Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032253.1 Gossypioides kirkii chromosome KI_11
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: 55708359
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 112 of 182
Found at i:36507501 original size:59 final size:59
Alignment explanation
Indices: 36507470--36507688 Score: 325
Period size: 59 Copynumber: 3.7 Consensus size: 59
36507460 AAACTTTCCT
* *
36507470 AAATCCCATTTTTAACCCCGATTTCACCAAAATTTACCATTTTACCAC-CGAAGCTTCTA
1 AAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACC-CTCGAAGCTTCTA
** * *
36507529 AAATTCTGTTTTTAACCCTGATTTCACTAAAAATTACCATTTTACCCTCGAAGCTTCTA
1 AAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCTCGAAGCTTCTA
* * *
36507588 AAATTCCATTTTTAACCCTGATTTCACCAAAAATTACCATTTTACCCTCGAATCTTTTA
1 AAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCTCGAAGCTTCTA
*
36507647 AAATTCCATTTTTAATCCCGATTTCACC-AAAATTACCATTTT
1 AAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTT
36507689 GGCCCCGGGT
Statistics
Matches: 146, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
58 15 0.10
59 131 0.90
ACGTcount: A:0.32, C:0.26, G:0.05, T:0.37
Consensus pattern (59 bp):
AAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCTCGAAGCTTCTA
Found at i:36507575 original size:29 final size:30
Alignment explanation
Indices: 36507538--36507688 Score: 106
Period size: 29 Copynumber: 5.1 Consensus size: 30
36507528 AAAATTCTGT
36507538 TTTTAACCCTGATTTCACTAAAAATTACCA
1 TTTTAACCCTGATTTCACTAAAAATTACCA
*
36507568 TTTT-ACCCTCGAAGCTT--CT-AAAATT-CCA
1 TTTTAACCCT-G-A-TTTCACTAAAAATTACCA
*
36507596 TTTTTAACCCTGATTTCACCAAAAATTACCA
1 -TTTTAACCCTGATTTCACTAAAAATTACCA
* ** *
36507627 TTTT-ACCCTCGA-ATCTTTTAAAATT-CCA
1 TTTTAACCCT-GATTTCACTAAAAATTACCA
*
36507655 TTTTTAATCCC-GATTTCAC-CAAAATTACCA
1 -TTTTAA-CCCTGATTTCACTAAAAATTACCA
36507685 TTTT
1 TTTT
36507689 GGCCCCGGGT
Statistics
Matches: 94, Mismatches: 12, Indels: 31
0.69 0.09 0.23
Matches are distributed among these distances:
27 2 0.02
28 7 0.07
29 46 0.49
30 30 0.32
31 7 0.07
32 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.04, T:0.39
Consensus pattern (30 bp):
TTTTAACCCTGATTTCACTAAAAATTACCA
Found at i:36512460 original size:21 final size:22
Alignment explanation
Indices: 36512418--36512460 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
36512408 AAATATTAAA
*
36512418 TTAAAATATTATAAATATATAT
1 TTAAAATATTATAAAAATATAT
*
36512440 TTAAAATTTTA-AAAAATATAT
1 TTAAAATATTATAAAAATATAT
36512461 GGGTGAGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
TTAAAATATTATAAAAATATAT
Found at i:36513563 original size:30 final size:29
Alignment explanation
Indices: 36513538--36513649 Score: 93
Period size: 30 Copynumber: 3.8 Consensus size: 29
36513528 TTTTTATAGG
*
36513538 TCAAAATTTTTTTTTACTAACTTTTAAG-TA
1 TCAAAA-TTTTTTTTA-TAACTTTTAAGAGA
* * * * *
36513568 TCTCAAATTTTTTTTAAAATTTTTAAGGGT
1 TC-AAAATTTTTTTTATAACTTTTAAGAGA
*
36513598 TTAAAATTTTTTTTATTAACTTTTAAGAGA
1 TCAAAATTTTTTTTA-TAACTTTTAAGAGA
* *
36513628 TCTAAATTTTTTTT-TAAATTTT
1 TCAAAATTTTTTTTATAACTTTT
36513650 TATTATTTTG
Statistics
Matches: 65, Mismatches: 14, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
28 7 0.11
29 21 0.32
30 34 0.52
31 3 0.05
ACGTcount: A:0.32, C:0.06, G:0.05, T:0.56
Consensus pattern (29 bp):
TCAAAATTTTTTTTATAACTTTTAAGAGA
Found at i:36513591 original size:29 final size:29
Alignment explanation
Indices: 36513545--36513641 Score: 97
Period size: 30 Copynumber: 3.3 Consensus size: 29
36513535 AGGTCAAAAT
* *
36513545 TTTTTTTTACTAACTTTTAAGTATCTCAAA
1 TTTTTTTTACAAACTTTTAAGGATCT-AAA
* * *
36513575 TTTTTTTTA-AAATTTTTAAGGGTTTAAAA
1 TTTTTTTTACAAACTTTTAAGGATCT-AAA
**
36513604 TTTTTTTTATTAACTTTTAAGAGATCTAAA
1 TTTTTTTTACAAACTTTTAAG-GATCTAAA
36513634 TTTTTTTT
1 TTTTTTTT
36513642 TAAATTTTTA
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
29 23 0.42
30 29 0.53
31 3 0.05
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.58
Consensus pattern (29 bp):
TTTTTTTTACAAACTTTTAAGGATCTAAA
Found at i:36513650 original size:29 final size:29
Alignment explanation
Indices: 36513540--36513651 Score: 109
Period size: 29 Copynumber: 3.8 Consensus size: 29
36513530 TTTATAGGTC
*
36513540 AAAATTTTTTTTTACTAACTTTTAAGTATCT
1 AAAATTTTTTTTTA--AACTTTTAAGGATCT
* * * * *
36513571 CAAATTTTTTTTAAAATTTTTAAGGGTTT
1 AAAATTTTTTTTTAAACTTTTAAGGATCT
*
36513600 AAAATTTTTTTTATTAACTTTTAAGAGATCT
1 AAAATTTTTTTT-TAAACTTTTAAG-GATCT
*
36513631 -AAATTTTTTTTTAAATTTTTA
1 AAAATTTTTTTTTAAACTTTTA
36513652 TTATTTTGTT
Statistics
Matches: 65, Mismatches: 14, Indels: 6
0.76 0.16 0.07
Matches are distributed among these distances:
29 30 0.46
30 20 0.31
31 15 0.23
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.56
Consensus pattern (29 bp):
AAAATTTTTTTTTAAACTTTTAAGGATCT
Found at i:36518139 original size:20 final size:19
Alignment explanation
Indices: 36518102--36518139 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
36518092 ATTTGGAAAC
36518102 TATAAGTTTAACTAATAAT
1 TATAAGTTTAACTAATAAT
36518121 TATAA-TTTATACATAATAA
1 TATAAGTTTA-AC-TAATAA
36518140 GATTTTTCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 4 0.24
19 7 0.41
20 6 0.35
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (19 bp):
TATAAGTTTAACTAATAAT
Found at i:36518652 original size:58 final size:58
Alignment explanation
Indices: 36518573--36518700 Score: 179
Period size: 58 Copynumber: 2.2 Consensus size: 58
36518563 AATTTTAATG
* * *
36518573 ATTATTATTAAATATAATTTAATAAAAATATTA-ATTAATTTAATTATA-TTTTAACATA
1 ATTATTATTAAATACAATTTAA-AAAAATAATATA-TAATTTAATAATATTTTTAACATA
* *
36518631 ATTATTATTAAATACAATTTAAGAAAATAATATATAATTTAATAATATTTTTAATATA
1 ATTATTATTAAATACAATTTAAAAAAATAATATATAATTTAATAATATTTTTAACATA
36518689 ATTATTATTAAA
1 ATTATTATTAAA
36518701 ATATGAATTA
Statistics
Matches: 63, Mismatches: 5, Indels: 4
0.88 0.07 0.06
Matches are distributed among these distances:
57 20 0.32
58 43 0.68
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.47
Consensus pattern (58 bp):
ATTATTATTAAATACAATTTAAAAAAATAATATATAATTTAATAATATTTTTAACATA
Found at i:36518732 original size:58 final size:55
Alignment explanation
Indices: 36518573--36518732 Score: 155
Period size: 58 Copynumber: 2.8 Consensus size: 55
36518563 AATTTTAATG
* *
36518573 ATTATTATTAAATATAATTTAATAAAAATATTAATTAATTTAATTATATTTTAACATA
1 ATTATTATTAAATATAATTTAGTAAAAATATTAA-T-A-TTAATAATATTTTAACATA
* * *
36518631 ATTATTATTAAATACAATTTAAGAAAATAATATATAAT-TTAATAATATTTTTAATATA
1 ATTATTATTAAATATAATTT-AGTAAA-AATAT-TAATATTAATAATA-TTTTAACATA
36518689 ATTATTATTAAAATATGAA-TTAGTAAAAAT-TGTAATATATAATA
1 ATTATTATT-AAATAT-AATTTAGTAAAAATAT-TAATAT-TAATA
36518733 TTAGAAAAAT
Statistics
Matches: 86, Mismatches: 8, Indels: 16
0.78 0.07 0.15
Matches are distributed among these distances:
56 5 0.06
57 12 0.14
58 47 0.55
59 11 0.13
60 8 0.09
61 3 0.03
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (55 bp):
ATTATTATTAAATATAATTTAGTAAAAATATTAATATTAATAATATTTTAACATA
Found at i:36525489 original size:14 final size:13
Alignment explanation
Indices: 36525444--36525490 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
36525434 ATTCTAATGC
36525444 TATAAAAATA-AA
1 TATAAAAATATAA
* *
36525456 TATTTAAAATATTA
1 TA-TAAAAATATAA
36525470 TATAAAAATATAA
1 TATAAAAATATAA
36525483 TACTAAAA
1 TA-TAAAA
36525491 TTTGTCACGC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
12 2 0.07
13 18 0.64
14 8 0.29
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (13 bp):
TATAAAAATATAA
Found at i:36526439 original size:25 final size:25
Alignment explanation
Indices: 36526394--36526441 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
36526384 TACTAAGTAA
*
36526394 AGTTTAAGTGGAAAACTAAAAATAG
1 AGTTTAAGTGGAAAACGAAAAATAG
*
36526419 AGTTTAATTGGAAGAA-GAAAAAT
1 AGTTTAAGTGGAA-AACGAAAAAT
36526442 CGATATATGC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 18 0.90
26 2 0.10
ACGTcount: A:0.52, C:0.02, G:0.21, T:0.25
Consensus pattern (25 bp):
AGTTTAAGTGGAAAACGAAAAATAG
Found at i:36526957 original size:21 final size:21
Alignment explanation
Indices: 36526931--36526974 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
36526921 TCTAACAATG
*
36526931 TCCTGATTGGCCCATTGTGCA
1 TCCTGATTGGCCCATCGTGCA
*
36526952 TCCTGATTGGCCCGTCGTGCA
1 TCCTGATTGGCCCATCGTGCA
36526973 TC
1 TC
36526975 TTTATTTGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.11, C:0.32, G:0.25, T:0.32
Consensus pattern (21 bp):
TCCTGATTGGCCCATCGTGCA
Found at i:36528708 original size:25 final size:25
Alignment explanation
Indices: 36528644--36528710 Score: 75
Period size: 25 Copynumber: 2.7 Consensus size: 25
36528634 ACAAAAATAG
36528644 TTATCAAATATA-TTTTATTTTTCA
1 TTATCAAATATATTTTTATTTTTCA
* *
36528668 TTATTGAAATAAATTTTTATTTTT-A
1 TTA-TCAAATATATTTTTATTTTTCA
*
36528693 TTTATCAAATGTATTTTT
1 -TTATCAAATATATTTTT
36528711 TAATTTTAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
24 3 0.09
25 19 0.54
26 13 0.37
ACGTcount: A:0.33, C:0.04, G:0.03, T:0.60
Consensus pattern (25 bp):
TTATCAAATATATTTTTATTTTTCA
Found at i:36539296 original size:26 final size:27
Alignment explanation
Indices: 36539265--36539316 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
36539255 TTGAATAGTG
*
36539265 ATATTGGG-TT-AAGGTTATTGGGTCAT
1 ATATTGGGCTTAAAGGAT-TTGGGTCAT
36539291 ATATTGGGCTTAAAGGATTTGGGTCA
1 ATATTGGGCTTAAAGGATTTGGGTCA
36539317 AAGCAAAGGG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 8 0.35
27 10 0.43
28 5 0.22
ACGTcount: A:0.25, C:0.06, G:0.31, T:0.38
Consensus pattern (27 bp):
ATATTGGGCTTAAAGGATTTGGGTCAT
Found at i:36543261 original size:6 final size:6
Alignment explanation
Indices: 36543250--36543278 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
36543240 AAATAAAATA
36543250 ATATAC ATATAC ATATAC ATATAC ATATA
1 ATATAC ATATAC ATATAC ATATAC ATATA
36543279 AAAGGGATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (6 bp):
ATATAC
Found at i:36543410 original size:30 final size:30
Alignment explanation
Indices: 36543374--36543513 Score: 113
Period size: 30 Copynumber: 4.7 Consensus size: 30
36543364 ACATTAAAAT
** * *
36543374 GGTCAAATTTGAATTTTTGGAAACTTCAAG
1 GGTCAAATTAAAATTTTTGAAAAATTCAAG
* * *
36543404 GGTCAAATCAAAATTTTTAAAAAATT-TAG
1 GGTCAAATTAAAATTTTTGAAAAATTCAAG
* *
36543433 AGGTCAAATTAGAATTTTTGAAAAATTCGA-
1 -GGTCAAATTAAAATTTTTGAAAAATTCAAG
* * * *
36543463 GGTCAAATTCAAATTTTTGAAAAGTTTAAT
1 GGTCAAATTAAAATTTTTGAAAAATTCAAG
** *
36543493 GGTCAAAACATAATTTTTGAA
1 GGTCAAATTAAAATTTTTGAA
36543514 TAGTTTGGGG
Statistics
Matches: 87, Mismatches: 20, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
29 26 0.30
30 60 0.69
31 1 0.01
ACGTcount: A:0.41, C:0.08, G:0.15, T:0.36
Consensus pattern (30 bp):
GGTCAAATTAAAATTTTTGAAAAATTCAAG
Found at i:36543464 original size:29 final size:29
Alignment explanation
Indices: 36543374--36543485 Score: 118
Period size: 30 Copynumber: 3.8 Consensus size: 29
36543364 ACATTAAAAT
* * * *
36543374 GGTCAAATTTGAATTTTTGGAAACTTCAA
1 GGTCAAATTAGAATTTTTGAAAAATTCGA
* * * *
36543403 GGGTCAAATCAAAATTTTTAAAAAATTTAGA
1 -GGTCAAATTAGAATTTTTGAAAAA-TTCGA
36543434 GGTCAAATTAGAATTTTTGAAAAATTCGA
1 GGTCAAATTAGAATTTTTGAAAAATTCGA
36543463 GGTCAAATTCA-AATTTTTGAAAA
1 GGTCAAATT-AGAATTTTTGAAAA
36543486 GTTTAATGGT
Statistics
Matches: 68, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
29 25 0.37
30 40 0.59
31 3 0.04
ACGTcount: A:0.42, C:0.08, G:0.15, T:0.35
Consensus pattern (29 bp):
GGTCAAATTAGAATTTTTGAAAAATTCGA
Found at i:36543497 original size:59 final size:60
Alignment explanation
Indices: 36543371--36543513 Score: 166
Period size: 59 Copynumber: 2.4 Consensus size: 60
36543361 ATTACATTAA
* * *
36543371 AATGGTCAAATTTGAATTTTTGGAAACTTCAAGGGTCAAATCAAAATTTTTAAAAAATTT
1 AATGGTCAAATTAGAATTTTTGAAAAATTCAAGGGTCAAATCAAAATTTTTAAAAAATTT
* * *
36543431 AGA-GGTCAAATTAGAATTTTTGAAAAATTCGA-GGTCAAATTC-AAATTTTTGAAAAGTTT
1 A-ATGGTCAAATTAGAATTTTTGAAAAATTCAAGGGTCAAA-TCAAAATTTTTAAAAAATTT
** *
36543490 AATGGTCAAAACATAATTTTTGAA
1 AATGGTCAAATTAGAATTTTTGAA
36543514 TAGTTTGGGG
Statistics
Matches: 71, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
58 1 0.01
59 41 0.58
60 28 0.39
61 1 0.01
ACGTcount: A:0.42, C:0.08, G:0.15, T:0.36
Consensus pattern (60 bp):
AATGGTCAAATTAGAATTTTTGAAAAATTCAAGGGTCAAATCAAAATTTTTAAAAAATTT
Found at i:36543527 original size:30 final size:30
Alignment explanation
Indices: 36543474--36543536 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
36543464 GTCAAATTCA
* *
36543474 AATTTTTGAAAAGTTTAATGGTCAAAACAT
1 AATTTTTGAAAAGTTTAAGGGTCAAAAAAT
* **
36543504 AATTTTTGAATAGTTTGGGGGTCAAAAAAT
1 AATTTTTGAAAAGTTTAAGGGTCAAAAAAT
36543534 AAT
1 AAT
36543537 CTTAAGATAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.41, C:0.05, G:0.17, T:0.37
Consensus pattern (30 bp):
AATTTTTGAAAAGTTTAAGGGTCAAAAAAT
Found at i:36544616 original size:3 final size:3
Alignment explanation
Indices: 36544601--36544642 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
36544591 TTATAAAATA
* *
36544601 AAT AAT TAT AAT AAT AAA AAT AAT AA- AAT AAT AA- AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
36544643 AAATTACAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
2 4 0.12
3 29 0.88
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:36544646 original size:9 final size:8
Alignment explanation
Indices: 36544600--36544644 Score: 63
Period size: 8 Copynumber: 5.4 Consensus size: 8
36544590 TTTATAAAAT
36544600 AAATAATTA
1 AAATAA-TA
*
36544609 TAATAATAA
1 AAATAAT-A
36544618 AAATAATA
1 AAATAATA
36544626 AAATAATA
1 AAATAATA
36544634 AAATAATA
1 AAATAATA
36544642 AAA
1 AAA
36544645 ATTACAATTG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
8 21 0.64
9 12 0.36
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (8 bp):
AAATAATA
Found at i:36545197 original size:37 final size:38
Alignment explanation
Indices: 36545152--36545247 Score: 101
Period size: 37 Copynumber: 2.5 Consensus size: 38
36545142 TAAAAAAAAT
*
36545152 TATA-AAAATATAGAAAAATATTTTAAAAATT-AT-TAAA
1 TATATAAAATATA-AAAAATATATT-AAAATTGATATAAA
*
36545189 TAT-TAAAATATTAAAATATATATTAAAATTGATATAAA
1 TATATAAAATA-TAAAAAATATATTAAAATTGATATAAA
*
36545227 TTTATAAAATCATAAAAAATA
1 TATATAAAAT-ATAAAAAATA
36545248 AAAACTTATA
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
36 6 0.12
37 20 0.41
38 8 0.16
39 14 0.29
40 1 0.02
ACGTcount: A:0.60, C:0.01, G:0.02, T:0.36
Consensus pattern (38 bp):
TATATAAAATATAAAAAATATATTAAAATTGATATAAA
Found at i:36545244 original size:9 final size:9
Alignment explanation
Indices: 36545126--36545280 Score: 79
Period size: 9 Copynumber: 16.8 Consensus size: 9
36545116 TATTTTTCTC
36545126 ATAAAAA-T
1 ATAAAAATT
*
36545134 ATTAAAAATA
1 A-TAAAAATT
*
36545144 AAAAAAATT
1 ATAAAAATT
36545153 ATAAAAATAT
1 ATAAAAAT-T
*
36545163 AGAAAAATATT
1 A-TAAAA-ATT
*
36545174 TTAAAAATT
1 ATAAAAATT
*
36545183 ATTAAATATT
1 A-TAAAAATT
*
36545193 A-AAATATT
1 ATAAAAATT
*
36545201 A-AAATATAT
1 ATAAAAAT-T
*
36545210 ATTAAAATT
1 ATAAAAATT
*
36545219 GATATAAATT
1 -ATAAAAATT
*
36545229 -TATAAAATC
1 ATA-AAAATT
36545238 ATAAAAA--
1 ATAAAAATT
36545245 ATAAAAACTT
1 ATAAAAA-TT
*
36545255 ATAAATATT
1 ATAAAAATT
36545264 ATAAAAAATT
1 AT-AAAAATT
36545274 ATAAAAA
1 ATAAAAA
36545281 ATCTAAGAAA
Statistics
Matches: 115, Mismatches: 17, Indels: 29
0.71 0.11 0.18
Matches are distributed among these distances:
7 7 0.06
8 17 0.15
9 42 0.37
10 42 0.37
11 5 0.04
12 2 0.02
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.33
Consensus pattern (9 bp):
ATAAAAATT
Found at i:36545281 original size:10 final size:10
Alignment explanation
Indices: 36545245--36545282 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
36545235 ATCATAAAAA
*
36545245 ATAAAAACTT
1 ATAAAAAATT
*
36545255 AT-AAATATT
1 ATAAAAAATT
36545264 ATAAAAAATT
1 ATAAAAAATT
36545274 ATAAAAAAT
1 ATAAAAAAT
36545283 CTAAGAAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
9 7 0.29
10 17 0.71
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (10 bp):
ATAAAAAATT
Found at i:36554240 original size:15 final size:15
Alignment explanation
Indices: 36554204--36554241 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
36554194 ATTTATATTA
36554204 TATTATTTTAACATT
1 TATTATTTTAACATT
*
36554219 TAATATTTTACACATT
1 TATTATTTTA-ACATT
36554235 T-TTATTT
1 TATTATTT
36554242 ATTGAAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 14 0.70
16 6 0.30
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.61
Consensus pattern (15 bp):
TATTATTTTAACATT
Found at i:36554333 original size:13 final size:13
Alignment explanation
Indices: 36554315--36554352 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
36554305 TTTAAATTGC
36554315 ATAATATATAAAA
1 ATAATATATAAAA
36554328 ATAATATAATAAAA
1 ATAATAT-ATAAAA
*
36554342 AAAAT-TATAAA
1 ATAATATATAAA
36554353 CTTAACTCGG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
12 5 0.22
13 8 0.35
14 10 0.43
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (13 bp):
ATAATATATAAAA
Found at i:36554736 original size:29 final size:30
Alignment explanation
Indices: 36554691--36554907 Score: 178
Period size: 30 Copynumber: 7.3 Consensus size: 30
36554681 AATAAAAAAT
*
36554691 GGGGTCAAAAATG-AATTTTTGAAGAA-TTT-
1 GGGGTC-AAAATGTAATTTTGGAA-AAGTTTA
*
36554720 GGGGTTAAAATGTAATTTTAGG-AAAGTTTA
1 GGGGTCAAAATGTAATTTT-GGAAAAGTTTA
* *
36554750 GGGGTCAAAATGTGATTTTAGAAAAGTTTA
1 GGGGTCAAAATGTAATTTTGGAAAAGTTTA
* *
36554780 GGGGTCAAAATATAATTTTGGAAAA-TTTT
1 GGGGTCAAAATGTAATTTTGGAAAAGTTTA
* **
36554809 GAGGGTTAAAATGTAATTTTGGAAGCGTTT-
1 G-GGGTCAAAATGTAATTTTGGAAAAGTTTA
* * * *
36554839 GAGTGTCAAAATATAATTTT-AAAAAGTTTTT
1 G-GGGTCAAAATGTAATTTTGGAAAAG-TTTA
* * * *
36554870 GAGGTCAAATTGTAATTTTGGTAAAGTTAA
1 GGGGTCAAAATGTAATTTTGGAAAAGTTTA
36554900 GGGGTCAA
1 GGGGTCAA
36554908 TCGAATTTCT
Statistics
Matches: 150, Mismatches: 28, Indels: 19
0.76 0.14 0.10
Matches are distributed among these distances:
28 8 0.05
29 23 0.15
30 111 0.74
31 8 0.05
ACGTcount: A:0.36, C:0.03, G:0.24, T:0.36
Consensus pattern (30 bp):
GGGGTCAAAATGTAATTTTGGAAAAGTTTA
Found at i:36554796 original size:60 final size:59
Alignment explanation
Indices: 36554690--36554907 Score: 201
Period size: 60 Copynumber: 3.6 Consensus size: 59
36554680 AAATAAAAAA
* * *
36554690 TGGGGTCAAAAATG-AATTTTTGAAGAA-TTTGGGGTTAAAATGTAATTTTAGGAAAGTTT
1 TGGGGTC-AAAATGTAATTTTGGAA-AAGTTTGGGGTCAAAATATAATTTTAGGAAAGTTT
* * * *
36554749 AGGGGTCAAAATGTGATTTTAGAAAAGTTTAGGGGTCAAAATATAATTTT-GGAAAATTT
1 TGGGGTCAAAATGTAATTTTGGAAAAGTTT-GGGGTCAAAATATAATTTTAGGAAAGTTT
* ** * *
36554808 TGAGGGTTAAAATGTAATTTTGGAAGCGTTTGAGTGTCAAAATATAATTTTA-AAAAGTTTT
1 TG-GGGTCAAAATGTAATTTTGGAAAAGTTTG-GGGTCAAAATATAATTTTAGGAAAG-TTT
* * * *
36554869 TGAGGTCAAATTGTAATTTTGGTAAAGTTAAGGGGTCAA
1 TGGGGTCAAAATGTAATTTTGGAAAAGTT-TGGGGTCAA
36554908 TCGAATTTCT
Statistics
Matches: 128, Mismatches: 23, Indels: 15
0.77 0.14 0.09
Matches are distributed among these distances:
58 8 0.06
59 27 0.21
60 87 0.68
61 6 0.05
ACGTcount: A:0.36, C:0.03, G:0.24, T:0.36
Consensus pattern (59 bp):
TGGGGTCAAAATGTAATTTTGGAAAAGTTTGGGGTCAAAATATAATTTTAGGAAAGTTT
Found at i:36554826 original size:90 final size:89
Alignment explanation
Indices: 36554691--36554890 Score: 230
Period size: 90 Copynumber: 2.2 Consensus size: 89
36554681 AATAAAAAAT
*
36554691 GGGGTCAAAA-ATGAATTTTTGAAGAATTTGGGGTTAAAATGTAATTTTAGGAA-AGTTT-AGGG
1 GGGGTCAAAATAT-AATTTTGGAAGAATTTGGGGTTAAAATGTAATTTT-GGAAGAGTTTGA-GG
* *
36554753 GTCAAAATGTGATTTTAGAAAAG-TTTA
63 GTCAAAATATAATTTTA-AAAAGTTTTA
* *
36554780 GGGGTCAAAATATAATTTTGGAA-AATTTTGAGGGTTAAAATGTAATTTTGGAAGCGTTTGAGTG
1 GGGGTCAAAATATAATTTTGGAAGAA-TTTG-GGGTTAAAATGTAATTTTGGAAGAGTTTGAGGG
*
36554844 TCAAAATATAATTTTAAAAAGTTTTT
64 TCAAAATATAATTTTAAAAAGTTTTA
* * *
36554870 GAGGTCAAATTGTAATTTTGG
1 GGGGTCAAAATATAATTTTGG
36554891 TAAAGTTAAG
Statistics
Matches: 96, Mismatches: 9, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
88 2 0.02
89 32 0.33
90 61 0.64
91 1 0.01
ACGTcount: A:0.36, C:0.03, G:0.24, T:0.37
Consensus pattern (89 bp):
GGGGTCAAAATATAATTTTGGAAGAATTTGGGGTTAAAATGTAATTTTGGAAGAGTTTGAGGGTC
AAAATATAATTTTAAAAAGTTTTA
Found at i:36557046 original size:37 final size:37
Alignment explanation
Indices: 36556995--36557066 Score: 108
Period size: 37 Copynumber: 1.9 Consensus size: 37
36556985 TTGCTTCATT
* * * *
36556995 GATTTGGTCTACTTCTCTGTATCTCATCAGGAAGACG
1 GATTTGATCCACTTCTCTATATCTCATCAAGAAGACG
36557032 GATTTGATCCACTTCTCTATATCTCATCAAGAAGA
1 GATTTGATCCACTTCTCTATATCTCATCAAGAAGA
36557067 TGACCTTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (37 bp):
GATTTGATCCACTTCTCTATATCTCATCAAGAAGACG
Found at i:36557162 original size:161 final size:160
Alignment explanation
Indices: 36556881--36557351 Score: 507
Period size: 161 Copynumber: 2.9 Consensus size: 160
36556871 CTCTTAGTCT
* * *
36556881 ACTTCTCTATATCTCATCAGGAAGATGACCGCTTTATTACTTCGAACCACTTCTCTATATCTCAT
1 ACTTCTCTATATCTCATCAGGAAGATGA-C-CTTTATTGCTT-TAACCACTTCTCTGTATCTCAT
* * * *
36556946 CAGGAAGATAGGCGTTTAAAGTTTCACTCGCATTGAA-CTTTGCTTCATTGATTTGGTCTACTTC
63 CAGGAAGATGGGGGTTTAAAGTTTCACTCACATT-AAGCTTTGCTTCATAGATTTGGTCTACTTC
*
36557010 TCTGTATCTCATCAGGAAGA-CG-GATTTGATCC
127 TCTGTATCTCATCAGGAAGACCGCGATTTAATCC
*
36557042 ACTTCTCTATATCTCATCAAGAAGATGACCTTTTTATTGCTTTAACCCACTTCTCTGTATCTCAT
1 ACTTCTCTATATCTCATCAGGAAGATGACC--TTTATTGCTTTAA-CCACTTCTCTGTATCTCAT
* * *
36557107 CAGGAATATGGGGGTTTAAAGTTTCACTCACATTAAGCTTTACTTCATGGATTTGGTCTACTTCT
63 CAGGAAGATGGGGGTTTAAAGTTTCACTCACATTAAGCTTTGCTTCATAGATTTGGTCTACTTCT
* *
36557172 CTATATCTCATTAGGAAGATGACCGCCTCATTGATTTAATCC
128 CTGTATCTCATCAGG-A-A-GACCG---C---GATTTAATCC
* *
36557214 ACTTCTCTATATCTCATCAGGAAGACGGA----T-TTG--GT--CCACTTCTCTGTATCTCATCA
1 ACTTCTCTATATCTCATCAGGAAGA-TGACCTTTATTGCTTTAACCACTTCTCTGTATCTCATCA
* * * * * *
36557270 AGAAGATGGGGGTTTGAAGTTTCACTCACATTGAGTTTTGCTTAATAGATTTGGTCTACTTCTTT
65 GGAAGATGGGGGTTTAAAGTTTCACTCACATTAAGCTTTGCTTCATAGATTTGGTCTACTTCTCT
36557335 GTATCTCATCAGGAAGA
130 GTATCTCATCAGGAAGA
36557352 TGATCGCCTC
Statistics
Matches: 267, Mismatches: 27, Indels: 35
0.81 0.08 0.11
Matches are distributed among these distances:
158 2 0.01
159 2 0.01
160 6 0.02
161 211 0.79
162 1 0.00
163 1 0.00
164 3 0.01
165 2 0.01
166 3 0.01
167 1 0.00
172 33 0.12
173 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.37
Consensus pattern (160 bp):
ACTTCTCTATATCTCATCAGGAAGATGACCTTTATTGCTTTAACCACTTCTCTGTATCTCATCAG
GAAGATGGGGGTTTAAAGTTTCACTCACATTAAGCTTTGCTTCATAGATTTGGTCTACTTCTCTG
TATCTCATCAGGAAGACCGCGATTTAATCC
Found at i:36557353 original size:161 final size:161
Alignment explanation
Indices: 36557088--36557439 Score: 533
Period size: 161 Copynumber: 2.2 Consensus size: 161
36557078 TTGCTTTAAC
* *
36557088 CCACTTCTCTGTATCTCATCAGGAATATGGGGGTTTAAAGTTTCACTCACATTAAGCTTTACTTC
1 CCACTTCTCTGTATCTCATCAGGAAGATGGGGGTTTAAAGTTTCACTCACATTAAGCTTTACTTA
* * *
36557153 ATGGATTTGGTCTACTTCTCTATATCTCATTAGGAAGATGACCGCCTCATTGATTTAATCCACTT
66 ATAGATTTGGTCTACTTCTCTATATCTCATCAGGAAGATGACCGCCTCATTAATTTAATCCACTT
*
36557218 CTCTATATCTCATCAGGAAGACGGATTTGGT
131 CTCTATATCTCATCAGGAAAACGGATTTGGT
* * * * *
36557249 CCACTTCTCTGTATCTCATCAAGAAGATGGGGGTTTGAAGTTTCACTCACATTGAGTTTTGCTTA
1 CCACTTCTCTGTATCTCATCAGGAAGATGGGGGTTTAAAGTTTCACTCACATTAAGCTTTACTTA
* * * *
36557314 ATAGATTTGGTCTACTTCTTTGTATCTCATCAGGAAGATGATCGCCTCATTAATTTAATCCATTT
66 ATAGATTTGGTCTACTTCTCTATATCTCATCAGGAAGATGACCGCCTCATTAATTTAATCCACTT
* *
36557379 CTTTGTATCTCATCAGGAAAACGGATTTGGT
131 CTCTATATCTCATCAGGAAAACGGATTTGGT
* *
36557410 CCACTTCTTTGTATATCATCAGGAAGATGG
1 CCACTTCTCTGTATCTCATCAGGAAGATGG
36557440 CCTCTTTATT
Statistics
Matches: 171, Mismatches: 20, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
161 171 1.00
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (161 bp):
CCACTTCTCTGTATCTCATCAGGAAGATGGGGGTTTAAAGTTTCACTCACATTAAGCTTTACTTA
ATAGATTTGGTCTACTTCTCTATATCTCATCAGGAAGATGACCGCCTCATTAATTTAATCCACTT
CTCTATATCTCATCAGGAAAACGGATTTGGT
Found at i:36557390 original size:209 final size:203
Alignment explanation
Indices: 36557204--36558026 Score: 609
Period size: 209 Copynumber: 4.0 Consensus size: 203
36557194 CCGCCTCATT
* **
36557204 GATTTAATCCACTTCTCTATATCTCATCAGGAAGACGG-A-TTTGGTCCACTTCTCTGTATCTCA
1 GATTTAATCCACTTCTCTATATATCATCAGGAAGACGGTATTTTGACCCACTTCTCTGTATCTCA
* **
36557267 TCA-AGAAGATGGGGGTTTGAAGTTTCACTCACATTGAGTTTTGCTTAATAGATTTGGTCTACTT
66 TCAGA-AAGATGGGGGTTTGAAGTTTCACTCACATTGAGCTTCACTTAATAGATTTGGTCTACTT
* * * *
36557331 CTTTGTATCTCATCAGGAAGATGATCGCCTCATTAATTTAATCCATTTCTTTGTATCTCATCAGG
130 CTCTGTAACTCATCAGGAAGATGACCGCCTCATTAATTTAATCCACTTCTTTGTATCTCATCAGG
36557396 AA-A--ACG
195 AAGATGACG
** * * * *
36557402 GATTTGGTCCACTTCTTTGTATATCATCAGGAAGATGGCCTCTTTATTGCTTTGACCCGCTTCTC
1 GATTTAATCCACTTCTCTATATATCATCAGGAAGACGG------TA-T--TTTGACCCACTTCTC
* * *
36557467 TGTATCTCATCAGAAAGATGGGGGTTTGAAGTTTCACTGACATTGAGCTTCACTTCATTGATTTG
57 TGTATCTCATCAGAAAGATGGGGGTTTGAAGTTTCACTCACATTGAGCTTCACTTAATAGATTTG
*
36557532 GTCTACTTCTCTGTAACTCATCAGGAAGATGACCGCCTCATTGATTTAATCCACTTCTTTGTATC
122 GTCTACTTCTCTGTAACTCATCAGGAAGATGACCGCCTCATTAATTTAATCCACTTCTTTGTATC
*
36557597 TCATCA-GAA-A-GATG
187 TCATCAGGAAGATGACG
** * * * ** * * *
36557611 GATTTGGTCCACTTCTCTGTATTTCATCAAGAATATGACCTCTTTATTGCTTTAACTCATTTCTC
1 GATTTAATCCACTTCTCTATATATCATC-AGGA-A-GA---CGGTA-T--TTTGACCCACTTCTC
* * * * *
36557676 TGTATCTCATCAGGAATG-TGAGGGTTTAAAGTTTCACTCACATTGAGCTTCACTTCATTGATTT
57 TGTATCTCATCA-GAAAGATGGGGGTTTGAAGTTTCACTCACATTGAGCTTCACTTAATAGATTT
* * * * * * * * * *
36557740 GGTCTACTTCTCTATATCTTATCAAGAAGATGACTGCTTCATT-GTTTAGTTCACTTCTATGTAT
121 GGTCTACTTCTCTGTAACTCATCAGGAAGATGACCGCCTCATTAATTTAATCCACTTCTTTGTAT
36557804 CTCATCAGGAAG--G-CG
186 CTCATCAGGAAGATGACG
* ** * * * *
36557819 AATTTGGTCCACTTCT-TGTATCTTATCAGGAAGATGGCCGCTTTATTACTTTGACCCACTTCTC
1 GATTTAATCCACTTCTCTATATATCATCAGGAAGA----CG--GTA-T--TTTGACCCACTTCTC
* * * ** * * *
36557883 TATATCTCATCA-AGAAGAT-GGGGTTTGAAGTCTCATTCGTATTGAGCTTCGCTTCATTGATTT
57 TGTATCTCATCAGA-AAGATGGGGGTTTGAAGTTTCACTCACATTGAGCTTCACTTAATAGATTT
* * * * ** * ** * *
36557946 GGTCTACTTCTCTGTATCTCATCAAGAATATGATCGTTTTATTGCTTCAAACCACTTCTTTGTAT
121 GGTCTACTTCTCTGTAACTCATCAGGAAGATGACCGCCTCATTAATTTAATCCACTTCTTTGTAT
36558011 CTCATCAGGAAGATGA
186 CTCATCAGGAAGATGA
36558027 GGTTTGAAGT
Statistics
Matches: 514, Mismatches: 80, Indels: 50
0.80 0.12 0.08
Matches are distributed among these distances:
198 32 0.06
204 2 0.00
205 4 0.01
206 78 0.15
207 66 0.13
208 44 0.09
209 277 0.54
210 8 0.02
211 1 0.00
212 2 0.00
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.38
Consensus pattern (203 bp):
GATTTAATCCACTTCTCTATATATCATCAGGAAGACGGTATTTTGACCCACTTCTCTGTATCTCA
TCAGAAAGATGGGGGTTTGAAGTTTCACTCACATTGAGCTTCACTTAATAGATTTGGTCTACTTC
TCTGTAACTCATCAGGAAGATGACCGCCTCATTAATTTAATCCACTTCTTTGTATCTCATCAGGA
AGATGACG
Found at i:36557471 original size:85 final size:85
Alignment explanation
Indices: 36557317--36557479 Score: 200
Period size: 85 Copynumber: 1.9 Consensus size: 85
36557307 TTGCTTAATA
* * * * * *
36557317 GATTTGGTCTACTTCTTTGTATCTCATCAGGAAGATGATCGCCTCATTAATTTAATCCATTTCTT
1 GATTTGGTCCACTTCTTTGTATATCATCAGGAAGATGACCGCCTCATTAATTTAACCCACTTCTC
36557382 TGTATCTCATCAGGAAAACG
66 TGTATCTCATCAGGAAAACG
* * * * ** * *
36557402 GATTTGGTCCACTTCTTTGTATATCATCAGGAAGATGGCCTCTTTATTGCTTTGACCCGCTTCTC
1 GATTTGGTCCACTTCTTTGTATATCATCAGGAAGATGACCGCCTCATTAATTTAACCCACTTCTC
36557467 TGTATCTCATCAG
66 TGTATCTCATCAG
36557480 AAAGATGGGG
Statistics
Matches: 64, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
85 64 1.00
ACGTcount: A:0.22, C:0.22, G:0.17, T:0.39
Consensus pattern (85 bp):
GATTTGGTCCACTTCTTTGTATATCATCAGGAAGATGACCGCCTCATTAATTTAACCCACTTCTC
TGTATCTCATCAGGAAAACG
Found at i:36557680 original size:85 final size:85
Alignment explanation
Indices: 36557526--36557688 Score: 211
Period size: 85 Copynumber: 1.9 Consensus size: 85
36557516 TCACTTCATT
* * *
36557526 GATTTGGTCTACTTCTCTGTAACTCATCAGGAAGATGACCGCCTCATTGATTTAATCCACTTCTT
1 GATTTGGTCCACTTCTCTGTAACTCATCAAGAAGATGACCGCCTCATTGATTTAATCCACTTCTC
36557591 TGTATCTCATCAGAAAGATG
66 TGTATCTCATCAGAAAGATG
** * * * * * *
36557611 GATTTGGTCCACTTCTCTGTATTTCATCAAGAATATGACCTCTTTATTGCTTTAA-CTCATTTCT
1 GATTTGGTCCACTTCTCTGTAACTCATCAAGAAGATGACCGCCTCATTGATTTAATC-CACTTCT
36557675 CTGTATCTCATCAG
65 CTGTATCTCATCAG
36557689 GAATGTGAGG
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
84 1 0.02
85 65 0.98
ACGTcount: A:0.24, C:0.23, G:0.14, T:0.39
Consensus pattern (85 bp):
GATTTGGTCCACTTCTCTGTAACTCATCAAGAAGATGACCGCCTCATTGATTTAATCCACTTCTC
TGTATCTCATCAGAAAGATG
Found at i:36558012 original size:123 final size:122
Alignment explanation
Indices: 36557819--36558103 Score: 372
Period size: 123 Copynumber: 2.3 Consensus size: 122
36557809 CAGGAAGGCG
* * * * ** *
36557819 AATTTGGTCCACTTCTTGTATCTTATCAGGAAGATGGCCGCTTTATTACTTTGACCCACTTCTCT
1 AATTTGGTCTACTTCTTGTATCTCATCAAGAAGATGACCGCTTTATTACTTCAAACCACTTCTCT
*
36557884 ATATCTCATCAAGAAGATGGGGTTTGAAGTCTCATTCGTATTGAGCTTCGCTTCATT
66 ATATCTCATCAAGAAGATGAGGTTTGAAGTCTCATTCGTATTGAGCTTCGCTTCATT
* * * * * *
36557941 GATTTGGTCTACTTCTCTGTATCTCATCAAGAATATGATCGTTTTATTGCTTCAAACCACTTCTT
1 AATTTGGTCTACTTCT-TGTATCTCATCAAGAAGATGACCGCTTTATTACTTCAAACCACTTCTC
* * *
36558006 TGTATCTCATCAGGAAGATGAGGTTTGAAGTGTCATTCGTATTGAGCTTCGCTTCATT
65 TATATCTCATCAAGAAGATGAGGTTTGAAGTCTCATTCGTATTGAGCTTCGCTTCATT
* * *
36558064 AATTTGATCTACTTCTTTGTATCTCATCAGGAAGTTGACC
1 AATTTGGTCTACTTC-TTGTATCTCATCAAGAAGATGACC
36558104 TTTTGAAGTT
Statistics
Matches: 138, Mismatches: 23, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
122 14 0.10
123 123 0.89
124 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.18, T:0.40
Consensus pattern (122 bp):
AATTTGGTCTACTTCTTGTATCTCATCAAGAAGATGACCGCTTTATTACTTCAAACCACTTCTCT
ATATCTCATCAAGAAGATGAGGTTTGAAGTCTCATTCGTATTGAGCTTCGCTTCATT
Found at i:36565247 original size:19 final size:19
Alignment explanation
Indices: 36565225--36565269 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
36565215 TTTTATTAGG
36565225 ATTTAATATTTAAGATAT-T
1 ATTTAATATTTAA-ATATGT
* *
36565244 ATTTATTATTTAAATCTGT
1 ATTTAATATTTAAATATGT
36565263 ATTTAAT
1 ATTTAAT
36565270 TTATATTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (19 bp):
ATTTAATATTTAAATATGT
Found at i:36566086 original size:15 final size:16
Alignment explanation
Indices: 36566068--36566097 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
36566058 CACTCCTATT
36566068 TTCTA-TTTCTTTTAA
1 TTCTATTTTCTTTTAA
36566083 TTCTATTTTCTTTTA
1 TTCTATTTTCTTTTA
36566098 TTTTTATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.17, C:0.13, G:0.00, T:0.70
Consensus pattern (16 bp):
TTCTATTTTCTTTTAA
Found at i:36566105 original size:16 final size:16
Alignment explanation
Indices: 36566064--36566105 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
36566054 TCGACACTCC
36566064 TATTTTCTA-TTTCTTT
1 TATTTT-TATTTTCTTT
* *
36566080 TAATTCTATTTTCTTT
1 TATTTTTATTTTCTTT
36566096 TATTTTTATT
1 TATTTTTATT
36566106 GTTCCCCAGA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
15 2 0.10
16 19 0.90
ACGTcount: A:0.17, C:0.10, G:0.00, T:0.74
Consensus pattern (16 bp):
TATTTTTATTTTCTTT
Found at i:36568299 original size:29 final size:29
Alignment explanation
Indices: 36568244--36568462 Score: 173
Period size: 30 Copynumber: 7.4 Consensus size: 29
36568234 AAGAGGTCAA
* *
36568244 AAAATG-AAGTTTCGAAGAATTT-GGGGTT
1 AAAATGTAATTTTGGAA-AATTTAGGGGTT
* *
36568272 AAAATATAATTTTGGGAAATTTAGGGGTT
1 AAAATGTAATTTTGGAAAATTTAGGGGTT
* * * *
36568301 AAAATATGATTTTGGAAAAGTTTAGTGGTC
1 AAAATGTAATTTTGGAAAA-TTTAGGGGTT
* *
36568331 AAAATGTAATTTTGGAAATAGTTA-GGGTC
1 AAAATGTAATTTTGGAAA-ATTTAGGGGTT
36568360 AAAATGTAATTTTGGAAAAGTTTAGGGGTT
1 AAAATGTAATTTTGGAAAA-TTTAGGGGTT
* *
36568390 AAAATGTAATTTT-GAATGAGTTT-GGGAGTC
1 AAAATGTAATTTTGGAA--AATTTAGGG-GTT
* *
36568420 AAATTGTAATTTTGGTAAAA-TTAGAGGGTC
1 AAAATGTAATTTTGG-AAAATTTAG-GGGTT
36568450 AAAAT-TGAATTTT
1 AAAATGT-AATTTT
36568463 TAAAAGTTCA
Statistics
Matches: 158, Mismatches: 19, Indels: 26
0.78 0.09 0.13
Matches are distributed among these distances:
28 11 0.07
29 64 0.41
30 76 0.48
31 5 0.03
32 2 0.01
ACGTcount: A:0.37, C:0.02, G:0.24, T:0.37
Consensus pattern (29 bp):
AAAATGTAATTTTGGAAAATTTAGGGGTT
Found at i:36568335 original size:30 final size:30
Alignment explanation
Indices: 36568266--36568475 Score: 195
Period size: 30 Copynumber: 7.1 Consensus size: 30
36568256 CGAAGAATTT
* * *
36568266 GGGGTTAAAATATAATTTTGGGAAA-TTTA
1 GGGGTCAAAATGTAATTTTGGAAAAGTTTA
* * *
36568295 GGGGTTAAAATATGATTTTGGAAAAGTTTA
1 GGGGTCAAAATGTAATTTTGGAAAAGTTTA
*
36568325 GTGGTCAAAATGTAATTTTGGAAATAG-TTA
1 GGGGTCAAAATGTAATTTTGGAAA-AGTTTA
36568355 -GGGTCAAAATGTAATTTTGGAAAAGTTTA
1 GGGGTCAAAATGTAATTTTGGAAAAGTTTA
* *
36568384 GGGGTTAAAATGTAATTTT-GAATGAGTTT-
1 GGGGTCAAAATGTAATTTTGGAA-AAGTTTA
*
36568413 GGGAGTCAAATTGTAATTTTGGTAAAA--TTA
1 GGG-GTCAAAATGTAATTTTGG-AAAAGTTTA
* *
36568443 GAGGGTCAAAAT-TGAATTTT-TAAAAGTTCA
1 G-GGGTCAAAATGT-AATTTTGGAAAAGTTTA
36568473 GGG
1 GGG
36568476 ACCTCTTGAG
Statistics
Matches: 153, Mismatches: 15, Indels: 26
0.79 0.08 0.13
Matches are distributed among these distances:
28 6 0.04
29 59 0.39
30 80 0.52
31 6 0.04
32 2 0.01
ACGTcount: A:0.36, C:0.02, G:0.25, T:0.36
Consensus pattern (30 bp):
GGGGTCAAAATGTAATTTTGGAAAAGTTTA
Found at i:36568454 original size:60 final size:58
Alignment explanation
Indices: 36568266--36568462 Score: 181
Period size: 59 Copynumber: 3.3 Consensus size: 58
36568256 CGAAGAATTT
* * * * *
36568266 GGGGTTAAAATATAATTTTGGGAAAT--TTAGGGGTTAAAATATGATTTTGGAAAAGTTTA
1 GGGGTCAAAATGTAATTTT-GGAAATAGTTA-GGGTCAAAATGTAATTTTGGAAAAG-TTA
*
36568325 GTGGTCAAAATGTAATTTTGGAAATAGTTAGGGTCAAAATGTAATTTTGGAAAAGTTTA
1 GGGGTCAAAATGTAATTTTGGAAATAGTTAGGGTCAAAATGTAATTTTGGAAAAG-TTA
* * *
36568384 GGGGTTAAAATGTAATTTT-G-AATGAGTTTGGGAGTCAAATTGTAATTTTGGTAAAA-TTA
1 GGGGTCAAAATGTAATTTTGGAAAT-AG-TTAGG-GTCAAAATGTAATTTTGG-AAAAGTTA
36568443 GAGGGTCAAAAT-TGAATTTT
1 G-GGGTCAAAATGT-AATTTT
36568463 TAAAAGTTCA
Statistics
Matches: 119, Mismatches: 11, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
57 3 0.03
58 9 0.08
59 68 0.57
60 35 0.29
61 4 0.03
ACGTcount: A:0.36, C:0.02, G:0.25, T:0.37
Consensus pattern (58 bp):
GGGGTCAAAATGTAATTTTGGAAATAGTTAGGGTCAAAATGTAATTTTGGAAAAGTTA
Found at i:36569994 original size:15 final size:16
Alignment explanation
Indices: 36569963--36569997 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
36569953 GGATATTTTT
36569963 TTTAAATTAAAATAAA
1 TTTAAATTAAAATAAA
*
36569979 TTTAATTTAAAA-AAA
1 TTTAAATTAAAATAAA
36569994 TTTA
1 TTTA
36569998 TTTCTGAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
TTTAAATTAAAATAAA
Found at i:36570921 original size:24 final size:24
Alignment explanation
Indices: 36570862--36570915 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
36570852 CTCCAGTGGC
* *
36570862 TGGCTGCTGCTGAGGCTGGGATTG
1 TGGCTGCTGCTGAGGCTGAGACTG
36570886 TGGCTGCTGCTGAGGCTGAGACTG
1 TGGCTGCTGCTGAGGCTGAGACTG
36570910 TGGCTG
1 TGGCTG
36570916 TGGCTGCTGC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.09, C:0.19, G:0.44, T:0.28
Consensus pattern (24 bp):
TGGCTGCTGCTGAGGCTGAGACTG
Found at i:36570937 original size:6 final size:6
Alignment explanation
Indices: 36570928--36570959 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
36570918 GCTGCTGCGA
*
36570928 AGACTG AGACTG AGACTG AGACTG AGATTG AG
1 AGACTG AGACTG AGACTG AGACTG AGACTG AG
36570960 GTGGTTGTGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.34, C:0.12, G:0.34, T:0.19
Consensus pattern (6 bp):
AGACTG
Found at i:36573826 original size:29 final size:29
Alignment explanation
Indices: 36573784--36573843 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 29
36573774 ATAAAATATG
* *
36573784 GAACTCATCGAAGGAAGCTCCTAAACTTA
1 GAACTCATCAAAGGAAGCACCTAAACTTA
* *
36573813 GAACTCGTCAAAGGAAGCACCTAACCTTA
1 GAACTCATCAAAGGAAGCACCTAAACTTA
36573842 GA
1 GA
36573844 CTTGATAGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.18
Consensus pattern (29 bp):
GAACTCATCAAAGGAAGCACCTAAACTTA
Found at i:36580082 original size:119 final size:119
Alignment explanation
Indices: 36579875--36580225 Score: 524
Period size: 119 Copynumber: 2.9 Consensus size: 119
36579865 ACTTCCAGCA
* * * * * *
36579875 CTAACCACCACAATACCTAAGTAGGGAAAATTTCGACTGTTCTTCCATTGAATATTTTAATGCGT
1 CTAACCACCACAATACCTAAGTAGGCAAAACTTCCACAGTTCTTCCATTGAATATCTTAATGTGT
*
36579940 CCCAACTCCCAACACAATAGATTTTCAGAAACACAATACACCAAGACTCCAGTC
66 CCCAACTCCCAACACAATTGATTTTCAGAAACACAATACACCAAGACTCCAGTC
*
36579994 CTAACCAACACAATACCTAAGTAGGCAAAACTTCCACAGTTCTTCCATTGAATATCTTAATGTGT
1 CTAACCACCACAATACCTAAGTAGGCAAAACTTCCACAGTTCTTCCATTGAATATCTTAATGTGT
* * *
36580059 CCCAACTCCTAACACAATTGATTTTCCGAAACGCAATACACCAAGACTCCAGTC
66 CCCAACTCCCAACACAATTGATTTTCAGAAACACAATACACCAAGACTCCAGTC
* * *
36580113 CTAACCACCACAATACCTCAGTAGGCAAAACTTCCACATTTCTGCCATTGAAT-TCTTTAATGTG
1 CTAACCACCACAATACCTAAGTAGGCAAAACTTCCACAGTTCTTCCATTGAATATC-TTAATGTG
** * *
36580177 TCTGAACTCCCAACAAAATTGATTTTCTGAAACACAATACACCAAGACT
65 TCCCAACTCCCAACACAATTGATTTTCAGAAACACAATACACCAAGACT
36580226 TTTTATAGGG
Statistics
Matches: 210, Mismatches: 21, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
118 2 0.01
119 208 0.99
ACGTcount: A:0.36, C:0.28, G:0.10, T:0.26
Consensus pattern (119 bp):
CTAACCACCACAATACCTAAGTAGGCAAAACTTCCACAGTTCTTCCATTGAATATCTTAATGTGT
CCCAACTCCCAACACAATTGATTTTCAGAAACACAATACACCAAGACTCCAGTC
Found at i:36583352 original size:21 final size:21
Alignment explanation
Indices: 36583335--36583385 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
36583325 CCTGTGACAG
* *
36583335 TTCTATCGATACAAGTGAAGC
1 TTCTACCGAAACAAGTGAAGC
* *
36583356 TTCTACCGAAACAAGTCATGC
1 TTCTACCGAAACAAGTGAAGC
36583377 TTCTACCGA
1 TTCTACCGA
36583386 TACTAAAAAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.27
Consensus pattern (21 bp):
TTCTACCGAAACAAGTGAAGC
Found at i:36587971 original size:13 final size:14
Alignment explanation
Indices: 36587942--36587971 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
36587932 TTCAGTACAT
36587942 TGACATTTAACCTC
1 TGACATTTAACCTC
36587956 TGACATTTAA-CTC
1 TGACATTTAACCTC
36587969 TGA
1 TGA
36587972 TTGCGCTGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.30, C:0.23, G:0.10, T:0.37
Consensus pattern (14 bp):
TGACATTTAACCTC
Found at i:36615286 original size:26 final size:26
Alignment explanation
Indices: 36615215--36615312 Score: 97
Period size: 26 Copynumber: 3.8 Consensus size: 26
36615205 TTACTACTAA
*
36615215 TGTCGCTGCATGAGCATGTCTAGAAT
1 TGTCGCTGCATGAACATGTCTAGAAT
* ** **
36615241 TGTCACTGCAAAAATTTGTCTAGAAT
1 TGTCGCTGCATGAACATGTCTAGAAT
* * *
36615267 TATCGCTGCATGAACATGTCCAGAGT
1 TGTCGCTGCATGAACATGTCTAGAAT
* *
36615293 TGTCGCTGTATGAGCATGTC
1 TGTCGCTGCATGAACATGTC
36615313 CAAAACTGCG
Statistics
Matches: 55, Mismatches: 17, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (26 bp):
TGTCGCTGCATGAACATGTCTAGAAT
Found at i:36617015 original size:30 final size:30
Alignment explanation
Indices: 36616930--36617094 Score: 158
Period size: 30 Copynumber: 5.6 Consensus size: 30
36616920 TATGTTTTAG
* *
36616930 CCTCAAACTTTCCAAAAATT-CAAATTTGAC
1 CCTCAAACTTTCTAAAAATTAC-ATTTTGAC
* * * * *
36616960 CATCGATCTTTCT-AAAATTGCATTTTGGC
1 CCTCAAACTTTCTAAAAATTACATTTTGAC
*
36616989 TCC-CAAACTTTCTAAAAATTATATTTTGAC
1 -CCTCAAACTTTCTAAAAATTACATTTTGAC
*
36617019 CCTCAAACTTTCTAAAAATTATATTTTGAC
1 CCTCAAACTTTCTAAAAATTACATTTTGAC
* * *
36617049 CCTTAAACTTTCTAGAAATTACATTTTAAC
1 CCTCAAACTTTCTAAAAATTACATTTTGAC
* *
36617079 CCTTAAA-TTTCCAAAA
1 CCTCAAACTTTCTAAAA
36617095 TTTTGATTTT
Statistics
Matches: 113, Mismatches: 18, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
29 29 0.26
30 84 0.74
ACGTcount: A:0.36, C:0.22, G:0.05, T:0.38
Consensus pattern (30 bp):
CCTCAAACTTTCTAAAAATTACATTTTGAC
Found at i:36617132 original size:29 final size:30
Alignment explanation
Indices: 36617041--36617138 Score: 78
Period size: 29 Copynumber: 3.3 Consensus size: 30
36617031 TAAAAATTAT
* *
36617041 ATTTTGACCCTTAAACTTTCTAGAAA--TTAC
1 ATTTTAACCCTTAAA-TTTCCA-AAATTTTAC
*
36617071 ATTTTAACCCTTAAATTTCCAAAATTTT-G
1 ATTTTAACCCTTAAATTTCCAAAATTTTAC
** **
36617100 ATTTTAACCC-TATTTTTCCTTAATTTTAC
1 ATTTTAACCCTTAAATTTCCAAAATTTTAC
*
36617129 ATTTTTACCC
1 ATTTTAACCC
36617139 CAAAACTTTC
Statistics
Matches: 56, Mismatches: 9, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
28 16 0.29
29 24 0.43
30 16 0.29
ACGTcount: A:0.30, C:0.20, G:0.03, T:0.47
Consensus pattern (30 bp):
ATTTTAACCCTTAAATTTCCAAAATTTTAC
Found at i:36618972 original size:21 final size:21
Alignment explanation
Indices: 36618945--36619003 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
36618935 ACAATGCAGT
**
36618945 CTTCTACCGATACCTGTGATAG
1 CTTCTACCGATACAAGTGA-AG
36618967 -TTCTACCGATACAAGTGAAG
1 CTTCTACCGATACAAGTGAAG
*
36618987 CTTCTACCGAAACAAGT
1 CTTCTACCGATACAAGT
36619004 CTTGTTTCTG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 2 0.06
21 31 0.94
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (21 bp):
CTTCTACCGATACAAGTGAAG
Found at i:36619339 original size:37 final size:37
Alignment explanation
Indices: 36619289--36619368 Score: 115
Period size: 37 Copynumber: 2.2 Consensus size: 37
36619279 TTACTACTAA
* * *
36619289 TGTCGCTATATGAGCACTTCTAGATTACGCCCAAAAC
1 TGTCGCTACATGAGCACTTCCAGATTACACCCAAAAC
* *
36619326 TGTCGCTGCATGAGCACTTCCAGATTGCACCCAAAAC
1 TGTCGCTACATGAGCACTTCCAGATTACACCCAAAAC
36619363 TGTCGC
1 TGTCGC
36619369 CGTAGGTATA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
TGTCGCTACATGAGCACTTCCAGATTACACCCAAAAC
Found at i:36622719 original size:17 final size:17
Alignment explanation
Indices: 36622697--36622762 Score: 51
Period size: 17 Copynumber: 3.9 Consensus size: 17
36622687 CTGTAATATA
*
36622697 ATTGTCCCTGCATTTTT
1 ATTGTCACTGCATTTTT
* *
36622714 ATTGTCACTACACTTTT
1 ATTGTCACTGCATTTTT
* * * **
36622731 ATTTTCGCTGCATCTAC
1 ATTGTCACTGCATTTTT
*
36622748 ATTGTCATTGCATTT
1 ATTGTCACTGCATTT
36622763 CCATATATAT
Statistics
Matches: 35, Mismatches: 14, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
17 35 1.00
ACGTcount: A:0.18, C:0.23, G:0.11, T:0.48
Consensus pattern (17 bp):
ATTGTCACTGCATTTTT
Found at i:36623900 original size:36 final size:37
Alignment explanation
Indices: 36623860--36623952 Score: 107
Period size: 38 Copynumber: 2.5 Consensus size: 37
36623850 TTACCTTAGG
* * *
36623860 AATATTTTTGAAA-GCACCCAAGACTATCGCTGCATA
1 AATATTCTTCAAATGCACCAAAGACTATCGCTGCATA
* *
36623896 AATATTCTTCAAATTGCATCAAAGACTATCGCTGCAGA
1 AATATTCTTCAAA-TGCACCAAAGACTATCGCTGCATA
* *
36623934 AGTATTCTTCAATTGCACC
1 AATATTCTTCAAATGCACC
36623953 CAGGAATGTT
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
36 11 0.23
37 5 0.11
38 31 0.66
ACGTcount: A:0.34, C:0.23, G:0.13, T:0.30
Consensus pattern (37 bp):
AATATTCTTCAAATGCACCAAAGACTATCGCTGCATA
Found at i:36623922 original size:38 final size:37
Alignment explanation
Indices: 36623879--36623950 Score: 117
Period size: 38 Copynumber: 1.9 Consensus size: 37
36623869 GAAAGCACCC
*
36623879 AAGACTATCGCTGCATAAATATTCTTCAAATTGCATCA
1 AAGACTATCGCTGCAGAAATATTCTTC-AATTGCATCA
*
36623917 AAGACTATCGCTGCAGAAGTATTCTTCAATTGCA
1 AAGACTATCGCTGCAGAAATATTCTTCAATTGCA
36623951 CCCAGGAATG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
37 7 0.22
38 25 0.78
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.31
Consensus pattern (37 bp):
AAGACTATCGCTGCAGAAATATTCTTCAATTGCATCA
Found at i:36625817 original size:21 final size:21
Alignment explanation
Indices: 36625791--36625849 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
36625781 AATAGTGCAG
* *
36625791 ACTTCTACCGATATAAGTGAC
1 ACTTCTACCGATACAAGAGAC
* *
36625812 AGTTCTACTGATACAAGAGAC
1 ACTTCTACCGATACAAGAGAC
* *
36625833 TCTTCTACCGAAACAAG
1 ACTTCTACCGATACAAG
36625850 TCATACATCT
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.36, C:0.24, G:0.15, T:0.25
Consensus pattern (21 bp):
ACTTCTACCGATACAAGAGAC
Found at i:36631830 original size:21 final size:21
Alignment explanation
Indices: 36631806--36631885 Score: 81
Period size: 21 Copynumber: 3.8 Consensus size: 21
36631796 GACATAGGCA
* * *
36631806 TGTGAGATGGCCATACGGTCG
1 TGTGGGATGGCCACACGGGCG
* *
36631827 TGTGGGATAGCCACATGGGCG
1 TGTGGGATGGCCACACGGGCG
* *
36631848 TGTGGGATGGCCACACAGGCA
1 TGTGGGATGGCCACACGGGCG
36631869 TGTGGGA-GAGCCACACG
1 TGTGGGATG-GCCACACG
36631886 ACCGTGTGAC
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 1 0.02
21 47 0.98
ACGTcount: A:0.21, C:0.21, G:0.40, T:0.17
Consensus pattern (21 bp):
TGTGGGATGGCCACACGGGCG
Found at i:36631858 original size:42 final size:42
Alignment explanation
Indices: 36631797--36631883 Score: 104
Period size: 42 Copynumber: 2.1 Consensus size: 42
36631787 ACAGGATGAG
* * *
36631797 ACATAGGCATGTGAGATGGCCATAC-GGTCGTGTGGGATAGCC
1 ACATAGGCATGTGAGATGGCCACACAGG-CATGTGGGAGAGCC
* * *
36631839 ACATGGGCGTGTGGGATGGCCACACAGGCATGTGGGAGAGCC
1 ACATAGGCATGTGAGATGGCCACACAGGCATGTGGGAGAGCC
36631881 ACA
1 ACA
36631884 CGACCGTGTG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
42 36 0.95
43 2 0.05
ACGTcount: A:0.24, C:0.21, G:0.38, T:0.17
Consensus pattern (42 bp):
ACATAGGCATGTGAGATGGCCACACAGGCATGTGGGAGAGCC
Found at i:36631893 original size:21 final size:21
Alignment explanation
Indices: 36631825--36631893 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
36631815 GCCATACGGT
* * *
36631825 CGTGTGGGATAGCCACATGGG
1 CGTGTGGGAGAGCCACACGAG
36631846 CGTGTGGGATG-GCCACAC-AGG
1 CGTGTGGGA-GAGCCACACGA-G
* *
36631867 CATGTGGGAGAGCCACACGAC
1 CGTGTGGGAGAGCCACACGAG
36631888 CGTGTG
1 CGTGTG
36631894 ACCTCCTTGT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
20 1 0.03
21 36 0.95
22 1 0.03
ACGTcount: A:0.20, C:0.23, G:0.41, T:0.16
Consensus pattern (21 bp):
CGTGTGGGAGAGCCACACGAG
Found at i:36639238 original size:60 final size:59
Alignment explanation
Indices: 36639140--36639251 Score: 145
Period size: 59 Copynumber: 1.9 Consensus size: 59
36639130 TTAATATTAA
* * *
36639140 AAAAAGATTAGGTACCAAATTAAGAAAAAAAGTCAAGTTTAGGTACCAAATTGGACCCC
1 AAAAAGATTAAGTACCAAATTAAGAAAAAAAGTCAAGTTTAAGCACCAAATTGGACCCC
* * *
36639199 AAAAAGTTTAAGTACCAACTTAA-AAAGAAAGTGTCAAGTTTAAGCACCAAATT
1 AAAAAGATTAAGTACCAAATTAAGAAA-AAA-AGTCAAGTTTAAGCACCAAATT
36639252 AGGAAAAAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
58 3 0.07
59 23 0.51
60 19 0.42
ACGTcount: A:0.48, C:0.14, G:0.15, T:0.22
Consensus pattern (59 bp):
AAAAAGATTAAGTACCAAATTAAGAAAAAAAGTCAAGTTTAAGCACCAAATTGGACCCC
Found at i:36639240 original size:32 final size:31
Alignment explanation
Indices: 36639202--36639340 Score: 110
Period size: 32 Copynumber: 4.5 Consensus size: 31
36639192 GGACCCCAAA
*
36639202 AAGTTTAAGTACCAACTTA-AAAAGAAAGTGTC
1 AAGTTTAAGTACCAAATTAGAAAA-AAA-TGTC
*
36639234 AAGTTTAAGCACCAAATTAGGAAAAAAATGTC
1 AAGTTTAAGTACCAAATTA-GAAAAAAATGTC
* *
36639266 AAGTTTGAGTACCAAATTGGACAAAAAA----
1 AAGTTTAAGTACCAAATTAGA-AAAAAATGTC
* * * *
36639294 AAGTTTAGGTATC-AATTAGGAAAAAGTGTC
1 AAGTTTAAGTACCAAATTAGAAAAAAATGTC
* *
36639324 AAGTTCAGGTACCAAAT
1 AAGTTTAAGTACCAAAT
36639341 GTTATATTAA
Statistics
Matches: 86, Mismatches: 13, Indels: 17
0.74 0.11 0.15
Matches are distributed among these distances:
26 5 0.06
27 5 0.06
28 10 0.12
30 11 0.13
31 5 0.06
32 43 0.50
33 3 0.03
34 4 0.05
ACGTcount: A:0.46, C:0.12, G:0.18, T:0.24
Consensus pattern (31 bp):
AAGTTTAAGTACCAAATTAGAAAAAAATGTC
Found at i:36639601 original size:26 final size:26
Alignment explanation
Indices: 36639552--36639603 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
36639542 ACTCTAGTAT
**
36639552 TGCTTTTGAAAAGTGCTGTGGAAAAA
1 TGCTTTTGAAAAGTAATGTGGAAAAA
* *
36639578 TGCTTTTGAAAAGTAATTTTGAAAAA
1 TGCTTTTGAAAAGTAATGTGGAAAAA
36639604 ATTGGTTTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.38, C:0.06, G:0.21, T:0.35
Consensus pattern (26 bp):
TGCTTTTGAAAAGTAATGTGGAAAAA
Found at i:36642059 original size:27 final size:26
Alignment explanation
Indices: 36642014--36642064 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
36642004 CAAATATGCA
36642014 TTTTAAATAATATTCAAATTAGTTTT
1 TTTTAAATAATATTCAAATTAGTTTT
* *
36642040 TTTTGAAATAATGTTTAAATTAGTT
1 TTTT-AAATAATATTCAAATTAGTT
36642065 AATATTATGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.37, C:0.02, G:0.08, T:0.53
Consensus pattern (26 bp):
TTTTAAATAATATTCAAATTAGTTTT
Found at i:36643192 original size:33 final size:34
Alignment explanation
Indices: 36643131--36643194 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
36643121 ACTCATTTTG
*
36643131 TAAGTTTTCAAGCTCAAGAAATTAGTATGTATTT
1 TAAGTTTTCAAACTCAAGAAATTAGTATGTATTT
*
36643165 TAAGTTTTCAAACTGAAG-AATTAGTATGTA
1 TAAGTTTTCAAACTCAAGAAATTAGTATGTA
36643195 AAAATGACAC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
33 12 0.43
34 16 0.57
ACGTcount: A:0.38, C:0.08, G:0.16, T:0.39
Consensus pattern (34 bp):
TAAGTTTTCAAACTCAAGAAATTAGTATGTATTT
Found at i:36645354 original size:15 final size:15
Alignment explanation
Indices: 36645334--36645397 Score: 67
Period size: 15 Copynumber: 4.2 Consensus size: 15
36645324 AAAATATTTG
36645334 AAATATTTTAATATA
1 AAATATTTTAATATA
*
36645349 AAATATTTT-ATTTCA
1 AAATATTTTAATAT-A
* *
36645364 AAATATAATTAAAATA
1 AAATAT-TTTAATATA
*
36645380 GAATATTTTAATATA
1 AAATATTTTAATATA
36645395 AAA
1 AAA
36645398 CTAAAAAAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
14 3 0.08
15 25 0.66
16 8 0.21
17 2 0.05
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (15 bp):
AAATATTTTAATATA
Found at i:36645431 original size:24 final size:22
Alignment explanation
Indices: 36645365--36645432 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 22
36645355 TTTATTTCAA
36645365 AATATAATTAAAATAGAATATTTT
1 AATATAATT-AAATA-AATATTTT
* *
36645389 AATATAAAACTAAAAAAATATTTT
1 AATAT--AATTAAATAAATATTTT
36645413 AATATAATTTAATATAAATA
1 AATATAA-TTAA-ATAAATA
36645433 ATTATATTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
22 2 0.06
23 3 0.08
24 24 0.67
25 4 0.11
26 3 0.08
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.38
Consensus pattern (22 bp):
AATATAATTAAATAAATATTTT
Found at i:36645497 original size:61 final size:60
Alignment explanation
Indices: 36645429--36645563 Score: 173
Period size: 61 Copynumber: 2.2 Consensus size: 60
36645419 ATTTAATATA
* * * *
36645429 AATAATTATATTAAGAATGTTATTAAATTATATATTAT-TTTTTTATTAAGTTATATTTAAT
1 AATAATTATATTAAAAATG--ATTAAATTATATATTATATTCTATATTAAATTATATTTAAT
*
36645490 AATAATTATATTAAAAATGATTAAATTATTTATTATCATTCTATATTAAATTATATTTAAT
1 AATAATTATATTAAAAATGATTAAATTATATATTAT-ATTCTATATTAAATTATATTTAAT
* *
36645551 AGTAATTCTATTA
1 AATAATTATATTA
36645564 TATTTAATAA
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
59 16 0.25
61 49 0.75
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (60 bp):
AATAATTATATTAAAAATGATTAAATTATATATTATATTCTATATTAAATTATATTTAAT
Found at i:36645576 original size:3 final size:3
Alignment explanation
Indices: 36645568--36645592 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
36645558 CTATTATATT
36645568 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
36645593 TTACCTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:36648626 original size:17 final size:17
Alignment explanation
Indices: 36648604--36648637 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
36648594 AACTACTAGT
36648604 TAAACACAACATCCATA
1 TAAACACAACATCCATA
36648621 TAAACACAACATCCATA
1 TAAACACAACATCCATA
36648638 ACACATCACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.29, G:0.00, T:0.18
Consensus pattern (17 bp):
TAAACACAACATCCATA
Found at i:36649222 original size:25 final size:25
Alignment explanation
Indices: 36649190--36649273 Score: 100
Period size: 25 Copynumber: 3.3 Consensus size: 25
36649180 CCAGTACGAA
36649190 GCCTGCTAAAAGTCACCGGCTCAAG
1 GCCTGCTAAAAGTCACCGGCTCAAG
* *
36649215 GCCGGCTATTTAA-TCACCGGCTCGAA-
1 GCCTGCTA--AAAGTCACCGGCTC-AAG
*
36649241 GCCTGCTAAAAGTCATCGGCTCAAG
1 GCCTGCTAAAAGTCACCGGCTCAAG
36649266 GCCTGCTA
1 GCCTGCTA
36649274 TTTAATCACT
Statistics
Matches: 49, Mismatches: 5, Indels: 10
0.77 0.08 0.16
Matches are distributed among these distances:
24 4 0.08
25 24 0.49
26 17 0.35
27 4 0.08
ACGTcount: A:0.25, C:0.31, G:0.24, T:0.20
Consensus pattern (25 bp):
GCCTGCTAAAAGTCACCGGCTCAAG
Found at i:36649231 original size:26 final size:26
Alignment explanation
Indices: 36649202--36649282 Score: 96
Period size: 26 Copynumber: 3.2 Consensus size: 26
36649192 CTGCTAAAAG
*
36649202 TCACCGGCTCAAGGCCGGCTATTTAA
1 TCACCGGCTCAAGGCCTGCTATTTAA
*
36649228 TCACCGGCTCGAA-GCCTGCTA--AAA
1 TCACCGGCTC-AAGGCCTGCTATTTAA
*
36649252 GTCATCGGCTCAAGGCCTGCTATTTAA
1 -TCACCGGCTCAAGGCCTGCTATTTAA
36649279 TCAC
1 TCAC
36649283 TGGTTCGAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
24 4 0.09
25 17 0.38
26 20 0.44
27 4 0.09
ACGTcount: A:0.25, C:0.31, G:0.21, T:0.23
Consensus pattern (26 bp):
TCACCGGCTCAAGGCCTGCTATTTAA
Found at i:36649253 original size:51 final size:51
Alignment explanation
Indices: 36649186--36649328 Score: 198
Period size: 51 Copynumber: 2.8 Consensus size: 51
36649176 TTCACCAGTA
*
36649186 CGAAGCCTGCTAAAAGTCACCGGCTCAAGGCCGGCTATTTAATCACCGGCT
1 CGAAGCCTGCTAAAAGTCACCGGCTCAAGGCCTGCTATTTAATCACCGGCT
* * *
36649237 CGAAGCCTGCTAAAAGTCATCGGCTCAAGGCCTGCTATTTAATCACTGGTT
1 CGAAGCCTGCTAAAAGTCACCGGCTCAAGGCCTGCTATTTAATCACCGGCT
* ** *
36649288 CGAAACCTAG-TAAAAGTCACCAACTCAAAGCCTGCTATTTA
1 CGAAGCCT-GCTAAAAGTCACCGGCTCAAGGCCTGCTATTTA
36649329 TCTCTTATTT
Statistics
Matches: 82, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
51 81 0.99
52 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (51 bp):
CGAAGCCTGCTAAAAGTCACCGGCTCAAGGCCTGCTATTTAATCACCGGCT
Found at i:36650329 original size:19 final size:19
Alignment explanation
Indices: 36650305--36650341 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
36650295 TCAACCCAAA
*
36650305 AAGTCAACGGTAAACGGTC
1 AAGTCAACAGTAAACGGTC
*
36650324 AAGTCAACAGTCAACGGT
1 AAGTCAACAGTAAACGGT
36650342 TCGGTTCGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (19 bp):
AAGTCAACAGTAAACGGTC
Found at i:36673435 original size:22 final size:20
Alignment explanation
Indices: 36673401--36673440 Score: 62
Period size: 22 Copynumber: 1.9 Consensus size: 20
36673391 TGATATATTT
36673401 TTAATTATTTTTATTTTTGA
1 TTAATTATTTTTATTTTTGA
36673421 TTAATGTATGTTTTATTTTT
1 TTAAT-TAT-TTTTATTTTT
36673441 AACTCTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 3 0.17
22 10 0.56
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (20 bp):
TTAATTATTTTTATTTTTGA
Found at i:36673743 original size:143 final size:143
Alignment explanation
Indices: 36673490--36673820 Score: 388
Period size: 143 Copynumber: 2.3 Consensus size: 143
36673480 TCATTAATTG
* * * *
36673490 AAAAAATAAATTAAAA--AAAAAAACTTGAAGCAACATGAAAT---AAAAAAAATATAAATGTGA
1 AAAAAATTAATTAAAATTTAAAAAACTTGAAGCAACATGAAATAAAAAAAAAAACATAAATATGA
* * * * **
36673550 GTAGTAAAAGAATCAAACATGAGACTCAAGGTTGTAATTACAACTATCTAACCATCTAATGAAA-
66 GGAGGAAAAGAATCAAACATGAAACTCAAGGATGTAATTACAACTATCTAACCATCTAACCAAAG
* *
36673614 AATTAATATGTTAA
131 AACTAATATATT-A
* *
36673628 AAAAAATTAATTAAAATTTAAAAAACTTGAAGCAACGTGAAATAAAAAAAAAAACATACATATGA
1 AAAAAATTAATTAAAATTTAAAAAACTTGAAGCAACATGAAATAAAAAAAAAAACATAAATATGA
* * * * **
36673693 GGAGGAGAGGAATTAAAC-TCGAAACTGAAGGATGTAATTGTAACTATCTAACCATCTAACCAAA
66 GGAGGAAAAGAATCAAACAT-GAAACTCAAGGATGTAATTACAACTATCTAACCATCTAACCAAA
36673757 GAACTAATATATTA
130 GAACTAATATATTA
* *
36673771 AAAAAATTAATTAAAATTTTAAAAAGCTTGAAGCATCATGAAATAAAAAA
1 AAAAAATTAATTAAAA-TTTAAAAAACTTGAAGCAACATGAAATAAAAAA
36673821 TACAAATGTG
Statistics
Matches: 162, Mismatches: 23, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
138 15 0.09
140 23 0.14
142 1 0.01
143 83 0.51
144 40 0.25
ACGTcount: A:0.55, C:0.10, G:0.11, T:0.24
Consensus pattern (143 bp):
AAAAAATTAATTAAAATTTAAAAAACTTGAAGCAACATGAAATAAAAAAAAAAACATAAATATGA
GGAGGAAAAGAATCAAACATGAAACTCAAGGATGTAATTACAACTATCTAACCATCTAACCAAAG
AACTAATATATTA
Found at i:36675857 original size:16 final size:16
Alignment explanation
Indices: 36675817--36675858 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
36675807 TTTCGAGGTT
36675817 TAACATTAATTTGATAA
1 TAACATTAA-TTGATAA
*
36675834 -AA-ATTAATTGTTAA
1 TAACATTAATTGATAA
36675848 TAACATTAATT
1 TAACATTAATT
36675859 ATTATGAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
14 6 0.27
15 7 0.32
16 9 0.41
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.43
Consensus pattern (16 bp):
TAACATTAATTGATAA
Found at i:36682381 original size:17 final size:17
Alignment explanation
Indices: 36682359--36682397 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
36682349 CTCCACCTTG
* * *
36682359 ACAAGAATTCTCTACGA
1 ACAAGAACTCTCAACAA
36682376 ACAAGAACTCTCAACAA
1 ACAAGAACTCTCAACAA
36682393 ACAAG
1 ACAAG
36682398 TTCTCCACCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.49, C:0.26, G:0.10, T:0.15
Consensus pattern (17 bp):
ACAAGAACTCTCAACAA
Found at i:36691348 original size:17 final size:17
Alignment explanation
Indices: 36691326--36691391 Score: 78
Period size: 17 Copynumber: 3.9 Consensus size: 17
36691316 CTGTAGTATA
*
36691326 ATTGTCCCTGCATTTTT
1 ATTGTCACTGCATTTTT
36691343 ATTGTCACTGCATTTTT
1 ATTGTCACTGCATTTTT
* * **
36691360 ATTGTTACTGCATCTAC
1 ATTGTCACTGCATTTTT
*
36691377 ATTGTCATTGCATTT
1 ATTGTCACTGCATTT
36691392 CCATATATAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 41 1.00
ACGTcount: A:0.18, C:0.20, G:0.12, T:0.50
Consensus pattern (17 bp):
ATTGTCACTGCATTTTT
Found at i:36692458 original size:37 final size:37
Alignment explanation
Indices: 36692405--36692484 Score: 97
Period size: 37 Copynumber: 2.2 Consensus size: 37
36692395 TTACTACTAA
* * * * ** *
36692405 TGTCGCTGCATTAGCACTTCTAGATTGTGCCCAAAAT
1 TGTCGCCGCATGAGCACTTCCAAATTGCACCCAAAAC
36692442 TGTCGCCGCATGAGCACTTCCAAATTGCACCCAAAAC
1 TGTCGCCGCATGAGCACTTCCAAATTGCACCCAAAAC
36692479 TGTCGC
1 TGTCGC
36692485 TACAGGAATA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (37 bp):
TGTCGCCGCATGAGCACTTCCAAATTGCACCCAAAAC
Found at i:36692532 original size:37 final size:37
Alignment explanation
Indices: 36692462--36692601 Score: 122
Period size: 37 Copynumber: 3.7 Consensus size: 37
36692452 TGAGCACTTC
* * * **
36692462 CAAATTGCACCCAAAACTGTCGCTACAGGAATATT-TT
1 CAAATTGCACCC-AGATTGTCGCTGCATAAATATTCTT
* *
36692499 CAAAATGCACCCATGATTGTCGCTGTATAAATATTCTT
1 CAAATTGCACCCA-GATTGTCGCTGCATAAATATTCTT
* * * *
36692537 CAAATTGCATCCAGAATTATCACTGCATAAGTATTCTT
1 CAAATTGCACCCAG-ATTGTCGCTGCATAAATATTCTT
*
36692575 C-AATTGCACCCAGGAATGTCGCTGCAT
1 CAAATTGCACCCA-GATTGTCGCTGCAT
36692602 GAATGTGTCC
Statistics
Matches: 82, Mismatches: 17, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
36 1 0.01
37 47 0.57
38 34 0.41
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (37 bp):
CAAATTGCACCCAGATTGTCGCTGCATAAATATTCTT
Found at i:36698248 original size:13 final size:14
Alignment explanation
Indices: 36698230--36698263 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
36698220 TTCTTTAAAC
36698230 TTTAGTTTTTA-AT
1 TTTAGTTTTTACAT
*
36698243 TTTAGTTTTTACTT
1 TTTAGTTTTTACAT
36698257 TTTAGTT
1 TTTAGTT
36698264 CTAAAACGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.18, C:0.03, G:0.09, T:0.71
Consensus pattern (14 bp):
TTTAGTTTTTACAT
Found at i:36702315 original size:193 final size:193
Alignment explanation
Indices: 36701982--36702367 Score: 727
Period size: 193 Copynumber: 2.0 Consensus size: 193
36701972 ATGAATATTG
*
36701982 GCTCTACGAAGAAATACCATGAATTTGAAACCGTAGCTCTTCGAAGCATTGAATGGATCAGAAGC
1 GCTCTACGAAGAAATACCATGAATTTGAAACCGTAGCTCTTCGAAGCACTGAATGGATCAGAAGC
36702047 TAATGCAAAGAAAGGGTCCACAAACTATTCCATGCAAAGCATGCATGTATAACGTAAAGTTTATG
66 TAATGCAAAGAAAGGGTCCACAAACTATTCCATGCAAAGCATGCATGTATAACGTAAAGTTTATG
36702112 CACACGAGCAATGCTTAACTTTAATGGATATCCACGTCATATGTACTTAAATATGATAAGTAT
131 CACACGAGCAATGCTTAACTTTAATGGATATCCACGTCATATGTACTTAAATATGATAAGTAT
* *
36702175 GCTCTACGAAGAAATATCGTGAATTTGAAACCGTAGCTCTTCGAAGCACTGAATGGATCAGAAGC
1 GCTCTACGAAGAAATACCATGAATTTGAAACCGTAGCTCTTCGAAGCACTGAATGGATCAGAAGC
*
36702240 TAATGCAAGGAAAGGGTCCACAAACTATTCCATGCAAAGCATGCATGTATAACGTAAAGTTTATG
66 TAATGCAAAGAAAGGGTCCACAAACTATTCCATGCAAAGCATGCATGTATAACGTAAAGTTTATG
*
36702305 CACGCGAGCAATGCTTAACTTTAATGGATATCCACGTCATATGTACTTAAATATGATAAGTAT
131 CACACGAGCAATGCTTAACTTTAATGGATATCCACGTCATATGTACTTAAATATGATAAGTAT
36702368 CCGCGTATGA
Statistics
Matches: 188, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
193 188 1.00
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (193 bp):
GCTCTACGAAGAAATACCATGAATTTGAAACCGTAGCTCTTCGAAGCACTGAATGGATCAGAAGC
TAATGCAAAGAAAGGGTCCACAAACTATTCCATGCAAAGCATGCATGTATAACGTAAAGTTTATG
CACACGAGCAATGCTTAACTTTAATGGATATCCACGTCATATGTACTTAAATATGATAAGTAT
Found at i:36707408 original size:16 final size:16
Alignment explanation
Indices: 36707387--36707434 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 16
36707377 TTATCAAAAA
36707387 TTTCTTTCTTTTTCAT
1 TTTCTTTCTTTTTCAT
*
36707403 TTTCTTCCTTTTTCTCAT
1 TTTCTTTC-TTTT-TCAT
36707421 TTT-TTTCTTTTTCA
1 TTTCTTTCTTTTTCA
36707435 AATGACTGAG
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
15 3 0.11
16 11 0.39
17 7 0.25
18 7 0.25
ACGTcount: A:0.06, C:0.21, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTCTTTCTTTTTCAT
Found at i:36707422 original size:18 final size:17
Alignment explanation
Indices: 36707395--36707433 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
36707385 AATTTCTTTC
36707395 TTTT-TCATTTTCTTCCT
1 TTTTCTCATTTT-TTCCT
*
36707412 TTTTCTCATTTTTTTCT
1 TTTTCTCATTTTTTCCT
36707429 TTTTC
1 TTTTC
36707434 AAATGACTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.05, C:0.21, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTCTCATTTTTTCCT
Found at i:36709570 original size:65 final size:62
Alignment explanation
Indices: 36709454--36709572 Score: 141
Period size: 65 Copynumber: 1.9 Consensus size: 62
36709444 GAAATTATTA
* * *
36709454 TTTTCAATTTGGATTTATTTATTTTTTTATTTCTAACTTACTAATTTATTCTTTTCATTTTT
1 TTTTCAATTTGGATTTATTTATTTTATTATTTCTAACTTACTAACTAATTCTTTTCATTTTT
* * *
36709516 TTTTCAATTTTGGTTTATATTTTATTTTATTA-TTCTTTATTTACTAACTAATTCTTT
1 TTTTCAA-TTTGGATT-TA-TTTATTTTATTATTTC-TAACTTACTAACTAATTCTTT
36709573 AATTTAATTT
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
62 7 0.15
63 7 0.15
64 5 0.11
65 28 0.60
ACGTcount: A:0.22, C:0.09, G:0.03, T:0.66
Consensus pattern (62 bp):
TTTTCAATTTGGATTTATTTATTTTATTATTTCTAACTTACTAACTAATTCTTTTCATTTTT
Found at i:36717449 original size:11 final size:11
Alignment explanation
Indices: 36717429--36717459 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
36717419 GCGCTGGGCG
*
36717429 GAGCTTGGCCA
1 GAGCTCGGCCA
36717440 GAGCTCGGCCA
1 GAGCTCGGCCA
36717451 GAGCTCGGC
1 GAGCTCGGC
36717460 TAAAGAAGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.16, C:0.32, G:0.39, T:0.13
Consensus pattern (11 bp):
GAGCTCGGCCA
Found at i:36718223 original size:58 final size:59
Alignment explanation
Indices: 36718150--36718271 Score: 176
Period size: 59 Copynumber: 2.1 Consensus size: 59
36718140 AAAATTTTCT
36718150 AAAATTTCATTTTTAACCCCGATTTTACCAAA-ATTACCATTTCACCCTCAAACTTCCC
1 AAAATTTCATTTTTAACCCCGATTTTACCAAATATTACCATTTCACCCTCAAACTTCCC
* * * * *
36718208 AAAACTTT-ATTTTTAACCTCGATTTTACTAAATATTACCATTTTACCCTCGAACTTTCC
1 AAAA-TTTCATTTTTAACCCCGATTTTACCAAATATTACCATTTCACCCTCAAACTTCCC
36718267 AAAAT
1 AAAAT
36718272 CCTATTTTTG
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
58 27 0.47
59 30 0.53
ACGTcount: A:0.34, C:0.26, G:0.02, T:0.38
Consensus pattern (59 bp):
AAAATTTCATTTTTAACCCCGATTTTACCAAATATTACCATTTCACCCTCAAACTTCCC
Found at i:36731937 original size:21 final size:21
Alignment explanation
Indices: 36731913--36731970 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
36731903 TAAAAGCATG
* *
36731913 ACTTGTTTCGGTAGAAGTGA-C
1 ACTTGTATCGGTAGAACT-ATC
* *
36731934 ACTTGTATCGATAAAACTATC
1 ACTTGTATCGGTAGAACTATC
36731955 ACTTGTATCGGTAGAA
1 ACTTGTATCGGTAGAA
36731971 ATCTGCACTA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
20 1 0.03
21 29 0.97
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.33
Consensus pattern (21 bp):
ACTTGTATCGGTAGAACTATC
Found at i:36734408 original size:14 final size:14
Alignment explanation
Indices: 36734371--36734400 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
36734361 TTATATTTAA
*
36734371 TTTATATTTATCTT
1 TTTAGATTTATCTT
36734385 TTTAGATTTATCTT
1 TTTAGATTTATCTT
36734399 TT
1 TT
36734401 AGAGTTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.20, C:0.07, G:0.03, T:0.70
Consensus pattern (14 bp):
TTTAGATTTATCTT
Found at i:36741095 original size:14 final size:14
Alignment explanation
Indices: 36741073--36741102 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
36741063 TTATATTTAA
*
36741073 TTTATATTTATCTT
1 TTTAGATTTATCTT
36741087 TTTAGATTTATCTT
1 TTTAGATTTATCTT
36741101 TT
1 TT
36741103 AAAGTTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.20, C:0.07, G:0.03, T:0.70
Consensus pattern (14 bp):
TTTAGATTTATCTT
Found at i:36749145 original size:18 final size:19
Alignment explanation
Indices: 36749096--36749142 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
36749086 TTAACTTAAC
* *
36749096 AAAAATGCAATGACGAAGT
1 AAAAATGCAATGACAAAAT
36749115 AAAAATGCAATGACAAAAT
1 AAAAATGCAATGACAAAAT
36749134 AAAAATGCA
1 AAAAATGCA
36749143 TGAAAACTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.60, C:0.11, G:0.15, T:0.15
Consensus pattern (19 bp):
AAAAATGCAATGACAAAAT
Found at i:36749610 original size:14 final size:14
Alignment explanation
Indices: 36749590--36749622 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
36749580 TGTCATTCTT
36749590 TTCTTTT-TTTTTC
1 TTCTTTTCTTTTTC
36749603 TCTCTTTTCTTTTTC
1 T-TCTTTTCTTTTTC
36749618 TTCTT
1 TTCTT
36749623 CTGGTCATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 1 0.06
14 10 0.56
15 7 0.39
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (14 bp):
TTCTTTTCTTTTTC
Found at i:36749621 original size:18 final size:19
Alignment explanation
Indices: 36749586--36749621 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
36749576 TTCATGTCAT
*
36749586 TCTTTTCTTTTTTTTTCTC
1 TCTTTTCTTTTTTCTTCTC
36749605 TCTTTTC-TTTTTCTTCT
1 TCTTTTCTTTTTTCTTCT
36749622 TCTGGTCATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (19 bp):
TCTTTTCTTTTTTCTTCTC
Found at i:36755755 original size:21 final size:21
Alignment explanation
Indices: 36755695--36755756 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
36755685 TAGATCCAAG
36755695 AATA-AACAGATGAAAAGCATT
1 AATATAACA-ATGAAAAGCATT
* *
36755716 AA-ATAAGAAT-CAAAG---T
1 AATATAACAATGAAAAGCATT
36755732 AATATAACAATGAAAAGCATT
1 AATATAACAATGAAAAGCATT
36755753 AATA
1 AATA
36755757 ACAAGTGACT
Statistics
Matches: 31, Mismatches: 4, Indels: 12
0.66 0.09 0.26
Matches are distributed among these distances:
16 3 0.10
17 7 0.23
18 4 0.13
19 4 0.13
20 3 0.10
21 10 0.32
ACGTcount: A:0.60, C:0.08, G:0.11, T:0.21
Consensus pattern (21 bp):
AATATAACAATGAAAAGCATT
Found at i:36755759 original size:19 final size:19
Alignment explanation
Indices: 36755699--36755760 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 19
36755689 TCCAAGAATA
36755699 AACAGATGAAAAGCATTAAAT
1 AACA-ATGAAAAGCATT-AAT
* * * *
36755720 AAGAAT-CAAAGTAAT-AT
1 AACAATGAAAAGCATTAAT
36755737 AACAATGAAAAGCATTAAT
1 AACAATGAAAAGCATTAAT
36755756 AACAA
1 AACAA
36755761 GTGACTAGAA
Statistics
Matches: 31, Mismatches: 8, Indels: 6
0.69 0.18 0.13
Matches are distributed among these distances:
17 7 0.23
18 6 0.19
19 13 0.42
20 2 0.06
21 3 0.10
ACGTcount: A:0.60, C:0.10, G:0.11, T:0.19
Consensus pattern (19 bp):
AACAATGAAAAGCATTAAT
Found at i:36757427 original size:36 final size:36
Alignment explanation
Indices: 36757327--36757427 Score: 134
Period size: 36 Copynumber: 2.8 Consensus size: 36
36757317 ATCGTTAATT
*
36757327 ATTTTACTCCTTGTTGACCC-AAGGTCATGATGTTC
1 ATTTTACTCCTTGTTGACCCAAAGGTCATGATGCTC
* * **
36757362 ATTTTACTCCCTGTTGGCCCAAACATCATGATGCTC
1 ATTTTACTCCTTGTTGACCCAAAGGTCATGATGCTC
36757398 ATTTTACT-CTTGATTGACCCAAAGGTCATG
1 ATTTTACTCCTTG-TTGACCCAAAGGTCATG
36757428 CCTGTTACCA
Statistics
Matches: 55, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
35 21 0.38
36 34 0.62
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.37
Consensus pattern (36 bp):
ATTTTACTCCTTGTTGACCCAAAGGTCATGATGCTC
Found at i:36764366 original size:26 final size:26
Alignment explanation
Indices: 36764334--36764383 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
36764324 ATTCTAGGCG
*
36764334 CAATTCTGGAGACGTTCATGCAGCAA
1 CAATTCTGGACACGTTCATGCAGCAA
* *
36764360 CAATTCTGTACATGTTCATGCAGC
1 CAATTCTGGACACGTTCATGCAGC
36764384 GACATTCCTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (26 bp):
CAATTCTGGACACGTTCATGCAGCAA
Found at i:36766182 original size:35 final size:36
Alignment explanation
Indices: 36766143--36766235 Score: 118
Period size: 36 Copynumber: 2.6 Consensus size: 36
36766133 TTGTTAATCG
* * *
36766143 TTTTACTCACTGTTGA-CCTAAGATCATGATGCTCA
1 TTTTACTCACTATTGACCCAAAGATAATGATGCTCA
* *
36766178 TTTTACTCCCTATTGACCCAAAGGTAATGATGCTCA
1 TTTTACTCACTATTGACCCAAAGATAATGATGCTCA
36766214 TTTTACTC-CTTATTGACCCAAA
1 TTTTACTCAC-TATTGACCCAAA
36766236 CGTCATGCCT
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
35 15 0.29
36 36 0.71
ACGTcount: A:0.27, C:0.25, G:0.12, T:0.37
Consensus pattern (36 bp):
TTTTACTCACTATTGACCCAAAGATAATGATGCTCA
Found at i:36772207 original size:39 final size:39
Alignment explanation
Indices: 36772153--36772227 Score: 123
Period size: 39 Copynumber: 1.9 Consensus size: 39
36772143 AACTCAACTA
*
36772153 TGATCACTTTACCTATCGAGCATTTCAAATTAATCTATC
1 TGATCACTTTACCTATCGAGCATATCAAATTAATCTATC
* *
36772192 TGATCACTTTACCTATCGGGCATATCAGATTAATCT
1 TGATCACTTTACCTATCGAGCATATCAAATTAATCT
36772228 GTCTTTGTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.29, C:0.23, G:0.11, T:0.37
Consensus pattern (39 bp):
TGATCACTTTACCTATCGAGCATATCAAATTAATCTATC
Found at i:36773747 original size:21 final size:21
Alignment explanation
Indices: 36773721--36773797 Score: 82
Period size: 21 Copynumber: 3.7 Consensus size: 21
36773711 AATAGTGCAG
*
36773721 ACTTCTACCGATACAAGTGAC
1 ACTTCTACCGATACAAGTAAC
*
36773742 AGTTCTACCGATACAAGTAAC
1 ACTTCTACCGATACAAGTAAC
* * * ***
36773763 TCTTCTACCGAAATAAGTCTT
1 ACTTCTACCGATACAAGTAAC
36773784 ACTTCTACCGATAC
1 ACTTCTACCGATAC
36773798 TAAAAACTTC
Statistics
Matches: 44, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.32, C:0.27, G:0.12, T:0.29
Consensus pattern (21 bp):
ACTTCTACCGATACAAGTAAC
Found at i:36774508 original size:35 final size:35
Alignment explanation
Indices: 36774462--36774553 Score: 148
Period size: 36 Copynumber: 2.6 Consensus size: 35
36774452 TCGTTAATCT
36774462 TTTTACTCCCTATTAACCCAAGGTCATGATGCTCA
1 TTTTACTCCCTATTAACCCAAGGTCATGATGCTCA
* *
36774497 TTTTACTCCCTATTGACCAAAAGGTCATGATGCTCA
1 TTTTACTCCCTATTAACC-CAAGGTCATGATGCTCA
*
36774533 TTTTACTCCCTGTTAACCCAA
1 TTTTACTCCCTATTAACCCAA
36774554 AGTTCATGCC
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
35 19 0.37
36 32 0.63
ACGTcount: A:0.26, C:0.28, G:0.11, T:0.35
Consensus pattern (35 bp):
TTTTACTCCCTATTAACCCAAGGTCATGATGCTCA
Found at i:36775666 original size:20 final size:20
Alignment explanation
Indices: 36775630--36775679 Score: 50
Period size: 20 Copynumber: 2.5 Consensus size: 20
36775620 TCATTAAGCT
*
36775630 TTAATTAATCACTTTTA-ATC
1 TTAATTAAACACTTTTACA-C
36775650 TTAATTAAAC-CTATTTACAC
1 TTAATTAAACACT-TTTACAC
36775670 TTAATATAAA
1 TTAAT-TAAA
36775680 TCATGCTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 2 0.08
20 19 0.73
21 5 0.19
ACGTcount: A:0.42, C:0.14, G:0.00, T:0.44
Consensus pattern (20 bp):
TTAATTAAACACTTTTACAC
Found at i:36776636 original size:29 final size:29
Alignment explanation
Indices: 36776542--36776626 Score: 134
Period size: 29 Copynumber: 2.9 Consensus size: 29
36776532 ACGGATGGGG
* *
36776542 GTATCATGTCTGCATTTGTAACTGTATCT
1 GTATCATGTCTGCATCTATAACTGTATCT
* *
36776571 GTATCATATCTGCACCTATAACTGTATCT
1 GTATCATGTCTGCATCTATAACTGTATCT
36776600 GTATCATGTCTGCATCTATAACTGTAT
1 GTATCATGTCTGCATCTATAACTGTAT
36776627 TTGTGACATG
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 50 1.00
ACGTcount: A:0.25, C:0.20, G:0.14, T:0.41
Consensus pattern (29 bp):
GTATCATGTCTGCATCTATAACTGTATCT
Found at i:36776654 original size:29 final size:29
Alignment explanation
Indices: 36776630--36776686 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
36776620 ACTGTATTTG
* *
36776630 TGACATGACTATATTTGTAATTGTATCTA
1 TGACATGACGATATCTGTAATTGTATCTA
*
36776659 TGACATGACGGTATCTGTAATTGTATCT
1 TGACATGACGATATCTGTAATTGTATCT
36776687 GTATTATTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.28, C:0.12, G:0.18, T:0.42
Consensus pattern (29 bp):
TGACATGACGATATCTGTAATTGTATCTA
Found at i:36788492 original size:23 final size:23
Alignment explanation
Indices: 36788449--36788492 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
36788439 AGAAAAAAAG
*
36788449 AAAAAAAAAATTTACTCTAATTT
1 AAAAAAAAAATTTACTATAATTT
*
36788472 AAAAAAAATATATTA-TATAAT
1 AAAAAAAAAAT-TTACTATAAT
36788493 CGGTGAATTG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 15 0.83
24 3 0.17
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (23 bp):
AAAAAAAAAATTTACTATAATTT
Found at i:36792941 original size:24 final size:24
Alignment explanation
Indices: 36792925--36792993 Score: 120
Period size: 24 Copynumber: 2.9 Consensus size: 24
36792915 AGTTTGACTC
*
36792925 AAACAAATAAATAGAGTTTAATTG
1 AAACAAATAAACAGAGTTTAATTG
*
36792949 AAACAAATAAACAAAGTTTAATTG
1 AAACAAATAAACAGAGTTTAATTG
36792973 AAACAAATAAACAGAGTTTAA
1 AAACAAATAAACAGAGTTTAA
36792994 CAAAAAGATT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.58, C:0.07, G:0.10, T:0.25
Consensus pattern (24 bp):
AAACAAATAAACAGAGTTTAATTG
Found at i:36796932 original size:2 final size:2
Alignment explanation
Indices: 36796925--36796973 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
36796915 TCTAAGGTCA
36796925 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
36796967 TC TC TC T
1 TC TC TC T
36796974 TTTATTTATA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:36798058 original size:3 final size:3
Alignment explanation
Indices: 36798044--36798077 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
36798034 GATTCAGGAA
*
36798044 ATG ATG ACG ATG ATG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
36798078 GGGTGATGAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.35, C:0.03, G:0.32, T:0.29
Consensus pattern (3 bp):
ATG
Found at i:36798058 original size:9 final size:9
Alignment explanation
Indices: 36798044--36798087 Score: 52
Period size: 9 Copynumber: 4.9 Consensus size: 9
36798034 GATTCAGGAA
36798044 ATGATGACG
1 ATGATGACG
*
36798053 ATGATGATG
1 ATGATGACG
*
36798062 ATGATGATG
1 ATGATGACG
*
36798071 ATGATGAGG
1 ATGATGACG
*
36798080 GTGATGAC
1 ATGATGAC
36798088 AAGGTCAATG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 31 1.00
ACGTcount: A:0.32, C:0.05, G:0.36, T:0.27
Consensus pattern (9 bp):
ATGATGACG
Found at i:36803683 original size:29 final size:29
Alignment explanation
Indices: 36803623--36803686 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
36803613 GTTGTGTAAT
*
36803623 CACACGCCCGTGTGCTCCACATGGCCAAC
1 CACACGCCCGTGTGCTCCACATGACCAAC
* * * *
36803652 CACACGCCCGTGTGGTGCACATGATCAGC
1 CACACGCCCGTGTGCTCCACATGACCAAC
36803681 CACACG
1 CACACG
36803687 ATCGTGTGAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.22, C:0.41, G:0.23, T:0.14
Consensus pattern (29 bp):
CACACGCCCGTGTGCTCCACATGACCAAC
Found at i:36805860 original size:10 final size:10
Alignment explanation
Indices: 36805842--36805889 Score: 53
Period size: 10 Copynumber: 4.9 Consensus size: 10
36805832 AATTATAAAT
* *
36805842 ATATTATATG
1 ATATAATATC
*
36805852 ATATAATATA
1 ATATAATATC
*
36805862 ATATTATATC
1 ATATAATATC
36805872 ATAT-ATATC
1 ATATAATATC
36805881 ATATAATAT
1 ATATAATAT
36805890 AGTAGGAGGG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
9 9 0.27
10 24 0.73
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (10 bp):
ATATAATATC
Found at i:36807145 original size:43 final size:43
Alignment explanation
Indices: 36807092--36807317 Score: 246
Period size: 41 Copynumber: 5.3 Consensus size: 43
36807082 ACCACCATTG
*
36807092 ATTTGCAGATAAAAACTATCACTGGGTTGTGGATGCACAACAT
1 ATTTGCAGATAAAAACTACCACTGGGTTGTGGATGCACAACAT
** * * *
36807135 ATTTGCAGAT--AAACTACCACTCAGTTGTGGATGTAAAACGT
1 ATTTGCAGATAAAAACTACCACTGGGTTGTGGATGCACAACAT
* *
36807176 ATTTGCAGAT--AAACTGCCACTGGGTTGTGGATGCACAAAAT
1 ATTTGCAGATAAAAACTACCACTGGGTTGTGGATGCACAACAT
* **
36807217 ATTTAATGCAAATAAAAACTGTCACTGGGTTGTGGATGCACAACAT
1 A-TT--TGCAGATAAAAACTACCACTGGGTTGTGGATGCACAACAT
* * * **
36807263 ATTTTCAAATAAAAACTACCACTCGACTGTGGATGCACAACAT
1 ATTTGCAGATAAAAACTACCACTGGGTTGTGGATGCACAACAT
36807306 A-TTGCAGATAAA
1 ATTTGCAGATAAA
36807318 TTGCCACTCT
Statistics
Matches: 154, Mismatches: 24, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
41 60 0.39
42 11 0.07
43 45 0.29
44 6 0.04
45 2 0.01
46 30 0.19
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.27
Consensus pattern (43 bp):
ATTTGCAGATAAAAACTACCACTGGGTTGTGGATGCACAACAT
Found at i:36808928 original size:15 final size:15
Alignment explanation
Indices: 36808900--36808944 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
36808890 ATTATATACT
* * *
36808900 ATATGTTATGATATG
1 ATATGATATAATATA
36808915 ATATGATATAATATA
1 ATATGATATAATATA
*
36808930 ATATTATATAATATA
1 ATATGATATAATATA
36808945 GTAGAAGGGT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (15 bp):
ATATGATATAATATA
Found at i:36815837 original size:18 final size:16
Alignment explanation
Indices: 36815802--36815858 Score: 73
Period size: 15 Copynumber: 3.6 Consensus size: 16
36815792 GATGATGAAC
*
36815802 AATAATAATTTT-AAA
1 AATAAAAATTTTAAAA
36815817 AATAAAAATTAATTAAAA
1 AATAAAAATT--TTAAAA
36815835 AATAAAAA-TTTAAAA
1 AATAAAAATTTTAAAA
36815850 AATAAAAAT
1 AATAAAAAT
36815859 AAGTTAGAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
15 23 0.62
17 3 0.08
18 11 0.30
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
AATAAAAATTTTAAAA
Found at i:36818556 original size:28 final size:28
Alignment explanation
Indices: 36818525--36818589 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 28
36818515 AATTATCATC
* *
36818525 TAAAAAAAGAAAGTTGAAATATATTATA
1 TAAAAAAAGAAAGTTAAAATATATGATA
* ***
36818553 TAAATATTTAAAGTTAAAATATATGATA
1 TAAAAAAAGAAAGTTAAAATATATGATA
36818581 TGAAAAAAA
1 T-AAAAAAA
36818590 AGGAAATATT
Statistics
Matches: 27, Mismatches: 9, Indels: 1
0.73 0.24 0.03
Matches are distributed among these distances:
28 23 0.85
29 4 0.15
ACGTcount: A:0.60, C:0.00, G:0.09, T:0.31
Consensus pattern (28 bp):
TAAAAAAAGAAAGTTAAAATATATGATA
Found at i:36818656 original size:59 final size:60
Alignment explanation
Indices: 36818593--36818705 Score: 183
Period size: 59 Copynumber: 1.9 Consensus size: 60
36818583 AAAAAAAAGG
* * *
36818593 AAATATTTATTTAAAATTAAACAGTTAAAATATATGATATG-AAAAAATAAATAAAAAAT
1 AAATATTTACTTAAAATTAAAAAGTTAAAATATATGATATGCAAAAAAGAAATAAAAAAT
*
36818652 AAATATTTACTTAAAATTAAAAAGTTAAGATATATGATATGCAAAAAAGAAATA
1 AAATATTTACTTAAAATTAAAAAGTTAAAATATATGATATGCAAAAAAGAAATA
36818706 TTTATTTAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
59 38 0.78
60 11 0.22
ACGTcount: A:0.59, C:0.03, G:0.07, T:0.31
Consensus pattern (60 bp):
AAATATTTACTTAAAATTAAAAAGTTAAAATATATGATATGCAAAAAAGAAATAAAAAAT
Found at i:36818727 original size:48 final size:47
Alignment explanation
Indices: 36818645--36818774 Score: 161
Period size: 48 Copynumber: 2.6 Consensus size: 47
36818635 AAAAATAAAT
* * * *
36818645 AAAAAATAAATATTTACTTAAAATTAAAAAGTTAAGATATATGATATG
1 AAAAAAAAAATATTTATTTAAAGTT-AAAAGTTAAAATATATGATATG
*
36818693 CAAAAAAGAAATATTTATTTAAAGTTAAAAGTTAAAATATATGATATG
1 -AAAAAAAAAATATTTATTTAAAGTTAAAAGTTAAAATATATGATATG
36818741 AAAAAAAAAATTATTTAATGTTCAAAGTTAAAAG
1 AAAAAAAAAA-TATTT-AT-TT-AAAGTTAAAAG
36818775 GGGGGCCAAA
Statistics
Matches: 72, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
47 9 0.12
48 26 0.36
49 24 0.33
50 2 0.03
51 11 0.15
ACGTcount: A:0.56, C:0.02, G:0.09, T:0.32
Consensus pattern (47 bp):
AAAAAAAAAATATTTATTTAAAGTTAAAAGTTAAAATATATGATATG
Found at i:36818770 original size:44 final size:48
Alignment explanation
Indices: 36818645--36818773 Score: 167
Period size: 49 Copynumber: 2.8 Consensus size: 48
36818635 AAAAATAAAT
* * * *
36818645 AAAAAATAAATATTTACTTAAAATTAAAAAGTTAAGATATATGATATGC
1 AAAAAAGAAATATTTATTTAAAGTT-AAAAGTTAAAATATATGATATGC
36818694 AAAAAAGAAATATTTATTTAAAGTTAAAAGTTAAAATATATGATATG-
1 AAAAAAGAAATATTTATTTAAAGTTAAAAGTTAAAATATATGATATGC
* *
36818741 AAAAAA-AAA-A-TTATTTAATGTTCAAAGTTAAAA
1 AAAAAAGAAATATTTATTTAAAGTTAAAAGTTAAAA
36818774 GGGGGGCCAA
Statistics
Matches: 74, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
44 21 0.28
45 1 0.01
46 3 0.04
47 6 0.08
48 21 0.28
49 22 0.30
ACGTcount: A:0.57, C:0.02, G:0.09, T:0.33
Consensus pattern (48 bp):
AAAAAAGAAATATTTATTTAAAGTTAAAAGTTAAAATATATGATATGC
Done.