):
ATATTATTTATATATTTAATATAAATA
Found at i:2509795 original size:23 final size:22
Alignment explanation
Indices: 2509769--2509812 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
2509759 AATAATATTT
2509769 TAATAAAGATATTTAAAATATAC
1 TAATAAAGAT-TTTAAAATATAC
* *
2509792 TAATTAATATTTTAAAATATA
1 TAATAAAGATTTTAAAATATA
2509813 ATATAACACT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (22 bp):
TAATAAAGATTTTAAAATATAC
Found at i:2509944 original size:19 final size:17
Alignment explanation
Indices: 2509908--2509946 Score: 51
Period size: 19 Copynumber: 2.2 Consensus size: 17
2509898 TAATAAAATT
2509908 ATAAAAATAATAATTTA
1 ATAAAAATAATAATTTA
*
2509925 ATAATAAATAAATTATTTA
1 ATAA-AAAT-AATAATTTA
2509944 ATA
1 ATA
2509947 TTTTAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 4 0.21
19 11 0.58
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
ATAAAAATAATAATTTA
Found at i:2509945 original size:27 final size:27
Alignment explanation
Indices: 2509915--2509966 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
2509905 ATTATAAAAA
*
2509915 TAATAATTTAATAATAAATAA-ATTATT
1 TAATAATTTAAAAAT-AATAATATTATT
*
2509942 TAATATTTTAAAAATAATAATATTA
1 TAATAATTTAAAAATAATAATATTA
2509967 AATTTTATGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 5 0.23
27 17 0.77
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (27 bp):
TAATAATTTAAAAATAATAATATTATT
Found at i:2510095 original size:15 final size:15
Alignment explanation
Indices: 2510075--2510108 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
2510065 CGTAAAACAT
2510075 TTTTAAAAAAATATA
1 TTTTAAAAAAATATA
2510090 TTTT-AAAAAATATA
1 TTTTAAAAAAATATA
*
2510104 ATTTA
1 TTTTA
2510109 TTTTTACGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
TTTTAAAAAAATATA
Found at i:2512411 original size:6 final size:6
Alignment explanation
Indices: 2512400--2512425 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
2512390 TTTAATATTC
2512400 CTTCCT CTTCCT CTTCCT CTTCCT CT
1 CTTCCT CTTCCT CTTCCT CTTCCT CT
2512426 GCCCCTGCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (6 bp):
CTTCCT
Found at i:2514854 original size:2 final size:2
Alignment explanation
Indices: 2514847--2514878 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
2514837 ACTTTGCCTT
2514847 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2514879 CACACGAGAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2515869 original size:34 final size:34
Alignment explanation
Indices: 2515810--2515876 Score: 84
Period size: 34 Copynumber: 1.9 Consensus size: 34
2515800 ATTTAGAGAG
*
2515810 TTGTTTTCTCCTTTTTATCAAGAGAGAA-TTGTTA
1 TTGTTTTCTCCTTTTGATC-AGAGAGAAGTTGTTA
2515844 TTGTTTTCTCCTTGTTAGATC-GAGAGAAGTTGT
1 TTGTTTTCTCCTT-TT-GATCAGAGAGAAGTTGT
2515877 AATTCCTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
34 20 0.69
35 6 0.21
36 3 0.10
ACGTcount: A:0.21, C:0.12, G:0.19, T:0.48
Consensus pattern (34 bp):
TTGTTTTCTCCTTTTGATCAGAGAGAAGTTGTTA
Found at i:2520480 original size:14 final size:14
Alignment explanation
Indices: 2520461--2520487 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2520451 AATGCACTGA
2520461 ATTCCACCGAAAGC
1 ATTCCACCGAAAGC
2520475 ATTCCACCGAAAG
1 ATTCCACCGAAAG
2520488 TTTCAGCTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.33, G:0.15, T:0.15
Consensus pattern (14 bp):
ATTCCACCGAAAGC
Found at i:2520628 original size:309 final size:309
Alignment explanation
Indices: 2520069--2520686 Score: 1139
Period size: 309 Copynumber: 2.0 Consensus size: 309
2520059 AAGGTACAAT
2520069 GTAGAAAGAATGGTGTGAAGATATAATTGTTTCAATCAAATCTTCAAGTGGAAGATTGTTGAAAA
1 GTAGAAAGAATGGTGTGAAGATATAATTGTTTCAATCAAATCTTCAAGTGGAAGATTGTTGAAAA
* * *
2520134 ATGGTGTGAATGCACCGAATTCCACTGAAAGCATTCCACCTAAAGTTGCAGCTTGATTTTGTTGA
66 ATAGTGTGAATGCACCGAATTCCACCGAAAGCATTCCACCGAAAGTTGCAGCTTGATTTTGTTGA
*
2520199 AAATATGGTAATGGGAAAATTGCTCATTTAGTCCCTAAACTTTAAGTTATTTACAAGATTAGTCT
131 AAATATGGTAATGGGAAAATTGCTCATTTAGTCCCTAAACTTTAAGTTATTTACAAGATTAGTCC
2520264 TTAAGTTTCAACTATAAATATCCTAATCTATTTAGCTTCAAAATCATCCCAAATCATTATAGCTT
196 TTAAGTTTCAACTATAAATATCCTAATCTATTTAGCTTCAAAATCATCCCAAATCATTATAGCTT
*
2520329 TCTCCCAATACTAGAGAATTTATAGAGTTGTTTTCTTCTTTTTATCAAG
261 TCTCCCAATACTAGAGAATTTATAGAGTTGTTTTCTCCTTTTTATCAAG
2520378 GTAGAAAGAATGGTGTGAAGATATAATTG-TTCTAATCAAATCTTCAAGTGGAAGATTGTTGAAA
1 GTAGAAAGAATGGTGTGAAGATATAATTGTTTC-AATCAAATCTTCAAGTGGAAGATTGTTGAAA
* *
2520442 AATAGTGTGAATGCACTGAATTCCACCGAAAGCATTCCACCGAAAGTTTCAGCTTGATTTTGTTG
65 AATAGTGTGAATGCACCGAATTCCACCGAAAGCATTCCACCGAAAGTTGCAGCTTGATTTTGTTG
* *
2520507 AAAATATGGTAATGGGAAAATTGCTTATTTAGTCCCTAAATTTTAAGTTATTTACAAGATTAGTC
130 AAAATATGGTAATGGGAAAATTGCTCATTTAGTCCCTAAACTTTAAGTTATTTACAAGATTAGTC
2520572 CTTAAGTTTCAACTATAAATATCCTAATCTATTTAGCTTCAAAATCATCCCAAATCATTATAGCT
195 CTTAAGTTTCAACTATAAATATCCTAATCTATTTAGCTTCAAAATCATCCCAAATCATTATAGCT
2520637 TTCTCCCAATACTAGAGAATTTATAGAGTTGTTTTCTCCTTTTTATCAAG
260 TTCTCCCAATACTAGAGAATTTATAGAGTTGTTTTCTCCTTTTTATCAAG
2520687 AGAGAATTGT
Statistics
Matches: 299, Mismatches: 9, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
308 3 0.01
309 296 0.99
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (309 bp):
GTAGAAAGAATGGTGTGAAGATATAATTGTTTCAATCAAATCTTCAAGTGGAAGATTGTTGAAAA
ATAGTGTGAATGCACCGAATTCCACCGAAAGCATTCCACCGAAAGTTGCAGCTTGATTTTGTTGA
AAATATGGTAATGGGAAAATTGCTCATTTAGTCCCTAAACTTTAAGTTATTTACAAGATTAGTCC
TTAAGTTTCAACTATAAATATCCTAATCTATTTAGCTTCAAAATCATCCCAAATCATTATAGCTT
TCTCCCAATACTAGAGAATTTATAGAGTTGTTTTCTCCTTTTTATCAAG
Found at i:2524696 original size:20 final size:19
Alignment explanation
Indices: 2524658--2524701 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
2524648 GAATCACAAA
2524658 TTAAATTATTTTATGTTAT
1 TTAAATTATTTTATGTTAT
2524677 TTAATATTATCTTTAT-TTAT
1 TTAA-ATTAT-TTTATGTTAT
2524697 TTAAA
1 TTAAA
2524702 AAATTAGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 5 0.22
20 13 0.57
21 5 0.22
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (19 bp):
TTAAATTATTTTATGTTAT
Found at i:2526198 original size:20 final size:19
Alignment explanation
Indices: 2526173--2526210 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
2526163 AAATTTAATT
2526173 ATTTTTTATTTGTTTAAAAC
1 ATTTTTTATTT-TTTAAAAC
2526193 ATTTTTTATTTTTTAAAA
1 ATTTTTTATTTTTTAAAA
2526211 TTTTAGATGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.63
Consensus pattern (19 bp):
ATTTTTTATTTTTTAAAAC
Found at i:2527463 original size:20 final size:20
Alignment explanation
Indices: 2527438--2527480 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
2527428 GATAGACCGA
2527438 ACCCGACCCGAACCGAGTTG
1 ACCCGACCCGAACCGAGTTG
*
2527458 ACCCGACCTGAACCGAGTTG
1 ACCCGACCCGAACCGAGTTG
2527478 ACC
1 ACC
2527481 GGTCTGACCG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.26, C:0.40, G:0.23, T:0.12
Consensus pattern (20 bp):
ACCCGACCCGAACCGAGTTG
Found at i:2527500 original size:22 final size:22
Alignment explanation
Indices: 2527475--2527545 Score: 97
Period size: 22 Copynumber: 3.2 Consensus size: 22
2527465 CTGAACCGAG
*
2527475 TTGACCGGTCTGACCGTTGACT
1 TTGACCGGTCTGACAGTTGACT
*
2527497 TTGATCGGTCTGACAGTTGACT
1 TTGACCGGTCTGACAGTTGACT
* * *
2527519 TTGATCGATCTGACTGTTGACT
1 TTGACCGGTCTGACAGTTGACT
2527541 TTGAC
1 TTGAC
2527546 AAAAATAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 44 1.00
ACGTcount: A:0.17, C:0.21, G:0.25, T:0.37
Consensus pattern (22 bp):
TTGACCGGTCTGACAGTTGACT
Found at i:2528283 original size:31 final size:31
Alignment explanation
Indices: 2528245--2528320 Score: 116
Period size: 31 Copynumber: 2.5 Consensus size: 31
2528235 TAAGGCAACC
* * *
2528245 CTTGGGTAGGCTCTGAGGCCTCGATATCTTT
1 CTTGGGTAGGCTCTGAGGCCCCGAGAACTTT
2528276 CTTGGGTAGGCTCTGAGGCCCCGAGAACTTT
1 CTTGGGTAGGCTCTGAGGCCCCGAGAACTTT
*
2528307 CTTAGGTAGGCTCT
1 CTTGGGTAGGCTCT
2528321 CATGCCCCAA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.14, C:0.24, G:0.30, T:0.32
Consensus pattern (31 bp):
CTTGGGTAGGCTCTGAGGCCCCGAGAACTTT
Found at i:2530020 original size:2 final size:2
Alignment explanation
Indices: 2530013--2530040 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2530003 CAATCAATTA
2530013 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2530041 TAAGATTCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2531729 original size:21 final size:21
Alignment explanation
Indices: 2531705--2531754 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
2531695 CATTTCAAGA
2531705 TTTTGTACAAATGCTTCAATG
1 TTTTGTACAAATGCTTCAATG
2531726 TTTTGTACAAATGCTTCAATG
1 TTTTGTACAAATGCTTCAATG
2531747 TTTTGTAC
1 TTTTGTAC
2531755 TAAAACTACT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.26, C:0.14, G:0.14, T:0.46
Consensus pattern (21 bp):
TTTTGTACAAATGCTTCAATG
Found at i:2535885 original size:12 final size:12
Alignment explanation
Indices: 2535868--2535893 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
2535858 GATTTGTCTC
2535868 CTTTTGCATCTT
1 CTTTTGCATCTT
2535880 CTTTTGCATCTT
1 CTTTTGCATCTT
2535892 CT
1 CT
2535894 GAAATACAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.27, G:0.08, T:0.58
Consensus pattern (12 bp):
CTTTTGCATCTT
Found at i:2536479 original size:2 final size:2
Alignment explanation
Indices: 2536472--2536501 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2536462 TTTGTCAATC
2536472 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2536502 ATTTACGAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2536667 original size:85 final size:85
Alignment explanation
Indices: 2536522--2536684 Score: 202
Period size: 85 Copynumber: 1.9 Consensus size: 85
2536512 TACAATCACG
* * * * * * *
2536522 ACACGAATGTGTGTCATCTTTTTTAATGGCGTGTGCTTCAATGACACACAATGTAAGTCATACAT
1 ACACAAATGTGTGTCATCTTATTTAATGACGGGGGCTTCAATGACACACAATGCAAGTCATAAAT
* *
2536587 GCGTGTCATAAATTTATGAC
66 GAGAGTCATAAATTTATGAC
* * *
2536607 ACACAAATGTGTGTCATCTTCATTT-ATGACGGGGGCTTCAATGACGCTCAATGCACGTCATAAA
1 ACACAAATGTGTGTCATCTT-ATTTAATGACGGGGGCTTCAATGACACACAATGCAAGTCATAAA
2536671 TGAGAGTCATAAAT
65 TGAGAGTCATAAAT
2536685 GTGTGTCATA
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
85 62 0.95
86 3 0.05
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (85 bp):
ACACAAATGTGTGTCATCTTATTTAATGACGGGGGCTTCAATGACACACAATGCAAGTCATAAAT
GAGAGTCATAAATTTATGAC
Found at i:2536679 original size:13 final size:13
Alignment explanation
Indices: 2536663--2536698 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
2536653 CTCAATGCAC
2536663 GTCATAAATGAGA
1 GTCATAAATGAGA
* *
2536676 GTCATAAATGTGT
1 GTCATAAATGAGA
2536689 GTCATAAATG
1 GTCATAAATG
2536699 CGCATCATAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.39, C:0.08, G:0.22, T:0.31
Consensus pattern (13 bp):
GTCATAAATGAGA
Found at i:2537619 original size:19 final size:19
Alignment explanation
Indices: 2537588--2537637 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 19
2537578 TATTGATAAA
*
2537588 ATTATA-TAGTTAAAATTAT
1 ATTATATTATTTAAAATT-T
* *
2537607 TTTATATT-TTTAATATTT
1 ATTATATTATTTAAAATTT
2537625 ATTATATTATTTA
1 ATTATATTATTTA
2537638 TTTTATAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
18 8 0.32
19 16 0.64
20 1 0.04
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (19 bp):
ATTATATTATTTAAAATTT
Found at i:2538669 original size:2 final size:2
Alignment explanation
Indices: 2538662--2538686 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2538652 ACTAATTGAA
2538662 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
2538687 GAGAGAGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2538703 original size:14 final size:14
Alignment explanation
Indices: 2538686--2538713 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
2538676 ATATATATAT
2538686 AGAGAGAGAGAAAG
1 AGAGAGAGAGAAAG
2538700 AGAGAGAGAGAAAG
1 AGAGAGAGAGAAAG
2538714 GTATTATCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.43, T:0.00
Consensus pattern (14 bp):
AGAGAGAGAGAAAG
Found at i:2539718 original size:364 final size:363
Alignment explanation
Indices: 2539040--2539757 Score: 993
Period size: 364 Copynumber: 2.0 Consensus size: 363
2539030 AGACCTCTAT
* * * *
2539040 TGTAACCCCCTCAGACCGATGCGGATAGCCTGATCCGATCTGGAGTGTCACATTTGGGCCACCGG
1 TGTAACCCCCTCAGACCGATGCGGATAGCCCGATCCGATCGGGAGAGTCACATTAGGGCCACCGG
* * *
2539105 AGCGACCCACCGTAAAAATAGCGAAAATTTTAAAACTTTTCTTAAAATATGTCAAATCATAAAAT
66 AGCGACCCACCATAAAAATAGCGAAAATTTTAAAACTTTTATTAAAACATGTCAAATCATAAAAT
* * * * * * *
2539170 GATTTATTATTATTCAGAAATAAAACATGTTTTTCAAACTCAGATATAAAACAAAATACAATTAC
131 CAGTTATCACTATTCAAAAATAAAACATGATTTCCAAACTCAGATATAAAACAAAATACAATTAC
* * *
2539235 ATGCCCCCTAATCACATGTACCGTACTCTGCAAACAGCACCGGAAGAACTCCCTTACTGATGTTG
196 ATGCCCCCTAATCACATGTACCATACTCTGCAAACAGCACCGGAAGAACTCCCTTACTGAAGTCG
* * * * *
2539300 ATAGTGGTACCGGTATAATTCTTTTAACCTGCAATGGTGAGTAATAGAGTGAGCTTCGAAAAGCT
261 ATAGTGGCACCGGTACAACTCTTTTAACCTGAAAAGGTGAGTAATAGAGTGAGCTTCGAAAAGCT
2539365 CAGTAATACAGAACTACCAGATGATGCTGCAAGACATG
326 CAGTAATACAGAACTACCAGATGATGCTGCAAGACATG
*
2539403 TGTAACCCCC-CAGACCGATGCGGGTAGCCCGATCCGATCCGGGA-AGTCACATTAGGGCCACCG
1 TGTAACCCCCTCAGACCGATGCGGATAGCCCGATCCGAT-CGGGAGAGTCACATTAGGGCCACCG
* * *
2539466 GAGCGACCCGACCCACTATAAAAATAGCGGAAAA-TTTAAAACTTTTATTGAAACATGT-AACTT
65 GAGCGACCC-A--C-C-ATAAAAATAGC-GAAAATTTTAAAACTTTTATTAAAACATGTCAAATC
* * * **
2539529 ATAAAATCAGTTGTCACTATTTAAAAATAAAACA-GATTTCCAGACTC-GTATATAAATTAAAAT
124 ATAAAATCAGTTATCACTATTCAAAAATAAAACATGATTTCCAAACTCAG-ATATAAAACAAAAT
* *
2539592 ACAATTATATGCCCCCTAATCACATGTACCATACTCTGCAACCA-CACCGGAAGAACTCCCTTAC
188 ACAATTACATGCCCCCTAATCACATGTACCATACTCTGCAAACAGCACCGGAAGAACTCCCTTAC
*
2539656 TGAAGTCGATAGAT-GCACTGGTACAACTCTTTTAACCTGAAAAGGTGAGTAATAGAGTGAGCTT
253 TGAAGTCGATAG-TGGCACCGGTACAACTCTTTTAACCTGAAAAGGTGAGTAATAGAGTGAGCTT
2539720 CGAAAAGCTCAGTAATACAGAACTACCAGATGATGCTG
317 CGAAAAGCTCAGTAATACAGAACTACCAGATGATGCTG
2539758 ATGAACGTGC
Statistics
Matches: 312, Mismatches: 34, Indels: 17
0.86 0.09 0.05
Matches are distributed among these distances:
362 52 0.17
363 15 0.05
364 113 0.36
365 65 0.21
366 31 0.10
367 31 0.10
368 5 0.02
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.25
Consensus pattern (363 bp):
TGTAACCCCCTCAGACCGATGCGGATAGCCCGATCCGATCGGGAGAGTCACATTAGGGCCACCGG
AGCGACCCACCATAAAAATAGCGAAAATTTTAAAACTTTTATTAAAACATGTCAAATCATAAAAT
CAGTTATCACTATTCAAAAATAAAACATGATTTCCAAACTCAGATATAAAACAAAATACAATTAC
ATGCCCCCTAATCACATGTACCATACTCTGCAAACAGCACCGGAAGAACTCCCTTACTGAAGTCG
ATAGTGGCACCGGTACAACTCTTTTAACCTGAAAAGGTGAGTAATAGAGTGAGCTTCGAAAAGCT
CAGTAATACAGAACTACCAGATGATGCTGCAAGACATG
Found at i:2540175 original size:24 final size:24
Alignment explanation
Indices: 2540148--2540252 Score: 102
Period size: 24 Copynumber: 4.4 Consensus size: 24
2540138 AAACGGAGAT
*
2540148 ATCAGAAATCAAAACATAATTCAG
1 ATCAGAAATCAAAACAGAATTCAG
* * *
2540172 ATCAGATATCAGAACAGAATCCAG
1 ATCAGAAATCAAAACAGAATTCAG
* * * *
2540196 GTCAGGAATCAGAACAGATTTCAG
1 ATCAGAAATCAAAACAGAATTCAG
** * *
2540220 ATCAGATGTCAAAACATAATTCAA
1 ATCAGAAATCAAAACAGAATTCAG
2540244 ATCAGAAAT
1 ATCAGAAAT
2540253 TAGATAAAAT
Statistics
Matches: 62, Mismatches: 19, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
24 62 1.00
ACGTcount: A:0.48, C:0.17, G:0.14, T:0.21
Consensus pattern (24 bp):
ATCAGAAATCAAAACAGAATTCAG
Found at i:2540189 original size:12 final size:12
Alignment explanation
Indices: 2540168--2540226 Score: 50
Period size: 12 Copynumber: 4.9 Consensus size: 12
2540158 AAAACATAAT
2540168 TCAGATCAGATA
1 TCAGATCAGATA
*
2540180 TCAGAACAGA-A
1 TCAGATCAGATA
*
2540191 TCCAGGTCAGGA-A
1 T-CAGATCA-GATA
* *
2540204 TCAGAACAGATT
1 TCAGATCAGATA
2540216 TCAGATCAGAT
1 TCAGATCAGAT
2540227 GTCAAAACAT
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
11 4 0.11
12 29 0.78
13 4 0.11
ACGTcount: A:0.41, C:0.19, G:0.20, T:0.20
Consensus pattern (12 bp):
TCAGATCAGATA
Found at i:2542849 original size:15 final size:15
Alignment explanation
Indices: 2542829--2542867 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
2542819 GGTCAATGTC
*
2542829 GGTCAATTGTCAACG
1 GGTCAATGGTCAACG
*
2542844 GGTCAACGGTCAACG
1 GGTCAATGGTCAACG
2542859 GGTCAATGG
1 GGTCAATGG
2542868 GTCTGGTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.26, C:0.21, G:0.33, T:0.21
Consensus pattern (15 bp):
GGTCAATGGTCAACG
Found at i:2542854 original size:7 final size:8
Alignment explanation
Indices: 2542837--2542870 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
2542827 TCGGTCAATT
2542837 GTCAACGG
1 GTCAACGG
2542845 GTCAAC-G
1 GTCAACGG
2542852 GTCAACGG
1 GTCAACGG
*
2542860 GTCAATGG
1 GTCAACGG
2542868 GTC
1 GTC
2542871 TGGTAAACGG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
7 7 0.29
8 17 0.71
ACGTcount: A:0.24, C:0.24, G:0.35, T:0.18
Consensus pattern (8 bp):
GTCAACGG
Found at i:2542896 original size:13 final size:13
Alignment explanation
Indices: 2542857--2542901 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
2542847 CAACGGTCAA
*
2542857 CGGGTCAATGGGT
1 CGGGTCAACGGGT
* *
2542870 CTGGTAAACGGGT
1 CGGGTCAACGGGT
*
2542883 CGGGTCAACAGGT
1 CGGGTCAACGGGT
2542896 CGGGTC
1 CGGGTC
2542902 GGGTCGGGTT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.18, C:0.20, G:0.42, T:0.20
Consensus pattern (13 bp):
CGGGTCAACGGGT
Found at i:2546968 original size:13 final size:13
Alignment explanation
Indices: 2546950--2546979 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
2546940 GGTCAACGCC
2546950 GGTCAACAGGTCG
1 GGTCAACAGGTCG
*
2546963 GGTCAACGGGTCG
1 GGTCAACAGGTCG
2546976 GGTC
1 GGTC
2546980 GGGTTATAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.23, G:0.43, T:0.17
Consensus pattern (13 bp):
GGTCAACAGGTCG
Found at i:2551095 original size:17 final size:18
Alignment explanation
Indices: 2551073--2551109 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
2551063 TCTTATGCAC
2551073 ATCAATA-GT-TTTATCAG
1 ATCAATATGTCTTT-TCAG
2551090 ATCAATATGTCTTTTCAG
1 ATCAATATGTCTTTTCAG
2551108 AT
1 AT
2551110 TTATTAATCC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.39
18 8 0.44
19 3 0.17
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (18 bp):
ATCAATATGTCTTTTCAG
Found at i:2554976 original size:2 final size:2
Alignment explanation
Indices: 2554969--2555009 Score: 55
Period size: 2 Copynumber: 20.0 Consensus size: 2
2554959 TTAAAAGTAA
* *
2554969 AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT CAA AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT
2555010 TAACTTTAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
2 33 0.97
3 1 0.03
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2556124 original size:42 final size:42
Alignment explanation
Indices: 2556065--2556161 Score: 176
Period size: 42 Copynumber: 2.3 Consensus size: 42
2556055 CCATATGAAT
2556065 GAGTATCGATACCATAAGGCGAAAATTTATAAATTGTTCATG
1 GAGTATCGATACCATAAGGCGAAAATTTATAAATTGTTCATG
*
2556107 GAGTATCGATACCATAAGGCGGAAATTTATAAATTGTTCATG
1 GAGTATCGATACCATAAGGCGAAAATTTATAAATTGTTCATG
*
2556149 GGGTATCGATACC
1 GAGTATCGATACC
2556162 TGGGAAGAAG
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.30
Consensus pattern (42 bp):
GAGTATCGATACCATAAGGCGAAAATTTATAAATTGTTCATG
Found at i:2556917 original size:32 final size:32
Alignment explanation
Indices: 2556865--2556928 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
2556855 GAGTCGAGGG
* * *
2556865 TTACCTATATCCTTCGGGACATATGGACAGGT
1 TTACCTATATCATTCAGGACATATGAACAGGT
*
2556897 TTACCTATGTCATTCAGGACATATGAACAGGT
1 TTACCTATATCATTCAGGACATATGAACAGGT
2556929 CCTTCGAGAC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.31
Consensus pattern (32 bp):
TTACCTATATCATTCAGGACATATGAACAGGT
Found at i:2556940 original size:22 final size:22
Alignment explanation
Indices: 2556914--2556963 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
2556904 TGTCATTCAG
2556914 GACATATGAACAGGTCCTTCGA
1 GACATATGAACAGGTCCTTCGA
* * * *
2556936 GACATATGTATAGGTCTTTCGG
1 GACATATGAACAGGTCCTTCGA
2556958 GACATA
1 GACATA
2556964 GATTTCACAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (22 bp):
GACATATGAACAGGTCCTTCGA
Found at i:2557172 original size:21 final size:22
Alignment explanation
Indices: 2557124--2557172 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
2557114 TTTCATTATG
*
2557124 GAATG-ATATAGGTTTGGTGAT
1 GAATGTATATAGGTTTGGTGAA
*
2557145 GATATGTATAT-GGTTTGGTTAA
1 GA-ATGTATATAGGTTTGGTGAA
2557167 GAATGT
1 GAATGT
2557173 TAGATACAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
21 6 0.25
22 14 0.58
23 4 0.17
ACGTcount: A:0.29, C:0.00, G:0.31, T:0.41
Consensus pattern (22 bp):
GAATGTATATAGGTTTGGTGAA
Found at i:2559258 original size:2 final size:2
Alignment explanation
Indices: 2559251--2559313 Score: 126
Period size: 2 Copynumber: 31.5 Consensus size: 2
2559241 AGATAAGACC
2559251 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2559293 TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
2559314 GAAGATTTGA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2560674 original size:21 final size:21
Alignment explanation
Indices: 2560648--2560704 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
2560638 ATTTGAGTGG
**
2560648 GTATCGATACCATATGAATGA
1 GTATCGATACCATAAAAATGA
2560669 GTATCGATACCATAAAAATGA
1 GTATCGATACCATAAAAATGA
**
2560690 GTATTAATACCATAA
1 GTATCGATACCATAA
2560705 GGCAGAAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.28
Consensus pattern (21 bp):
GTATCGATACCATAAAAATGA
Found at i:2560787 original size:77 final size:77
Alignment explanation
Indices: 2560695--2560859 Score: 321
Period size: 77 Copynumber: 2.1 Consensus size: 77
2560685 AATGAGTATT
2560695 AATACCATAAGGCAGAAATTTATAAATTGTTCATGGGGTATCGATACCTGGGAAGAAGTATCGAT
1 AATACCATAAGGCAGAAATTTATAAATTGTTCATGGGGTATCGATACCTGGGAAGAAGTATCGAT
2560760 ACTAAAGGTACC
66 ACTAAAGGTACC
2560772 AATACCATAAGGCAGAAATTTATAAATTGTTCATGGGGTATCGATACCTGGGAAGAAGTATCGAT
1 AATACCATAAGGCAGAAATTTATAAATTGTTCATGGGGTATCGATACCTGGGAAGAAGTATCGAT
2560837 ACTAAAGGTACC
66 ACTAAAGGTACC
*
2560849 GATACCATAAG
1 AATACCATAAG
2560860 ATCAGTATCG
Statistics
Matches: 87, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
77 87 1.00
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.25
Consensus pattern (77 bp):
AATACCATAAGGCAGAAATTTATAAATTGTTCATGGGGTATCGATACCTGGGAAGAAGTATCGAT
ACTAAAGGTACC
Found at i:2562395 original size:32 final size:32
Alignment explanation
Indices: 2562350--2562413 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
2562340 GAGTCGAGGG
*
2562350 TTACCTATATCCTTCGGGACATATGGACAGGT
1 TTACCTATATCCTTCAGGACATATGGACAGGT
* *
2562382 TTACCTATGTCCTTCAGGACATATGGATAGGT
1 TTACCTATATCCTTCAGGACATATGGACAGGT
2562414 CCTTCGAGAC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (32 bp):
TTACCTATATCCTTCAGGACATATGGACAGGT
Found at i:2562416 original size:22 final size:21
Alignment explanation
Indices: 2562390--2562448 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 21
2562380 GTTTACCTAT
2562390 GTCCTTCAGGACATATGGATAG
1 GTCCTTC-GGACATATGGATAG
**
2562412 GTCCTTCGAGACATATGTTTAG
1 GTCCTTCG-GACATATGGATAG
*
2562434 ATCCTTCGGGACATA
1 GTCCTTC-GGACATA
2562449 GATTTCACAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 1 0.03
22 30 0.94
23 1 0.03
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (21 bp):
GTCCTTCGGACATATGGATAG
Found at i:2562497 original size:27 final size:27
Alignment explanation
Indices: 2562436--2562497 Score: 92
Period size: 27 Copynumber: 2.3 Consensus size: 27
2562426 ATGTTTAGAT
2562436 CCTTCG-GGACATAGATTTCACATGCC
1 CCTTCGTGGACATAGATTTCACATGCC
*
2562462 AC-TCAGTGGACATAGATTTCACATGCC
1 CCTTC-GTGGACATAGATTTCACATGCC
2562489 CCTTCGTGG
1 CCTTCGTGG
2562498 GAATTATACG
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
25 2 0.06
26 2 0.06
27 25 0.81
28 2 0.06
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (27 bp):
CCTTCGTGGACATAGATTTCACATGCC
Found at i:2563178 original size:116 final size:116
Alignment explanation
Indices: 2562974--2563207 Score: 414
Period size: 116 Copynumber: 2.0 Consensus size: 116
2562964 AGAAAGACAG
2562974 GTTAGCCTCTCCTTTACAAAGTTCAGATCAGAAAAGAATTTTGGATCATATGTATGTTGTTATAT
1 GTTAGCCTCTCCTTTACAAAGTTCAGATCAGAAAAGAATTTTGGATCATATGTATGTTGTTATAT
*
2563039 TAAATTTAGTTGGCATGTATTAATAGATCTGAGTTAAATATGCTCTGATAT
66 TAAATGTAGTTGGCATGTATTAATAGATCTGAGTTAAATATGCTCTGATAT
* * *
2563090 GTTAGTCTCTCCTTTACAAAGTTCAGATCAGGAAAGAATTTTGTATCATATGTATGTTGTTATAT
1 GTTAGCCTCTCCTTTACAAAGTTCAGATCAGAAAAGAATTTTGGATCATATGTATGTTGTTATAT
* *
2563155 TAAATGTAGTTGGCATGTATTAATATATCTGAGTTAAATATGCTCTTATAT
66 TAAATGTAGTTGGCATGTATTAATAGATCTGAGTTAAATATGCTCTGATAT
2563206 GT
1 GT
2563208 ATATAAACCA
Statistics
Matches: 112, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
116 112 1.00
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.41
Consensus pattern (116 bp):
GTTAGCCTCTCCTTTACAAAGTTCAGATCAGAAAAGAATTTTGGATCATATGTATGTTGTTATAT
TAAATGTAGTTGGCATGTATTAATAGATCTGAGTTAAATATGCTCTGATAT
Found at i:2564023 original size:19 final size:18
Alignment explanation
Indices: 2563999--2564034 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
2563989 TACCATATGG
2563999 TATCAATGATAAACATAAA
1 TATCAATGATAAA-ATAAA
*
2564018 TATCAATTATAAAATAA
1 TATCAATGATAAAATAA
2564035 TTTATAAACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.58, C:0.08, G:0.03, T:0.31
Consensus pattern (18 bp):
TATCAATGATAAAATAAA
Found at i:2573795 original size:23 final size:23
Alignment explanation
Indices: 2573727--2573806 Score: 85
Period size: 23 Copynumber: 3.6 Consensus size: 23
2573717 CACCTAACAA
*
2573727 TGCATCGATGCA-TCCTTGAATG
1 TGCATCGATGCACACCTTGAATG
* * *
2573749 TGCATCGAT--ACACCATAAAGG
1 TGCATCGATGCACACCTTGAATG
* *
2573770 TGCACCGATGCACGCCTTGAATG
1 TGCATCGATGCACACCTTGAATG
2573793 TGCATCGATGCACA
1 TGCATCGATGCACA
2573807 AGGCCATGCA
Statistics
Matches: 44, Mismatches: 11, Indels: 5
0.73 0.18 0.08
Matches are distributed among these distances:
20 1 0.02
21 14 0.32
22 9 0.20
23 20 0.45
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.24
Consensus pattern (23 bp):
TGCATCGATGCACACCTTGAATG
Found at i:2573797 original size:44 final size:42
Alignment explanation
Indices: 2573707--2573801 Score: 129
Period size: 44 Copynumber: 2.2 Consensus size: 42
2573697 TTTTGCTTCA
* *
2573707 TGCATCGATACACCTAACAATGCATCGATGCATCCTTGAATG
1 TGCATCGATACACCTAACAATGCACCGATGCAGCCTTGAATG
*
2573749 TGCATCGATACACCATAA-AGGTGCACCGATGCACGCCTTGAATG
1 TGCATCGATACACC-TAACA-ATGCACCGATGCA-GCCTTGAATG
2573793 TGCATCGAT
1 TGCATCGAT
2573802 GCACAAGGCC
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
42 15 0.32
43 14 0.30
44 18 0.38
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.24
Consensus pattern (42 bp):
TGCATCGATACACCTAACAATGCACCGATGCAGCCTTGAATG
Found at i:2573822 original size:43 final size:42
Alignment explanation
Indices: 2573707--2573822 Score: 112
Period size: 44 Copynumber: 2.7 Consensus size: 42
2573697 TTTTGCTTCA
* ** *
2573707 TGCATCGATACACCTAACAATGCATCGATGCATCCTTGAATG
1 TGCATCGATACACCAAAGGATGCATCGATGCAGCCTTGAATG
*
2573749 TGCATCGATACACCATAAAGG-TGCACCGATGCACGCCTTGAATG
1 TGCATCGATACACC--AAAGGATGCATCGATGCA-GCCTTGAATG
*
2573793 TGCATCGATGCA-C-AAGGCCATGCATCGATG
1 TGCATCGATACACCAAAGG--ATGCATCGATG
2573823 AATCCGTCGG
Statistics
Matches: 61, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
40 4 0.07
42 14 0.23
43 21 0.34
44 22 0.36
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (42 bp):
TGCATCGATACACCAAAGGATGCATCGATGCAGCCTTGAATG
Found at i:2581191 original size:21 final size:21
Alignment explanation
Indices: 2581166--2581205 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2581156 AAGACTTTAT
2581166 TTTCAAAATACAAAAATGATA
1 TTTCAAAATACAAAAATGATA
**
2581187 TTTCAAAATTGAAAAATGA
1 TTTCAAAATACAAAAATGA
2581206 AAATAGTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.55, C:0.07, G:0.07, T:0.30
Consensus pattern (21 bp):
TTTCAAAATACAAAAATGATA
Found at i:2583617 original size:15 final size:15
Alignment explanation
Indices: 2583597--2583630 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
2583587 CTGGTTTTGA
2583597 AGATTCAAAATTTCC
1 AGATTCAAAATTTCC
2583612 AGATTCAAAATTTCC
1 AGATTCAAAATTTCC
2583627 AGAT
1 AGAT
2583631 CATGTTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (15 bp):
AGATTCAAAATTTCC
Found at i:2585078 original size:43 final size:43
Alignment explanation
Indices: 2585003--2585097 Score: 131
Period size: 44 Copynumber: 2.2 Consensus size: 43
2584993 TAGTGCATAA
* *
2585003 TGCATCGATACACTAGACAGTGCATCGATGCA-TCCTTGAATG
1 TGCATCGATACACAAGACAGTGCACCGATGCATTCCTTGAATG
2585045 TGCATCGATACACCAAGA-AGGTGCACCGATGCATTCCTTGAATG
1 TGCATCGATACA-CAAGACA-GTGCACCGATGCATTCCTTGAATG
*
2585089 TACATCGAT
1 TGCATCGAT
2585098 GTACTCTGCT
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
42 13 0.28
43 16 0.34
44 18 0.38
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.25
Consensus pattern (43 bp):
TGCATCGATACACAAGACAGTGCACCGATGCATTCCTTGAATG
Found at i:2587761 original size:64 final size:65
Alignment explanation
Indices: 2587637--2587771 Score: 177
Period size: 64 Copynumber: 2.1 Consensus size: 65
2587627 CACACCCATT
* **
2587637 TCGAATGCATTTTGTGTACCGATGCACAAGCCATACATCGATGCACTCTTGAATATTTTG-AACA
1 TCGAATACATTTTGTGTACCGATGCACAAGCCATACATCGATGCACTCCAGAATATTTTGAAACA
* **
2587701 TCGAATACATTTTGTGTACCGATGCAC-AGACCATGCATCGATGCACTCCAGGCTCA-TTTGAAA
1 TCGAATACATTTTGTGTACCGATGCACAAG-CCATACATCGATGCACTCCAGAAT-ATTTTGAAA
2587764 CA
64 CA
2587766 TCGAAT
1 TCGAAT
2587772 GTAATTAGTG
Statistics
Matches: 62, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
63 2 0.03
64 49 0.79
65 11 0.18
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.29
Consensus pattern (65 bp):
TCGAATACATTTTGTGTACCGATGCACAAGCCATACATCGATGCACTCCAGAATATTTTGAAACA
Found at i:2589433 original size:103 final size:102
Alignment explanation
Indices: 2589314--2589524 Score: 368
Period size: 103 Copynumber: 2.1 Consensus size: 102
2589304 TTGAAAATTT
*
2589314 CAATTTCTTAATGAAAAAGGGGGAGATGAACATTTTCACATATTTTCCAACAATTAGTATCTTTT
1 CAATTTCTTAATGAAAAAGGGGGAGATGAACATTTTCACATATTCTCCAACAATTAGTATCTTTT
* *
2589379 TCATTAAACCTTTTATTAAGGGGGAGTTTTGCCAAAAA
66 TCATTAAACATTTTATTAA-GGAGAGTTTTGCCAAAAA
*
2589417 CAATTTCTTAATGAAAAAGGGGGAGCTGAACATTTTCACATATTCTCCAACAATTAGTATCTTTT
1 CAATTTCTTAATGAAAAAGGGGGAGATGAACATTTTCACATATTCTCCAACAATTAGTATCTTTT
*
2589482 TCATTAAACATTTTATTAAGGAGAGTTTTGCCAGAAA
66 TCATTAAACATTTTATTAAGGAGAGTTTTGCCAAAAA
2589519 CAATTT
1 CAATTT
2589525 TTCAATGTTT
Statistics
Matches: 103, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
102 22 0.21
103 81 0.79
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.36
Consensus pattern (102 bp):
CAATTTCTTAATGAAAAAGGGGGAGATGAACATTTTCACATATTCTCCAACAATTAGTATCTTTT
TCATTAAACATTTTATTAAGGAGAGTTTTGCCAAAAA
Found at i:2590702 original size:15 final size:17
Alignment explanation
Indices: 2590682--2590718 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
2590672 AATTCTTTTA
2590682 TTTTC-TTTT-TCTTAT
1 TTTTCTTTTTATCTTAT
2590697 TTTTCTTTTTATCTTAT
1 TTTTCTTTTTATCTTAT
2590714 TTTTC
1 TTTTC
2590719 AATCGATTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 5 0.25
16 4 0.20
17 11 0.55
ACGTcount: A:0.08, C:0.14, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTTCTTTTTATCTTAT
Found at i:2594241 original size:21 final size:22
Alignment explanation
Indices: 2594216--2594261 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
2594206 GGTTTTGGTA
*
2594216 AAAAGATATTT-AAATAATAAT
1 AAAAGATATTTGAAATAAAAAT
* *
2594237 AAAAGCTATTTGAAGTAAAAAT
1 AAAAGATATTTGAAATAAAAAT
2594259 AAA
1 AAA
2594262 GAAAAGATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.61, C:0.02, G:0.09, T:0.28
Consensus pattern (22 bp):
AAAAGATATTTGAAATAAAAAT
Found at i:2611936 original size:32 final size:32
Alignment explanation
Indices: 2611895--2612046 Score: 146
Period size: 32 Copynumber: 4.8 Consensus size: 32
2611885 CTAACACTCA
* *
2611895 TGTGCATTATCTAAATGTAACAATAACTCTAT
1 TGTGCATTATCTAAATGCAACACTAACTCTAT
* *
2611927 TGTGCATTATTTAAATGCAACACTAACTCTGT
1 TGTGCATTATCTAAATGCAACACTAACTCTAT
* * * * *
2611959 TGTGTATTATTTGAATGCAACGCTGACTCTAT
1 TGTGCATTATCTAAATGCAACACTAACTCTAT
** *
2611991 TGTGCATTATCTGTATGCAACACTGATA-T-TAA
1 TGTGCATTATCTAAATGCAACACT-A-ACTCTAT
* *
2612023 TGTGCATTATCTGAATACAACACT
1 TGTGCATTATCTAAATGCAACACT
2612047 GACACCACTA
Statistics
Matches: 101, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
32 99 0.98
33 1 0.01
34 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.38
Consensus pattern (32 bp):
TGTGCATTATCTAAATGCAACACTAACTCTAT
Found at i:2614443 original size:5 final size:5
Alignment explanation
Indices: 2614435--2614513 Score: 104
Period size: 5 Copynumber: 15.8 Consensus size: 5
2614425 TAAAAACAAA
* * * * * *
2614435 ATATT ATATT ATATT ATATT ATATT ATATT ATATC ATATC ATATC ATATC
1 ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC
2614485 ATATC ATATC ATATC ATATC ATATC ATAT
1 ATATC ATATC ATATC ATATC ATATC ATAT
2614514 TTATATTAAG
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
5 73 1.00
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.48
Consensus pattern (5 bp):
ATATC
Found at i:2614798 original size:2 final size:2
Alignment explanation
Indices: 2614791--2614817 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2614781 ATTACTTCTA
2614791 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
2614818 ACATTTTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2618315 original size:39 final size:39
Alignment explanation
Indices: 2618256--2618334 Score: 131
Period size: 39 Copynumber: 2.0 Consensus size: 39
2618246 ATTTTATGTT
2618256 TTGAAATTAATTTTAAAAAAATAGGTATCAATATTCTTA
1 TTGAAATTAATTTTAAAAAAATAGGTATCAATATTCTTA
* **
2618295 TTGAAATTATTTTTTTAAAAATAGGTATCAATATTCTTA
1 TTGAAATTAATTTTAAAAAAATAGGTATCAATATTCTTA
2618334 T
1 T
2618335 GCTAGTATTG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.42, C:0.05, G:0.08, T:0.46
Consensus pattern (39 bp):
TTGAAATTAATTTTAAAAAAATAGGTATCAATATTCTTA
Found at i:2636047 original size:10 final size:10
Alignment explanation
Indices: 2636032--2636056 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
2636022 GAGGGTAAAA
2636032 CTTAGCAAAG
1 CTTAGCAAAG
2636042 CTTAGCAAAG
1 CTTAGCAAAG
2636052 CTTAG
1 CTTAG
2636057 AATAACGAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (10 bp):
CTTAGCAAAG
Found at i:2637887 original size:2 final size:2
Alignment explanation
Indices: 2637880--2637912 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2637870 GGTAGCGTCA
2637880 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
2637913 TTCTATCTAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:2644557 original size:11 final size:11
Alignment explanation
Indices: 2644541--2644566 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
2644531 TAATTTTTCC
2644541 TAAAAATAATT
1 TAAAAATAATT
2644552 TAAAAATAATT
1 TAAAAATAATT
2644563 TAAA
1 TAAA
2644567 TAAAAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
TAAAAATAATT
Found at i:2644730 original size:51 final size:49
Alignment explanation
Indices: 2644665--2644785 Score: 131
Period size: 50 Copynumber: 2.5 Consensus size: 49
2644655 CCTTCTTAAT
* * *
2644665 ATAAA-AATAATAAAAAATATTATTTAATATATTATATATTTACAACTAAA
1 ATAAATAATAATAAAAAATATTAATTAATA-ATTAAATATAT-CAACTAAA
* *
2644715 ATAAATAATAAT-AAAAATATTAAATTATTAATTAAATATATGAACTAAA
1 ATAAATAATAATAAAAAATATT-AATTAATAATTAAATATATCAACTAAA
* *
2644764 A-AAGTAATAATAAAAAAAATTA
1 ATAAATAATAATAAAAAATATTA
2644786 CAATGAAATA
Statistics
Matches: 61, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
48 10 0.16
49 16 0.26
50 23 0.38
51 12 0.20
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (49 bp):
ATAAATAATAATAAAAAATATTAATTAATAATTAAATATATCAACTAAA
Found at i:2645847 original size:3 final size:3
Alignment explanation
Indices: 2645841--2645884 Score: 56
Period size: 3 Copynumber: 15.0 Consensus size: 3
2645831 TTTTGGCCTG
*
2645841 TAA TAA TAA TAA TAA TAA TAA TTAA TAA TAA CAA -AA TAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA
2645885 ATAGGCAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
2 4 0.11
3 30 0.81
4 3 0.08
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:2645883 original size:16 final size:18
Alignment explanation
Indices: 2645841--2645884 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
2645831 TTTTGGCCTG
*
2645841 TAATAATAATAATAATAA
1 TAATAATAATAACAATAA
2645859 TAATTAATAATAACAA-AA
1 TAA-TAATAATAACAATAA
2645877 TAA-AATAA
1 TAATAATAA
2645885 ATAGGCAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 5 0.21
18 8 0.33
19 11 0.46
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (18 bp):
TAATAATAATAACAATAA
Found at i:2646104 original size:35 final size:35
Alignment explanation
Indices: 2646053--2646689 Score: 195
Period size: 38 Copynumber: 17.5 Consensus size: 35
2646043 AAGGGGAATA
*
2646053 AGTTCTTCAGACTATGAACTTATTCTCTTCAGATG
1 AGTTCTTCAGATTATGAACTTATTCTCTTCAGATG
* * *
2646088 AGTTCTTCAAATTATGAACTCCTTCTTCCTCTTCATATG
1 AGTTCTTCAGATTATGAA---CTTATT-CTCTTCAGATG
* * *
2646127 AGTTATT-AGA-TATGAACTCTTTTCTCTTCAGACG
1 AGTTCTTCAGATTATGAACT-TATTCTCTTCAGATG
* ** *
2646161 AGTTCTTCAGATTATGAACTCATT-T-TTCCTATTC
1 AGTTCTTCAGATTATGAACTTATTCTCTTCAGA-TG
* * * *
2646195 AG-ACGT-AGATTATGAACTCCTTTTTTCTCTTCAGACG
1 AGTTCTTCAGATTATGAA---C-TTATTCTCTTCAGATG
* * *
2646232 AGTTCTTCAGATTATGAACTCATTTTTCCTATTCAGACG
1 AGTTCTTCAGATTATGAA--C-TTATT-CTCTTCAGATG
* * * *
2646271 AGTTC-TCAGATTATGAACTCCTTCTTCCTATTCAAACG
1 AGTTCTTCAGATTATGAA---CTTATT-CTCTTCAGATG
* * *
2646309 AGTTCTTCAGATTATGAACTCCTTCTTCCCTTCAGATT
1 AGTTCTTCAGATTATGAA---CTTATTCTCTTCAGATG
** * *
2646347 ATGAAC-TC--ATT-T----TT-TCCTCTTTAGATG
1 A-GTTCTTCAGATTATGAACTTATTCTCTTCAGATG
* *
2646374 AGTTCTTCAGATTATGAACTCATTTTTTCTCTTCAGACG
1 AGTTCTTCAGATTATGAA--C--TTATTCTCTTCAGATG
* *
2646413 AGTTCTTCAGA-TATGAACTCATTCTTCCTCTTCAGACG
1 AGTTCTTCAGATTATGAA--C-TTATT-CTCTTCAGATG
* * * *
2646451 A--TCTTCAGACTATGAACTCTTCTTCATTTTTCAGACG
1 AGTTCTTCAGATTATGAA--CTTATTC--TCTTCAGATG
* * *
2646488 AGTTCTTCAGATTA-AAAC-TCTTCTTCTTCAGACG
1 AGTTCTTCAGATTATGAACTTATTC-TCTTCAGATG
** *
2646522 AGTTCTTCAGATTATGAACTCCCTTCCTCTTCATATG
1 AGTTCTTCAGATTATGAACT-TATT-CTCTTCAGATG
** * *
2646559 AGTTTCTTCAGACCATGAACTCCTTATTCCTCTTCAAACG
1 AG-TTCTTCAGATTATGAA---CTTATT-CTCTTCAGATG
* * * *
2646599 AGTTCTTCA-A-AATGAACTCTTCTTCCTCTTCAAACG
1 AGTTCTTCAGATTATGAA--CTTATT-CTCTTCAGATG
* ** *
2646635 AGTTCTTCAGACTATGAACTCCTTCTTTCTTCAGACG
1 AGTTCTTCAGATTATGAACTTATTC--TCTTCAGATG
2646672 AGTTCTTCAGATTATGAA
1 AGTTCTTCAGATTATGAA
2646690 ACTCCTTCTT
Statistics
Matches: 477, Mismatches: 74, Indels: 100
0.73 0.11 0.15
Matches are distributed among these distances:
26 2 0.00
27 12 0.03
28 2 0.00
29 3 0.01
30 1 0.00
32 10 0.02
33 6 0.01
34 44 0.09
35 36 0.08
36 59 0.12
37 77 0.16
38 106 0.22
39 103 0.22
40 14 0.03
41 2 0.00
ACGTcount: A:0.24, C:0.24, G:0.12, T:0.40
Consensus pattern (35 bp):
AGTTCTTCAGATTATGAACTTATTCTCTTCAGATG
Found at i:2646258 original size:39 final size:38
Alignment explanation
Indices: 2646053--2646749 Score: 565
Period size: 39 Copynumber: 19.0 Consensus size: 38
2646043 AAGGGGAATA
* * *
2646053 AGTTCTTCAGACTATGAA--CTTATT-CTCTTCAGATG
1 AGTTCTTCAGATTATGAACTCTTTTTCCTCTTCAGACG
* * * *
2646088 AGTTCTTCAAATTATGAACTCCTTCTTCCTCTTCATATG
1 AGTTCTTCAGATTATGAACT-CTTTTTCCTCTTCAGACG
*
2646127 AGTTATT-AGA-TATGAACTC-TTTT-CTCTTCAGACG
1 AGTTCTTCAGATTATGAACTCTTTTTCCTCTTCAGACG
*
2646161 AGTTCTTCAGATTATGAACTCATTTTTCCTATTCAGAC-
1 AGTTCTTCAGATTATGAACTC-TTTTTCCTCTTCAGACG
*
2646199 -G----T-AGATTATGAACTCCTTTTTTCTCTTCAGACG
1 AGTTCTTCAGATTATGAACT-CTTTTTCCTCTTCAGACG
*
2646232 AGTTCTTCAGATTATGAACTCATTTTTCCTATTCAGACG
1 AGTTCTTCAGATTATGAACTC-TTTTTCCTCTTCAGACG
* * *
2646271 AGTTC-TCAGATTATGAACTCCTTCTTCCTATTCAAACG
1 AGTTCTTCAGATTATGAACT-CTTTTTCCTCTTCAGACG
*
2646309 AGTTCTTCAGATTATGAACTCCTTCTTCC-CTTC--A-G
1 AGTTCTTCAGATTATGAACT-CTTTTTCCTCTTCAGACG
* * * *
2646344 A-TT-AT--GA--ACT-CA-T-TTTTTCCTCTTTAGATG
1 AGTTCTTCAGATTA-TGAACTCTTTTTCCTCTTCAGACG
*
2646374 AGTTCTTCAGATTATGAACTCATTTTTTCTCTTCAGACG
1 AGTTCTTCAGATTATGAACTC-TTTTTCCTCTTCAGACG
*
2646413 AGTTCTTCAGA-TATGAACTCATTCTTCCTCTTCAGACG
1 AGTTCTTCAGATTATGAACTC-TTTTTCCTCTTCAGACG
* * * *
2646451 A--TCTTCAGACTATGAACTCTTCTTCATTTTTCAGACG
1 AGTTCTTCAGATTATGAACTCTTTTTC-CTCTTCAGACG
* *
2646488 AGTTCTTCAGATTA-AAACTC---TTCTTCTTCAGACG
1 AGTTCTTCAGATTATGAACTCTTTTTCCTCTTCAGACG
** * *
2646522 AGTTCTTCAGATTATGAACTC-CCTTCCTCTTCATATG
1 AGTTCTTCAGATTATGAACTCTTTTTCCTCTTCAGACG
** * *
2646559 AGTTTCTTCAGACCATGAACTCCTTATTCCTCTTCAAACG
1 AG-TTCTTCAGATTATGAACT-CTTTTTCCTCTTCAGACG
* * *
2646599 AGTTCTTCA-A-AATGAACTCTTCTTCCTCTTCAAACG
1 AGTTCTTCAGATTATGAACTCTTTTTCCTCTTCAGACG
* *
2646635 AGTTCTTCAGACTATGAACTCCTTCTT--TCTTCAGACG
1 AGTTCTTCAGATTATGAACT-CTTTTTCCTCTTCAGACG
* *
2646672 AGTTCTTCAGATTATGAAACTCCTTCTTCCTCTTCATACG
1 AGTTCTTCAGATTATG-AACT-CTTTTTCCTCTTCAGACG
* * *
2646712 AGTTCTTTAGACTATGAACTCCTTCTTCCTCTTCAGAC
1 AGTTCTTCAGATTATGAACT-CTTTTTCCTCTTCAGAC
2646750 TATGAACTCA
Statistics
Matches: 558, Mismatches: 53, Indels: 98
0.79 0.07 0.14
Matches are distributed among these distances:
26 6 0.01
27 3 0.01
28 1 0.00
29 3 0.01
30 3 0.01
31 4 0.01
32 27 0.05
33 3 0.01
34 44 0.08
35 33 0.06
36 53 0.09
37 74 0.13
38 116 0.21
39 151 0.27
40 37 0.07
ACGTcount: A:0.24, C:0.24, G:0.11, T:0.40
Consensus pattern (38 bp):
AGTTCTTCAGATTATGAACTCTTTTTCCTCTTCAGACG
Found at i:2646328 original size:77 final size:76
Alignment explanation
Indices: 2646053--2646749 Score: 639
Period size: 77 Copynumber: 9.5 Consensus size: 76
2646043 AAGGGGAATA
* * *
2646053 AGTTCTTCAGACTATGAA---CTTATT-CTCTTCAGATGAGTTCTTCAAATTATGAACTCCTTCT
1 AGTTCTTCAGA-TATGAACTCCTTCTTCCTCTTCAGACGAGTTCTTCAGATTATGAACT-CTTCT
* *
2646114 TCCTCTTCATATG
64 TCCTCTTCAGACG
* *
2646127 AGTTATT-AGATATGAACT-CTT-TT-CTCTTCAGACGAGTTCTTCAGATTATGAACTCATTTTT
1 AGTTCTTCAGATATGAACTCCTTCTTCCTCTTCAGACGAGTTCTTCAGATTATGAACTC-TTCTT
*
2646188 CCTATTCAGAC-
65 CCTCTTCAGACG
* * *
2646199 -G----T-AGATTATGAACTCCTTTTTTCTCTTCAGACGAGTTCTTCAGATTATGAACTCATTTT
1 AGTTCTTCAGA-TATGAACTCCTTCTTCCTCTTCAGACGAGTTCTTCAGATTATGAACTC-TTCT
*
2646258 TCCTATTCAGACG
64 TCCTCTTCAGACG
* *
2646271 AGTTC-TCAGATTATGAACTCCTTCTTCCTATTCAAACGAGTTCTTCAGATTATGAACTCCTTCT
1 AGTTCTTCAGA-TATGAACTCCTTCTTCCTCTTCAGACGAGTTCTTCAGATTATGAACT-CTTCT
2646335 TCC-CTTC--A-G
64 TCCTCTTCAGACG
* * * * *
2646344 A-----T----TATGAACTCATTTTTTCCTCTTTAGATGAGTTCTTCAGATTATGAACTCATTTT
1 AGTTCTTCAGATATGAACTC-CTTCTTCCTCTTCAGACGAGTTCTTCAGATTATGAACTC-TTCT
*
2646400 TTCTCTTCAGACG
64 TCCTCTTCAGACG
* *
2646413 AGTTCTTCAGATATGAACTCATTCTTCCTCTTCAGACGA--TCTTCAGACTATGAACTCTTCTTC
1 AGTTCTTCAGATATGAACTCCTTCTTCCTCTTCAGACGAGTTCTTCAGATTATGAACTCTTCTTC
* *
2646476 ATTTTTCAGACG
66 -CTCTTCAGACG
* *
2646488 AGTTCTTCAGAT-TAAAACT-CTTC-T--TCTTCAGACGAGTTCTTCAGATTATGAACTC-CCTT
1 AGTTCTTCAGATAT-GAACTCCTTCTTCCTCTTCAGACGAGTTCTTCAGATTATGAACTCTTCTT
* *
2646547 CCTCTTCATATG
65 CCTCTTCAGACG
* * * *
2646559 AGTTTCTTCAGACCATGAACTCCTTATTCCTCTTCAAACGAGTTCTTCA-A-AATGAACTCTTCT
1 AG-TTCTTCAGA-TATGAACTCCTTCTTCCTCTTCAGACGAGTTCTTCAGATTATGAACTCTTCT
*
2646622 TCCTCTTCAAACG
64 TCCTCTTCAGACG
2646635 AGTTCTTCAGACTATGAACTCCTTCTT--TCTTCAGACGAGTTCTTCAGATTATGAAACTCCTTC
1 AGTTCTTCAGA-TATGAACTCCTTCTTCCTCTTCAGACGAGTTCTTCAGATTATG-AACT-CTTC
*
2646698 TTCCTCTTCATACG
63 TTCCTCTTCAGACG
*
2646712 AGTTCTTTAGACTATGAACTCCTTCTTCCTCTTCAGAC
1 AGTTCTTCAGA-TATGAACTCCTTCTTCCTCTTCAGAC
2646750 TATGAACTCA
Statistics
Matches: 524, Mismatches: 52, Indels: 89
0.79 0.08 0.13
Matches are distributed among these distances:
64 10 0.02
65 37 0.07
66 4 0.01
67 4 0.01
68 9 0.02
69 6 0.01
70 2 0.00
71 70 0.13
72 20 0.04
73 89 0.17
74 24 0.05
75 77 0.15
76 24 0.05
77 129 0.25
78 10 0.02
79 9 0.02
ACGTcount: A:0.24, C:0.24, G:0.11, T:0.40
Consensus pattern (76 bp):
AGTTCTTCAGATATGAACTCCTTCTTCCTCTTCAGACGAGTTCTTCAGATTATGAACTCTTCTTC
CTCTTCAGACG
Found at i:2646336 original size:20 final size:20
Alignment explanation
Indices: 2646276--2646336 Score: 54
Period size: 20 Copynumber: 3.1 Consensus size: 20
2646266 AGACGAGTTC
2646276 TCAGATTATGAACTCCTTCT
1 TCAGATTATGAACTCCTTCT
** ***
2646296 TCCTATTCA--AACGAGTTCT
1 TCAGATT-ATGAACTCCTTCT
2646315 TCAGATTATGAACTCCTTCT
1 TCAGATTATGAACTCCTTCT
2646335 TC
1 TC
2646337 CCTTCAGATT
Statistics
Matches: 28, Mismatches: 10, Indels: 6
0.64 0.23 0.14
Matches are distributed among these distances:
18 1 0.04
19 12 0.43
20 14 0.50
21 1 0.04
ACGTcount: A:0.25, C:0.26, G:0.10, T:0.39
Consensus pattern (20 bp):
TCAGATTATGAACTCCTTCT
Found at i:2646384 original size:142 final size:143
Alignment explanation
Indices: 2646075--2646749 Score: 536
Period size: 148 Copynumber: 4.6 Consensus size: 143
2646065 TATGAACTTA
* * * * * * *
2646075 TTCTCTTCAGATGAGTTCTTCAAATTATGAACTCCTTCTTCCTCTTCATATGAGTTATTAGATAT
1 TTCTCTTCAGATGAGTTCTTCAGATTATGAACTCATTTTTCCTCTTCAGACGAGTTCTCAGATAT
* *
2646140 GAACT-CTT-TT-CTCTTCAGACGAGTTCTTCAGATTATGAACTCATTTTTCCTATTCAGACGTA
66 GAACTCCTTCTTCCTCTTCAGACGAGTTCTTCAGATTATGAACTCCTTCTTCCTATT---ACG-A
*
2646202 GATTATGAACTCCTTTT
127 GATTATGAACTCATTTT
* *
2646219 TTCTCTTCAGACGAGTTCTTCAGATTATGAACTCATTTTTCCTATTCAGACGAGTTCTCAGATTA
1 TTCTCTTCAGATGAGTTCTTCAGATTATGAACTCATTTTTCCTCTTCAGACGAGTTCTCAGA-TA
* * *
2646284 TGAACTCCTTCTTCCTATTCAAACGAGTTCTTCAGATTATGAACTCCTTCTTCC-CTT-C-AGAT
65 TGAACTCCTTCTTCCTCTTCAGACGAGTTCTTCAGATTATGAACTCCTTCTTCCTATTACGAGAT
2646346 TATGAACTCATTTT
130 TATGAACTCATTTT
* *
2646360 TTCCTCTTTAGATGAGTTCTTCAGATTATGAACTCATTTTTTCTCTTCAGACGAGTTCTTCAGAT
1 TT-CTCTTCAGATGAGTTCTTCAGATTATGAACTCATTTTTCCTCTTCAGACGAGTTC-TCAGAT
* * * * *
2646425 ATGAACTCATTCTTCCTCTTCAGACGA--TCTTCAGACTATGAACT-CTTCTTCATTTTTCAGAC
64 ATGAACTCCTTCTTCCTCTTCAGACGAGTTCTTCAGATTATGAACTCCTTCTTCCTATTAC-GA-
* * * * ** *
2646487 GAGTTCTTCAGATTAAAACTC
127 GA-TT-ATGA-ACT-CATTTT
* ** * *
2646508 TTCTTCTTCAGACGAGTTCTTCAGATTATGAACTC--CCTTCCTCTTCATATGAGTTTCTTCAGA
1 TTC-TCTTCAGATGAGTTCTTCAGATTATGAACTCATTTTTCCTCTTCAGACGAG-TTC-TCAGA
* * * * *
2646571 CCATGAACTCCTTATTCCTCTTCAAACGAGTTCTTCA-A-AATGAACT-CTTCTTCCTCTTCAAA
63 -TATGAACTCCTTCTTCCTCTTCAGACGAGTTCTTCAGATTATGAACTCCTTCTTCCTATT---A
* * *
2646633 CGAGTTCTTCAGACTATGAACTC-CTTC
124 C--G------AGATTATGAACTCATTTT
* * * * *
2646660 TT-TCTTCAGACGAGTTCTTCAGATTATGAAACTCCTTCTTCCTCTTCATACGAGTTCTTTAGAC
1 TTCTCTTCAGATGAGTTCTTCAGATTATG-AACTCATTTTTCCTCTTCAGACGAGTTC-TCAGA-
2646724 TATGAACTCCTTCTTCCTCTTCAGAC
63 TATGAACTCCTTCTTCCTCTTCAGAC
2646750 TATGAACTCA
Statistics
Matches: 438, Mismatches: 60, Indels: 58
0.79 0.11 0.10
Matches are distributed among these distances:
139 7 0.02
140 18 0.04
141 20 0.05
142 76 0.17
143 7 0.02
144 55 0.13
145 10 0.02
146 18 0.04
147 16 0.04
148 110 0.25
149 1 0.00
150 32 0.07
151 6 0.01
152 38 0.09
153 16 0.04
154 2 0.00
155 2 0.00
156 1 0.00
157 2 0.00
158 1 0.00
ACGTcount: A:0.24, C:0.25, G:0.11, T:0.40
Consensus pattern (143 bp):
TTCTCTTCAGATGAGTTCTTCAGATTATGAACTCATTTTTCCTCTTCAGACGAGTTCTCAGATAT
GAACTCCTTCTTCCTCTTCAGACGAGTTCTTCAGATTATGAACTCCTTCTTCCTATTACGAGATT
ATGAACTCATTTT
Found at i:2646417 original size:104 final size:102
Alignment explanation
Indices: 2646235--2646448 Score: 313
Period size: 104 Copynumber: 2.1 Consensus size: 102
2646225 TCAGACGAGT
*
2646235 TCTTCAGATTATGAACTCATTTTTCCTATTCAGACGAGTTCTCAGATTATGAACTCCTTCTTCCT
1 TCTTCAGATTATGAACTCATTTTTCCTATTCAGACGAGTTCTCAGATTATGAACTCATTCTTCCT
*
2646300 ATTCAAACGAGTTCTTCAGATTATGAACTCCTTCTTCC
66 ATTCAAACGAGTTCTTCAGA-TATGAACTCATTCTTCC
* * * * *
2646338 -CTTCAGATTATGAACTCATTTTTTCCTCTTTAGATGAGTTCTTCAGATTATGAACTCATTTTTT
1 TCTTCAGATTATGAACTCA-TTTTTCCTATTCAGACGAGTTC-TCAGATTATGAACTCATTCTTC
* *
2646402 CTCTTCAGACGAGTTCTTCAGATATGAACTCATTCTTCC
64 CTATTCAAACGAGTTCTTCAGATATGAACTCATTCTTCC
2646441 TCTTCAGA
1 TCTTCAGA
2646449 CGATCTTCAG
Statistics
Matches: 99, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
102 18 0.18
103 35 0.35
104 46 0.46
ACGTcount: A:0.24, C:0.23, G:0.11, T:0.42
Consensus pattern (102 bp):
TCTTCAGATTATGAACTCATTTTTCCTATTCAGACGAGTTCTCAGATTATGAACTCATTCTTCCT
ATTCAAACGAGTTCTTCAGATATGAACTCATTCTTCC
Found at i:2646465 original size:75 final size:76
Alignment explanation
Indices: 2646338--2646749 Score: 443
Period size: 75 Copynumber: 5.4 Consensus size: 76
2646328 TCCTTCTTCC
* * * * * * *
2646338 CTTCAGATTATGAACTCATTTTTTCCTCTTTAGATGAGTTCTTCAGATTATGAACTCATTTTTTC
1 CTTCAGACTATGAACTC-CTTCTTCCTCTTCAGACGAG-TCTTCAGATTATGAACTC-TTCTTCC
2646403 TCTTCAGACGAGTT
63 TCTTCAGACGAGTT
* * * *
2646417 CTTCAGA-TATGAACTCATTCTTCCTCTTCAGACGA-TCTTCAGACTATGAACTCTTCTTCATTT
1 CTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAGTCTTCAGATTATGAACTCTTCTTC-CTC
2646480 TTCAGACGAGTT
65 TTCAGACGAGTT
* * *
2646492 CTTCAGATTA-AAACT-CTTC-T--TCTTCAGACGAGTTCTTCAGATTATGAACTC-CCTTCCTC
1 CTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAG-TCTTCAGATTATGAACTCTTCTTCCTC
* *
2646551 TTCATATGAGTTT
65 TTCAGACGAG-TT
* * * *
2646564 CTTCAGACCATGAACTCCTTATTCCTCTTCAAACGAGTTCTTCA-A-AATGAACTCTTCTTCCTC
1 CTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAG-TCTTCAGATTATGAACTCTTCTTCCTC
*
2646627 TTCAAACGAGTT
65 TTCAGACGAGTT
2646639 CTTCAGACTATGAACTCCTTCTT--TCTTCAGACGAGTTCTTCAGATTATGAAACTCCTTCTTCC
1 CTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAG-TCTTCAGATTATG-AACT-CTTCTTCC
*
2646702 TCTTCATACGAGTT
63 TCTTCAGACGAGTT
*
2646716 CTTTAGACTATGAACTCCTTCTTCCTCTTCAGAC
1 CTTCAGACTATGAACTCCTTCTTCCTCTTCAGAC
2646750 TATGAACTCA
Statistics
Matches: 284, Mismatches: 32, Indels: 34
0.81 0.09 0.10
Matches are distributed among these distances:
71 20 0.07
72 14 0.05
73 40 0.14
74 11 0.04
75 76 0.27
76 22 0.08
77 76 0.27
78 9 0.03
79 16 0.06
ACGTcount: A:0.24, C:0.26, G:0.11, T:0.40
Consensus pattern (76 bp):
CTTCAGACTATGAACTCCTTCTTCCTCTTCAGACGAGTCTTCAGATTATGAACTCTTCTTCCTCT
TCAGACGAGTT
Found at i:2646471 original size:104 final size:103
Alignment explanation
Indices: 2646270--2646471 Score: 217
Period size: 104 Copynumber: 2.0 Consensus size: 103
2646260 CTATTCAGAC
* *
2646270 GAGTTCTCAGATTATGAACTCCTTCTTCCTATTCAAACGAGTTCTTCAGATTATGAACTCCTTCT
1 GAGTTCTCAGATTATGAACTCATTCTTCCTATTCAAACGAGTTCTTCAGATTATGAACTCATTCT
** * * * * ***
2646335 TCCCTTCAGATTATGAACTCATTTTTTCCTCTTTAGAT
66 TCCCTTCAGACGATCAACACACTATGAACTCTTTAGAT
* * * *
2646373 GAGTTCTTCAGATTATGAACTCATTTTTTCTCTTCAGACGAGTTCTTCAGA-TATGAACTCATTC
1 GAGTTC-TCAGATTATGAACTCATTCTTCCTATTCAAACGAGTTCTTCAGATTATGAACTCATTC
** *
2646437 TTCCTCTTCAGACGATCTTCAGACTATGAACTCTT
65 TTCC-CTTCAGACGATCAACACACTATGAACTCTT
2646472 CTTCATTTTT
Statistics
Matches: 79, Mismatches: 18, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
103 22 0.28
104 57 0.72
ACGTcount: A:0.24, C:0.24, G:0.12, T:0.41
Consensus pattern (103 bp):
GAGTTCTCAGATTATGAACTCATTCTTCCTATTCAAACGAGTTCTTCAGATTATGAACTCATTCT
TCCCTTCAGACGATCAACACACTATGAACTCTTTAGAT
Found at i:2646525 original size:213 final size:210
Alignment explanation
Indices: 2646146--2646543 Score: 522
Period size: 213 Copynumber: 1.9 Consensus size: 210
2646136 ATATGAACTC
2646146 TTTTCTCTTCAGACGAGTTCTTCAGATTATGAACTCATTTTTCCTATTCAGACGTAGATTATGAA
1 TTTTCTCTTCAGACGAGTTCTTCAGATTATGAACTCATTTTTCCTATTCAGACGTAGATTATGAA
* * * * *
2646211 CTCCTTTTTTCTCTTCAGACGAGTTCTTCAGATTATGAACTCATTTTTCCTATTCAGACGAGTTC
66 CTCATTCTTCCTCTTCAGACGAG-TCTTCAGACTATGAACTCATTCTTCCTATTCAGACGAGTTC
*
2646276 TCAGATTATGAACTCCTTCTTCCTATTCAAACGAGTTCTTCAGATTATGAACTCCTTCTTCCCTT
130 TCAGATTATAAACTCCTTCTTCC-ATTCAAACGAGTTCTTCAGATTATGAACTCCTTCTTCCCTT
2646341 CAGATTATGAACTCATT
194 CAGATTATGAACTCATT
* * * *
2646358 TTTTCCTCTTTAGATGAGTTCTTCAGATTATGAACTCATTTTTTCTCTTCAGACGAGTTCTTCAG
1 TTTT-CTCTTCAGACGAGTTCTTCAGATTATGAACTCATTTTTCCTATTCAGAC--G----T-AG
* *
2646423 A-TATGAACTCATTCTTCCTCTTCAGACGA-TCTTCAGACTATGAACTC-TTCTTCATTTTTCAG
58 ATTATGAACTCATTCTTCCTCTTCAGACGAGTCTTCAGACTATGAACTCATTCTTC-CTATTCAG
*
2646485 ACGAGTTCTTCAGATTA-AAACT-CTTCTT-C-TTCAGACGAGTTCTTCAGATTATGAACTCC
122 ACGAGTTC-TCAGATTATAAACTCCTTCTTCCATTCAAACGAGTTCTTCAGATTATGAACTCC
2646544 CTTCCTCTTC
Statistics
Matches: 163, Mismatches: 13, Indels: 19
0.84 0.07 0.10
Matches are distributed among these distances:
212 4 0.02
213 74 0.45
215 2 0.01
216 11 0.07
217 35 0.21
218 8 0.05
219 26 0.16
220 3 0.02
ACGTcount: A:0.24, C:0.23, G:0.12, T:0.41
Consensus pattern (210 bp):
TTTTCTCTTCAGACGAGTTCTTCAGATTATGAACTCATTTTTCCTATTCAGACGTAGATTATGAA
CTCATTCTTCCTCTTCAGACGAGTCTTCAGACTATGAACTCATTCTTCCTATTCAGACGAGTTCT
CAGATTATAAACTCCTTCTTCCATTCAAACGAGTTCTTCAGATTATGAACTCCTTCTTCCCTTCA
GATTATGAACTCATT
Found at i:2646651 original size:113 final size:113
Alignment explanation
Indices: 2646338--2646749 Score: 414
Period size: 113 Copynumber: 3.6 Consensus size: 113
2646328 TCCTTCTTCC
* * * * * * ** * *
2646338 CTTCAGATTATGAACTCATTTTTTCCTCTTTAGATGAGTTCTTCAGATTATGAACTCATTTTTTC
1 CTTCAGACTATGAACTC-CTTCTTCCTCTTCAAACGAGTTCTTCAGACAATGAACTC-TTCTTCC
*
2646403 TCTTCAGACGAGTTCTTCAGATATGAACTCATTCTTCCTCTTCAGACGA--T
64 TCTTCAGACGAGTTCTTCAGATATGAACTC--CCTTCCTCTTCAGACGAGTT
* * * *
2646453 CTTCAGACTATGAACT-CTTCTTCATTTTTCAGACGAGTTCTTCAGATTAA--AACTCTTC-T--
1 CTTCAGACTATGAACTCCTTCTTC-CTCTTCAAACGAGTTCTTCAGA-CAATGAACTCTTCTTCC
* *
2646512 TCTTCAGACGAGTTCTTCAGATTATGAACTCCCTTCCTCTTCATATGAGTTT
64 TCTTCAGACGAGTTCTTCAGA-TATGAACTCCCTTCCTCTTCAGACGAG-TT
* *
2646564 CTTCAGACCATGAACTCCTTATTCCTCTTCAAACGAGTTCTTCA-A-AATGAACTCTTCTTCCTC
1 CTTCAGACTATGAACTCCTTCTTCCTCTTCAAACGAGTTCTTCAGACAATGAACTCTTCTTCCTC
* *
2646627 TTCAAACGAGTTCTTCAGACTATGAACT-CCTTCTTTCTTCAGACGAGTT
66 TTCAGACGAGTTCTTCAGA-TATGAACTCCCTTC-CTCTTCAGACGAGTT
* * * *
2646676 CTTCAGATTATGAAACTCCTTCTTCCTCTTCATACGAGTTCTTTAGACTATGAACTCCTTCTTCC
1 CTTCAGACTATG-AACTCCTTCTTCCTCTTCAAACGAGTTCTTCAGACAATGAACT-CTTCTTCC
2646741 TCTTCAGAC
64 TCTTCAGAC
2646750 TATGAACTCA
Statistics
Matches: 251, Mismatches: 29, Indels: 33
0.80 0.09 0.11
Matches are distributed among these distances:
108 16 0.06
109 21 0.08
110 18 0.07
111 35 0.14
112 25 0.10
113 77 0.31
114 19 0.08
115 24 0.10
116 16 0.06
ACGTcount: A:0.24, C:0.26, G:0.11, T:0.40
Consensus pattern (113 bp):
CTTCAGACTATGAACTCCTTCTTCCTCTTCAAACGAGTTCTTCAGACAATGAACTCTTCTTCCTC
TTCAGACGAGTTCTTCAGATATGAACTCCCTTCCTCTTCAGACGAGTT
Done.