Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168026.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_28, 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: 15507587
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 16 of 91
Found at i:2847250 original size:16 final size:17
Alignment explanation
Indices: 2847229--2847268 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
2847219 CAATATTCTT
2847229 ATGAATTTA-ATCATTC
1 ATGAATTTATATCATTC
* *
2847245 ATGAATTTATGTTATTC
1 ATGAATTTATATCATTC
2847262 ATGAATT
1 ATGAATT
2847269 AATTAAATAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 9 0.43
17 12 0.57
ACGTcount: A:0.35, C:0.07, G:0.10, T:0.47
Consensus pattern (17 bp):
ATGAATTTATATCATTC
Found at i:2847812 original size:26 final size:26
Alignment explanation
Indices: 2847773--2847825 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
2847763 TATAGAATTT
2847773 ATATATTATCAATGAATTAAATA-ATA
1 ATATATTATCAATGAA-TAAATATATA
* *
2847799 ATATTTTATTAATGAATAAATATATA
1 ATATATTATCAATGAATAAATATATA
2847825 A
1 A
2847826 AAATAATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.42
Consensus pattern (26 bp):
ATATATTATCAATGAATAAATATATA
Found at i:2850440 original size:34 final size:33
Alignment explanation
Indices: 2850402--2850501 Score: 90
Period size: 34 Copynumber: 3.2 Consensus size: 33
2850392 AAATTAAATT
2850402 TTAAAAATTTACAATATTATGTATTATTTGAAAA
1 TTAAAAATTTA-AATATTATGTATTATTTGAAAA
* *
2850436 TT--AAA-TTAAAT-TTGAT-T-TGA-TT-AAATT
1 TTAAAAATTTAAATATT-ATGTATTATTTGAAA-A
2850463 TTAAAAATTTATAATATTATGTATTATTTGAAAA
1 TTAAAAATTTA-AATATTATGTATTATTTGAAAA
2850497 TTAAA
1 TTAAA
2850502 TTAAATTCGA
Statistics
Matches: 51, Mismatches: 4, Indels: 22
0.66 0.05 0.29
Matches are distributed among these distances:
26 3 0.06
27 4 0.08
28 2 0.04
29 6 0.12
30 8 0.16
31 8 0.16
32 6 0.12
33 2 0.04
34 9 0.18
35 3 0.06
ACGTcount: A:0.46, C:0.01, G:0.06, T:0.47
Consensus pattern (33 bp):
TTAAAAATTTAAATATTATGTATTATTTGAAAA
Found at i:2850459 original size:61 final size:61
Alignment explanation
Indices: 2850394--2850508 Score: 221
Period size: 61 Copynumber: 1.9 Consensus size: 61
2850384 TTCGAATCAA
2850394 ATTAAATTTTAAAAATTTACAATATTATGTATTATTTGAAAATTAAATTAAATTTGATTTG
1 ATTAAATTTTAAAAATTTACAATATTATGTATTATTTGAAAATTAAATTAAATTTGATTTG
*
2850455 ATTAAATTTTAAAAATTTATAATATTATGTATTATTTGAAAATTAAATTAAATT
1 ATTAAATTTTAAAAATTTACAATATTATGTATTATTTGAAAATTAAATTAAATT
2850509 CGATCTAATC
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 53 1.00
ACGTcount: A:0.46, C:0.01, G:0.05, T:0.48
Consensus pattern (61 bp):
ATTAAATTTTAAAAATTTACAATATTATGTATTATTTGAAAATTAAATTAAATTTGATTTG
Found at i:2850496 original size:28 final size:28
Alignment explanation
Indices: 2850399--2850496 Score: 74
Period size: 28 Copynumber: 3.3 Consensus size: 28
2850389 ATCAAATTAA
* *
2850399 ATTTTAAAAATTTACAATATTATGTATT
1 ATTTGAAAAATTTATAATATTATGTATT
* *
2850427 ATTTG-AAAATTAAATTAA-ATTTGATTTGATT
1 ATTTGAAAAATT-TA-TAATA-TT-ATGT-ATT
*
2850458 AAATTTTAAAAATTTATAATATTATGTATT
1 --ATTTGAAAAATTTATAATATTATGTATT
2850488 ATTTGAAAA
1 ATTTGAAAA
2850497 TTAAATTAAA
Statistics
Matches: 53, Mismatches: 8, Indels: 18
0.67 0.10 0.23
Matches are distributed among these distances:
27 6 0.11
28 14 0.26
29 4 0.08
30 6 0.11
31 6 0.11
32 5 0.09
33 6 0.11
34 6 0.11
ACGTcount: A:0.45, C:0.01, G:0.06, T:0.48
Consensus pattern (28 bp):
ATTTGAAAAATTTATAATATTATGTATT
Found at i:2853505 original size:11 final size:11
Alignment explanation
Indices: 2853489--2853519 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
2853479 ATAAAGATCA
2853489 CAAATTGCATT
1 CAAATTGCATT
2853500 CAAATTGCATT
1 CAAATTGCATT
2853511 CAAATTGCA
1 CAAATTGCA
2853520 CAATCTCCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (11 bp):
CAAATTGCATT
Found at i:2854306 original size:349 final size:349
Alignment explanation
Indices: 2853666--2854683 Score: 1928
Period size: 349 Copynumber: 2.9 Consensus size: 349
2853656 AAACAATAAA
* *
2853666 TCAAACACACAAGAGACAAAAATTTAACGTGGTTCGGTTCAATCAACCTACGTCCACGGATGAAA
1 TCAAACACACAAGAGACAACAATTTAACGTGGTTCGGTTCAATCAACCTACGTCCACGGATGAGA
*
2853731 AATAAGATCCACTAGTTATAGAGAATTACAAACATACATCAAATCATCAACCTCACTCAACAATC
66 AACAAGATCCACTAGTTATAGAGAATTACAAACATACATCAAATCATCAACCTCACTCAACAATC
2853796 AATACTCATAAGACACTCTCAATCTTCTTTAGTCCTATGAAGTATTCTCAACCCAAACAAACACA
131 AATACTCATAA-ACACTCTCAATCTTCTTTAGTCCTATGAAGTATTCTCAACCCAAACAAACACA
2853861 AACCTAAACCCTTGTGCACCCTTTCAACATAACCAAACACATACCCATATGCTCACATACATCAT
195 AACCTAAACCCTTGTGCACCCTTTCAACATAACCAAACACATACCCATATGCTCACATACATCAT
2853926 ACCATGTGGATTCTCTCAATCTCCTCTAGTCCACTCACAAACAAATATACACACCCATAAAACGT
260 ACCATGTGGATTCTCTCAATCTCCTCTAGTCCACTCACAAACAAATATACACACCCATAAAACGT
2853991 AGAGCCCCAATACTCCTATGGGTGT
325 AGAGCCCCAATACTCCTATGGGTGT
2854016 TCAAACACACAAGAGACAACAATTTAACGTGGTTCGGTTCAATCAACCTACGTCCACGGATGAGA
1 TCAAACACACAAGAGACAACAATTTAACGTGGTTCGGTTCAATCAACCTACGTCCACGGATGAGA
2854081 AACAAGATCCACTAGTTATAGAGAATTACAAACATACATCAAATCATCAACCTCACTCAACAATC
66 AACAAGATCCACTAGTTATAGAGAATTACAAACATACATCAAATCATCAACCTCACTCAACAATC
*
2854146 AATACTCATAAACACTCTCAATCTTCTTTAGTCCTTTGAAGTATTCTCAACCCAAACAAACACAA
131 AATACTCATAAACACTCTCAATCTTCTTTAGTCCTATGAAGTATTCTCAACCCAAACAAACACAA
*
2854211 ACCTAAACCCTTGTGCACCCTTTTAACATAACCAAACACATACCCATATGCTCACATACATCATA
196 ACCTAAACCCTTGTGCACCCTTTCAACATAACCAAACACATACCCATATGCTCACATACATCATA
2854276 CCATGTGGATTCTCTCAATCTCCTCTAGTCCACTCACAAACAAATATACACACCCATAAAACGTA
261 CCATGTGGATTCTCTCAATCTCCTCTAGTCCACTCACAAACAAATATACACACCCATAAAACGTA
2854341 GAGCCCCAATACTCCTATGGGTGT
326 GAGCCCCAATACTCCTATGGGTGT
2854365 TCAAACACACAAGAGACAACAATTTAACGTGGTTCGGTTCAATCAACCTACGTCCACGGATGAGA
1 TCAAACACACAAGAGACAACAATTTAACGTGGTTCGGTTCAATCAACCTACGTCCACGGATGAGA
2854430 AACAAGATCCACTAGTTATAGAGAATTACAAACATACATCAAATCATCAACCTCACTCAACAATC
66 AACAAGATCCACTAGTTATAGAGAATTACAAACATACATCAAATCATCAACCTCACTCAACAATC
*
2854495 AATACTCATAAAACACTCTCAATCTCCTTTAGTCCTATGAAGTATTCTCAACCCAAACAAACACA
131 AATACTCAT-AAACACTCTCAATCTTCTTTAGTCCTATGAAGTATTCTCAACCCAAACAAACACA
2854560 AACCTAAACCCTTGTGCACCCTTTCAACATAACCAAACACATACCCATATGCTCACATACATCAT
195 AACCTAAACCCTTGTGCACCCTTTCAACATAACCAAACACATACCCATATGCTCACATACATCAT
* * * *
2854625 ACCATGTGGATTCTCTCAGTCTCCTCTAGTCCACTCACAAACAAACATACGCTCCCATA
260 ACCATGTGGATTCTCTCAATCTCCTCTAGTCCACTCACAAACAAATATACACACCCATA
2854684 CATCATACCA
Statistics
Matches: 655, Mismatches: 12, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
349 345 0.53
350 310 0.47
ACGTcount: A:0.38, C:0.29, G:0.09, T:0.24
Consensus pattern (349 bp):
TCAAACACACAAGAGACAACAATTTAACGTGGTTCGGTTCAATCAACCTACGTCCACGGATGAGA
AACAAGATCCACTAGTTATAGAGAATTACAAACATACATCAAATCATCAACCTCACTCAACAATC
AATACTCATAAACACTCTCAATCTTCTTTAGTCCTATGAAGTATTCTCAACCCAAACAAACACAA
ACCTAAACCCTTGTGCACCCTTTCAACATAACCAAACACATACCCATATGCTCACATACATCATA
CCATGTGGATTCTCTCAATCTCCTCTAGTCCACTCACAAACAAATATACACACCCATAAAACGTA
GAGCCCCAATACTCCTATGGGTGT
Found at i:2854719 original size:65 final size:65
Alignment explanation
Indices: 2854605--2854739 Score: 225
Period size: 65 Copynumber: 2.1 Consensus size: 65
2854595 AACACATACC
* **
2854605 CATATGCTCACATACATCATACCATGTGGATTCTCTCAGTCTCCTCTAGTCCACTCACAAACAAA
1 CATACGCTCACATACATCATACCATGTGGACCCTCTCAGTCTCCTCTAGTCCACTCACAAACAAA
*
2854670 CATACGCTCCCATACATCATACCATGTGGACCCTCTCAGTCTCCTCTAGTCCACTCACAAACAAA
1 CATACGCTCACATACATCATACCATGTGGACCCTCTCAGTCTCCTCTAGTCCACTCACAAACAAA
*
2854735 TATAC
1 CATAC
2854740 ACACTCATAA
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
65 65 1.00
ACGTcount: A:0.30, C:0.35, G:0.09, T:0.26
Consensus pattern (65 bp):
CATACGCTCACATACATCATACCATGTGGACCCTCTCAGTCTCCTCTAGTCCACTCACAAACAAA
Found at i:2854991 original size:52 final size:52
Alignment explanation
Indices: 2854871--2854991 Score: 145
Period size: 52 Copynumber: 2.3 Consensus size: 52
2854861 AAACTTGGCC
* * * ** *
2854871 ATTAAAAATCTTTTTCCTTTTAGAATTCTTCTCCTGTAAGTCAAACTTACCT
1 ATTAAGAATCTTTTTCCTCTTAAAATTCTTCTCCTACAAGTCAAACTTACAT
* *
2854923 ATTAAGAATCCCTTTTCC-CTTAAAATTCTTCTCTTACAAGTCAAACTTACAT
1 ATTAAGAAT-CTTTTTCCTCTTAAAATTCTTCTCCTACAAGTCAAACTTACAT
2854975 ATTAAGAATCATTTTTC
1 ATTAAGAATC-TTTTTC
2854992 TCTACTATTA
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
51 1 0.02
52 50 0.86
53 7 0.12
ACGTcount: A:0.31, C:0.21, G:0.05, T:0.42
Consensus pattern (52 bp):
ATTAAGAATCTTTTTCCTCTTAAAATTCTTCTCCTACAAGTCAAACTTACAT
Found at i:2855014 original size:75 final size:75
Alignment explanation
Indices: 2854921--2855070 Score: 275
Period size: 75 Copynumber: 2.0 Consensus size: 75
2854911 TCAAACTTAC
*
2854921 CTATTAAGAATCCCTTTTCCCTTAAAATTCTTCTCTTACAAGTCAAACTTACATATTAAGAATCA
1 CTATTAAGAATCCATTTTCCCTTAAAATTCTTCTCTTACAAGTCAAACTTACATA-TAAGAATCA
2854986 -TTTTTCTCTA
65 TTTTTTCTCTA
2854996 CTATTAAGAATCCATTTTCCCTTAAAATTCTTCTCTTACAAGTCAAACTTACATATAAGAATCAT
1 CTATTAAGAATCCATTTTCCCTTAAAATTCTTCTCTTACAAGTCAAACTTACATATAAGAATCAT
2855061 TTTTTCTCTA
66 TTTTTCTCTA
2855071 GTGGGGTGTC
Statistics
Matches: 73, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
74 9 0.12
75 64 0.88
ACGTcount: A:0.33, C:0.22, G:0.04, T:0.41
Consensus pattern (75 bp):
CTATTAAGAATCCATTTTCCCTTAAAATTCTTCTCTTACAAGTCAAACTTACATATAAGAATCAT
TTTTTCTCTA
Found at i:2855300 original size:52 final size:52
Alignment explanation
Indices: 2855186--2855302 Score: 153
Period size: 52 Copynumber: 2.2 Consensus size: 52
2855176 ATCTTTGTCC
** *
2855186 TTTTAGAATTCTTCTCCTGTAAGTCAAACTTACCTATTAAGAATCCCTTTTC
1 TTTTAGAATTCTTCTCCTACAAGTCAAACTTACCTATTAAGAATCCCTTTTA
** * * **
2855238 CCTTAAAATTCTTCTCTTACAAGTCAAACTTACCTATTAAGAATCTTTTTTA
1 TTTTAGAATTCTTCTCCTACAAGTCAAACTTACCTATTAAGAATCCCTTTTA
2855290 TTTTAGAATTCTT
1 TTTTAGAATTCTT
2855303 TTTTGCAAGT
Statistics
Matches: 53, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.29, C:0.21, G:0.06, T:0.44
Consensus pattern (52 bp):
TTTTAGAATTCTTCTCCTACAAGTCAAACTTACCTATTAAGAATCCCTTTTA
Found at i:2857674 original size:15 final size:16
Alignment explanation
Indices: 2857654--2857683 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
2857644 AGATAAAAAT
2857654 TAAATCACAT-TATAA
1 TAAATCACATCTATAA
2857669 TAAATCACATCTATA
1 TAAATCACATCTATA
2857684 TGTCATATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (16 bp):
TAAATCACATCTATAA
Found at i:2862035 original size:15 final size:16
Alignment explanation
Indices: 2862015--2862045 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
2862005 ATTGCCCCTT
2862015 AAAAAAAAG-AACAAA
1 AAAAAAAAGCAACAAA
2862030 AAAAAAAAGCAACAAA
1 AAAAAAAAGCAACAAA
2862046 CAAGAACTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.84, C:0.10, G:0.06, T:0.00
Consensus pattern (16 bp):
AAAAAAAAGCAACAAA
Found at i:2862567 original size:12 final size:12
Alignment explanation
Indices: 2862550--2862574 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2862540 CCTATACTGG
2862550 TGTTGACCAGAC
1 TGTTGACCAGAC
2862562 TGTTGACCAGAC
1 TGTTGACCAGAC
2862574 T
1 T
2862575 ATTGGCCAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (12 bp):
TGTTGACCAGAC
Found at i:2864543 original size:13 final size:12
Alignment explanation
Indices: 2864523--2864552 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
2864513 AAATGTATCT
2864523 AAAAATTAAAAA
1 AAAAATTAAAAA
2864535 AAAAGATTAAAAA
1 AAAA-ATTAAAAA
2864548 AAAAA
1 AAAAA
2864553 ACCCAAACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.13
Consensus pattern (12 bp):
AAAAATTAAAAA
Found at i:2864649 original size:29 final size:30
Alignment explanation
Indices: 2864617--2864678 Score: 74
Period size: 31 Copynumber: 2.1 Consensus size: 30
2864607 TTTTATTAAA
*
2864617 AAGACAA-GAAAAA-AATGAAAAAAAAAAAG
1 AAGACAATGAAAAAGAA-AAAAAAAAAAAAG
*
2864646 AAGAGAATTGAAAAAGAAAAAAAAAAAAAAG
1 AAGACAA-TGAAAAAGAAAAAAAAAAAAAAG
2864677 AA
1 AA
2864679 AGCTCATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 6 0.21
31 20 0.71
32 2 0.07
ACGTcount: A:0.79, C:0.02, G:0.15, T:0.05
Consensus pattern (30 bp):
AAGACAATGAAAAAGAAAAAAAAAAAAAAG
Found at i:2868195 original size:20 final size:19
Alignment explanation
Indices: 2868156--2868194 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
2868146 AGTCAATATA
*
2868156 TATTTACTAAATAAATTTT
1 TATTTAATAAATAAATTTT
2868175 TATTTAAT-AATATAATTTT
1 TATTTAATAAATA-AATTTT
2868194 T
1 T
2868195 TTAATAACTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (19 bp):
TATTTAATAAATAAATTTT
Found at i:2872692 original size:72 final size:72
Alignment explanation
Indices: 2872570--2872719 Score: 264
Period size: 72 Copynumber: 2.1 Consensus size: 72
2872560 TTCTGTTGAG
*
2872570 CCAAACTCACAAACCCTGGATGCTAACCTACAAACGCATAAACCACCCGGAGGCAAGCCACCACA
1 CCAAACTCACAAACCCTGGATGCTAACCTACAAAAGCATAAACCACCCGGAGGCAAGCCACCACA
2872635 TAAACCA
66 TAAACCA
* * *
2872642 CCAAGCTCACAAACCGTGGGTGCTAACCTACAAAAGCATAAACCACCCGGAGGCAAGCCACCACA
1 CCAAACTCACAAACCCTGGATGCTAACCTACAAAAGCATAAACCACCCGGAGGCAAGCCACCACA
2872707 TAAACCA
66 TAAACCA
2872714 CCAAAC
1 CCAAAC
2872720 CTTCCCTAAA
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
72 73 1.00
ACGTcount: A:0.40, C:0.37, G:0.14, T:0.09
Consensus pattern (72 bp):
CCAAACTCACAAACCCTGGATGCTAACCTACAAAAGCATAAACCACCCGGAGGCAAGCCACCACA
TAAACCA
Found at i:2873009 original size:26 final size:26
Alignment explanation
Indices: 2872973--2873023 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
2872963 TATTTAGTAG
*
2872973 TTTTAGGATTTAAATCTTAATATCTA
1 TTTTAGGATTTAAATCCTAATATCTA
* *
2872999 TTTTTGGATTTCAATCCTAATATCT
1 TTTTAGGATTTAAATCCTAATATCT
2873024 GTAATCTCTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.29, C:0.12, G:0.08, T:0.51
Consensus pattern (26 bp):
TTTTAGGATTTAAATCCTAATATCTA
Found at i:2873160 original size:2 final size:2
Alignment explanation
Indices: 2873116--2873141 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2873106 ATGTTCTGAA
2873116 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
2873142 GGATACGATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2873307 original size:21 final size:21
Alignment explanation
Indices: 2873265--2873307 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
2873255 ACAAATCTAC
* *
2873265 CTTCATTTTCTCTTATGGTTG
1 CTTCATTTTCTCTCATGATTG
*
2873286 CTTCATTTTCTCTCGTGATTG
1 CTTCATTTTCTCTCATGATTG
2873307 C
1 C
2873308 ACTGCACTCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.09, C:0.23, G:0.14, T:0.53
Consensus pattern (21 bp):
CTTCATTTTCTCTCATGATTG
Found at i:2875813 original size:58 final size:58
Alignment explanation
Indices: 2875746--2875858 Score: 136
Period size: 58 Copynumber: 1.9 Consensus size: 58
2875736 TTTAAATGAA
* * * ** * *
2875746 AAATTATTATAATACCCATTCTTTCTTATATGATAAAAATATCCCTCTTATAAATTTT
1 AAATCATTATAACACCCATTATGCCTTAAATGATAAAAATATCCCTCCTATAAATTTT
* * *
2875804 AAATCATTATAACGCCCTTTATGCCTTAAATGATGAAAATATCCCTCCTATAAAT
1 AAATCATTATAACACCCATTATGCCTTAAATGATAAAAATATCCCTCCTATAAAT
2875859 GATGAATTAC
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
58 45 1.00
ACGTcount: A:0.38, C:0.19, G:0.04, T:0.39
Consensus pattern (58 bp):
AAATCATTATAACACCCATTATGCCTTAAATGATAAAAATATCCCTCCTATAAATTTT
Found at i:2875966 original size:34 final size:35
Alignment explanation
Indices: 2875884--2875953 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 35
2875874 TACCCTTATG
*
2875884 TCAAAATTATTA-AGATATCGTTCTTTTATAATTAA
1 TCAAAATTACTATA-ATATCGTTCTTTTATAATTAA
* *
2875919 TTAAAATTACTATAATATCTTTCTTATTATAATTA
1 TCAAAATTACTATAATATCGTTCTT-TTATAATTA
2875954 CAAAATGTCT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
35 20 0.67
36 10 0.33
ACGTcount: A:0.40, C:0.09, G:0.03, T:0.49
Consensus pattern (35 bp):
TCAAAATTACTATAATATCGTTCTTTTATAATTAA
Found at i:2878708 original size:32 final size:32
Alignment explanation
Indices: 2878667--2878768 Score: 89
Period size: 32 Copynumber: 3.1 Consensus size: 32
2878657 ATTGCCAGTG
2878667 ATTTATATATTTATATCATATAAAATATTAAA
1 ATTTATATATTTATATCATATAAAATATTAAA
* * *** * *
2878699 ATTTATATATTTGTATTATATTTTACATAAAA
1 ATTTATATATTTATATCATATAAAATATTAAA
2878731 ATTATATATTAATTTATATCGATATGAAAATA-TAAA
1 ATT-TATA-T-ATTTATATC-ATAT-AAAATATTAAA
2878767 AT
1 AT
2878769 GTGTTTTTTT
Statistics
Matches: 51, Mismatches: 14, Indels: 6
0.72 0.20 0.08
Matches are distributed among these distances:
32 28 0.55
33 4 0.08
34 1 0.02
35 7 0.14
36 9 0.18
37 2 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (32 bp):
ATTTATATATTTATATCATATAAAATATTAAA
Found at i:2887952 original size:27 final size:30
Alignment explanation
Indices: 2887913--2887971 Score: 88
Period size: 28 Copynumber: 2.1 Consensus size: 30
2887903 ATCCTTTTTT
2887913 AAAAATTCAATATATT-TTTTAAAAAA-TA
1 AAAAATTCAATATATTGTTTTAAAAAACTA
*
2887941 AAAAATT-TATATATTGTTTTAAAAAACTA
1 AAAAATTCAATATATTGTTTTAAAAAACTA
2887970 AA
1 AA
2887972 TAAAAAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 7 0.25
28 17 0.61
29 4 0.14
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.39
Consensus pattern (30 bp):
AAAAATTCAATATATTGTTTTAAAAAACTA
Found at i:2888008 original size:32 final size:32
Alignment explanation
Indices: 2887936--2888030 Score: 86
Period size: 31 Copynumber: 3.0 Consensus size: 32
2887926 ATTTTTTAAA
* ** * *
2887936 AAATAAAAAATTTATATATTGTTTTAAAAAACT
1 AAATAAAAAATTT-CATATCATTTTAAAATATT
2887969 AAATAAAAAATTTCATATCATTTTAAAATATT
1 AAATAAAAAATTTCATATCATTTTAAAATATT
* * *
2888001 AAGT-AAAATTTTCAT-TAGATTTTAAAATAT
1 AAATAAAAAATTTCATAT-CATTTTAAAATAT
2888031 ATATTTATTA
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
30 1 0.02
31 22 0.42
32 17 0.32
33 13 0.25
ACGTcount: A:0.52, C:0.04, G:0.03, T:0.41
Consensus pattern (32 bp):
AAATAAAAAATTTCATATCATTTTAAAATATT
Found at i:2888301 original size:31 final size:31
Alignment explanation
Indices: 2888266--2888341 Score: 84
Period size: 32 Copynumber: 2.4 Consensus size: 31
2888256 GATTAATAAA
*
2888266 TTAATTTTTTAAATG-TCATGAAG-TTTTTAAT
1 TTAATTTTTTAAATGAT-ATGAAGCTTGTT-AT
*
2888297 TTAATATTTTAAAATGATATGAAGCTTGTTAT
1 TTAAT-TTTTTAAATGATATGAAGCTTGTTAT
*
2888329 TAAATTTTTTAAA
1 TTAATTTTTTAAA
2888342 ATAATATTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
31 12 0.32
32 21 0.55
33 5 0.13
ACGTcount: A:0.37, C:0.03, G:0.09, T:0.51
Consensus pattern (31 bp):
TTAATTTTTTAAATGATATGAAGCTTGTTAT
Found at i:2891174 original size:34 final size:32
Alignment explanation
Indices: 2891136--2891225 Score: 100
Period size: 30 Copynumber: 2.9 Consensus size: 32
2891126 TTTTTAAAAT
*
2891136 TAATATTATTTAAAAATTTTATTTATTAATAAGA
1 TAATATTATTT-AAAATTATA-TTATTAATAAGA
*
2891170 TAATATTATTT--AATTATATTATTTATAAGA
1 TAATATTATTTAAAATTATATTATTAATAAGA
*
2891200 TGATATTATTT--AATT-TATTATTAATA
1 TAATATTATTTAAAATTATATTATTAATA
2891226 TATAAAATTT
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
29 10 0.19
30 25 0.48
31 6 0.12
34 11 0.21
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (32 bp):
TAATATTATTTAAAATTATATTATTAATAAGA
Found at i:2891192 original size:30 final size:30
Alignment explanation
Indices: 2891154--2891225 Score: 112
Period size: 30 Copynumber: 2.5 Consensus size: 30
2891144 TTTAAAAATT
2891154 TTAT-TTATTAATAAGATAATATTATTTAA
1 TTATATTATTAATAAGATAATATTATTTAA
* *
2891183 TTATATTATTTATAAGATGATATTATTTAA
1 TTATATTATTAATAAGATAATATTATTTAA
2891213 TT-TATTATTAATA
1 TTATATTATTAATA
2891226 TATAAAATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
29 14 0.36
30 25 0.64
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (30 bp):
TTATATTATTAATAAGATAATATTATTTAA
Found at i:2892404 original size:2 final size:2
Alignment explanation
Indices: 2892397--2892431 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
2892387 AGATGTTATG
2892397 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
2892432 GAATGAAAAA
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:2892674 original size:32 final size:31
Alignment explanation
Indices: 2892630--2892700 Score: 99
Period size: 32 Copynumber: 2.3 Consensus size: 31
2892620 TAACAATACA
*
2892630 AAAATATAATATAGTAACATAAATATAATAAT
1 AAAATATAATATAATAACATAAATATAAT-AT
* *
2892662 AAAATATGATATAATAATATAAATATAATAT
1 AAAATATAATATAATAACATAAATATAATAT
2892693 AAAA-ATAA
1 AAAATATAA
2892701 AGAAGTGATA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 3 0.09
31 6 0.17
32 26 0.74
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.31
Consensus pattern (31 bp):
AAAATATAATATAATAACATAAATATAATAT
Found at i:2892699 original size:104 final size:107
Alignment explanation
Indices: 2892570--2892769 Score: 307
Period size: 104 Copynumber: 1.9 Consensus size: 107
2892560 TGTTATTTAA
* * *
2892570 AATATGAAATAATAATATAACAAATAGAGAAGAGATATGAATTAATATTTTAACAATACAAAAAT
1 AATATGAAATAATAATATAACAAATAAAGAAGAGATATAAATTAAAATTTTAACAATACAAAAAT
*
2892635 ATAATATAGTAACATAAATATAATAATAAAATATGATATAAT
66 ATAATACAGTAACATAAATATAATAATAAAATATGATATAAT
* *
2892677 AATAT-AAAT-ATAATATAA-AAATAAAGAAGTGATATAAATTAAAATTTTAACAATATAAAAAT
1 AATATGAAATAATAATATAACAAATAAAGAAGAGATATAAATTAAAATTTTAACAATACAAAAAT
* *
2892739 ATATTACAGTAACATAAATATAATATTAAAA
66 ATAATACAGTAACATAAATATAATAATAAAA
2892770 AAATCCAATG
Statistics
Matches: 85, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
104 67 0.79
105 9 0.11
106 4 0.05
107 5 0.06
ACGTcount: A:0.60, C:0.04, G:0.06, T:0.30
Consensus pattern (107 bp):
AATATGAAATAATAATATAACAAATAAAGAAGAGATATAAATTAAAATTTTAACAATACAAAAAT
ATAATACAGTAACATAAATATAATAATAAAATATGATATAAT
Found at i:2898477 original size:36 final size:36
Alignment explanation
Indices: 2898430--2898503 Score: 139
Period size: 36 Copynumber: 2.1 Consensus size: 36
2898420 AATGGGAACA
*
2898430 CTTTTCCTAGCACAAGGGATCTACCCGATCATGGCC
1 CTTTTCCTAGCACAAGAGATCTACCCGATCATGGCC
2898466 CTTTTCCTAGCACAAGAGATCTACCCGATCATGGCC
1 CTTTTCCTAGCACAAGAGATCTACCCGATCATGGCC
2898502 CT
1 CT
2898504 ATACAAAGAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.23, C:0.34, G:0.18, T:0.26
Consensus pattern (36 bp):
CTTTTCCTAGCACAAGAGATCTACCCGATCATGGCC
Found at i:2899931 original size:54 final size:54
Alignment explanation
Indices: 2899864--2900093 Score: 248
Period size: 54 Copynumber: 4.3 Consensus size: 54
2899854 AAAGAAACCG
* * * *
2899864 GAACCTAAGCCACCCAAGCCCCCTGTCTATGAACCTCCAAAGAAAGAGAAGCCA
1 GAACCTAAACCACCCAAGCCACCAGTCTATGAACCTCCAAAGAAAGAAAAGCCA
* * * * *
2899918 GAGCCTAAACCACCTAAGCCACCAGTTTTTGAACCTCCAAAGAAGGAAAAGCCA
1 GAACCTAAACCACCCAAGCCACCAGTCTATGAACCTCCAAAGAAAGAAAAGCCA
* * *
2899972 GAACCTAAGCCACCCAAGCCACCAGTCTATGAGCCTCCTAAG-AAGAAAAAGCCA
1 GAACCTAAACCACCCAAGCCACCAGTCTATGAACCTCCAAAGAAAG-AAAAGCCA
* * * * **
2900026 GAACC-AAAGCCACCTAAGCCTCCAGTTTATGAGCCTCCAAAGAAAGAGCAGCCA
1 GAACCTAAA-CCACCCAAGCCACCAGTCTATGAACCTCCAAAGAAAGAAAAGCCA
* *
2900080 GAACCCAAGCCACC
1 GAACCTAAACCACC
2900094 GGTGTATGAA
Statistics
Matches: 147, Mismatches: 25, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
53 4 0.03
54 138 0.94
55 5 0.03
ACGTcount: A:0.38, C:0.33, G:0.17, T:0.12
Consensus pattern (54 bp):
GAACCTAAACCACCCAAGCCACCAGTCTATGAACCTCCAAAGAAAGAAAAGCCA
Found at i:2899991 original size:108 final size:108
Alignment explanation
Indices: 2899864--2900093 Score: 311
Period size: 108 Copynumber: 2.1 Consensus size: 108
2899854 AAAGAAACCG
* * * *
2899864 GAACCTAAGCCACCCAAGCCCCCTGTCTATGAACCTCCAAAGAA-AGAGAAGCCAGAGCCTAAA-
1 GAACCTAAGCCACCCAAGCCACCAGTCTATGAACCTCCAAAGAAGA-AAAAGCCAGAACC-AAAG
* *
2899927 CCACCTAAGCCACCAGTTTTTGAACCTCCAAAGAAGGAAAAGCCA
64 CCACCTAAGCCACCAGTTTATGAACCTCCAAAGAAAGAAAAGCCA
* *
2899972 GAACCTAAGCCACCCAAGCCACCAGTCTATGAGCCTCCTAAGAAGAAAAAGCCAGAACCAAAGCC
1 GAACCTAAGCCACCCAAGCCACCAGTCTATGAACCTCCAAAGAAGAAAAAGCCAGAACCAAAGCC
* * **
2900037 ACCTAAGCCTCCAGTTTATGAGCCTCCAAAGAAAGAGCAGCCA
66 ACCTAAGCCACCAGTTTATGAACCTCCAAAGAAAGAAAAGCCA
*
2900080 GAACCCAAGCCACC
1 GAACCTAAGCCACC
2900094 GGTGTATGAA
Statistics
Matches: 107, Mismatches: 13, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
107 3 0.03
108 103 0.96
109 1 0.01
ACGTcount: A:0.38, C:0.33, G:0.17, T:0.12
Consensus pattern (108 bp):
GAACCTAAGCCACCCAAGCCACCAGTCTATGAACCTCCAAAGAAGAAAAAGCCAGAACCAAAGCC
ACCTAAGCCACCAGTTTATGAACCTCCAAAGAAAGAAAAGCCA
Found at i:2900147 original size:57 final size:56
Alignment explanation
Indices: 2900086--2900273 Score: 166
Period size: 57 Copynumber: 3.5 Consensus size: 56
2900076 GCCAGAACCC
*
2900086 AAGCCACCGGTGTATGAACCTCCAAAGAAGCCTCCAGTGCTTGAACCTAAGCCACCA
1 AAGCCACCAGTGTATGAACCTCCAAAGAAGCCTCCAGTG-TTGAACCTAAGCCACCA
* * * * * *
2900143 AAGCCACCAGTTTATGGACCCCCAAAGAA------AGAG--AAACC--AG-AACCCA
1 AAGCCACCAGTGTATGAACCTCCAAAGAAGCCTCCAGTGTTGAACCTAAGCCA-CCA
* *
2900189 AA-CCACCGGTGTATGAACCTCCAAAGAAGCCTCCAGTGTTTGAACCTAAGCCAACA
1 AAGCCACCAGTGTATGAACCTCCAAAGAAGCCTCCAGTG-TTGAACCTAAGCCACCA
* *
2900245 AAGCCACCAGTTTATGAACCGCCAAAGAA
1 AAGCCACCAGTGTATGAACCTCCAAAGAA
2900274 AGAGAAACCA
Statistics
Matches: 99, Mismatches: 18, Indels: 28
0.68 0.12 0.19
Matches are distributed among these distances:
45 23 0.23
46 7 0.07
48 4 0.04
51 6 0.06
54 4 0.04
56 6 0.06
57 49 0.49
ACGTcount: A:0.37, C:0.31, G:0.18, T:0.14
Consensus pattern (56 bp):
AAGCCACCAGTGTATGAACCTCCAAAGAAGCCTCCAGTGTTGAACCTAAGCCACCA
Found at i:2900168 original size:102 final size:102
Alignment explanation
Indices: 2900026--2900432 Score: 494
Period size: 102 Copynumber: 3.9 Consensus size: 102
2900016 GAAAAAGCCA
* * * * * *
2900026 GAACCAAAGCCACCTAAGCCTCCAGTTTAT-GAGCCTCCAAAGAAAGAGCAGCCAGAACCCAAGC
1 GAACCTAAGCCACCAAAGCCACCAGTTTATGGA-CCTCCAAAGAAAGAGAAACCAGAACCCAAAC
*
2900090 CACCGGTGTATGAACCTCCAAAGAAGCCTCCAGTGCTT
65 CACCAGTGTATGAACCTCCAAAGAAGCCTCCAGTGCTT
*
2900128 GAACCTAAGCCACCAAAGCCACCAGTTTATGGACCCCCAAAGAAAGAGAAACCAGAACCCAAACC
1 GAACCTAAGCCACCAAAGCCACCAGTTTATGGACCTCCAAAGAAAGAGAAACCAGAACCCAAACC
* *
2900193 ACCGGTGTATGAACCTCCAAAGAAGCCTCCAGTGTTT
66 ACCAGTGTATGAACCTCCAAAGAAGCCTCCAGTGCTT
* * * *
2900230 GAACCTAAGCCAACAAAGCCACCAGTTTATGAACCGCCAAAGAAAGAGAAACCAGAACCGAAACC
1 GAACCTAAGCCACCAAAGCCACCAGTTTATGGACCTCCAAAGAAAGAGAAACCAGAACCCAAACC
* * *
2900295 ACCAGTATATGAACCTCCAAAGAAGCCACCAGTATATGAACCTAA
66 ACCAGTGTATGAACCTCCAAAGAAGCCTCCAG----TG---CT-T
* * * *
2900340 GCCACCTAAGCCACCAAAGCCACCGGTTTATGCACCTCCAAAGAAAGA-AAAGCCAGAACCCAAG
1 G-AACCTAAGCCACCAAAGCCACCAGTTTATGGACCTCCAAAGAAAGAGAAA-CCAGAACCCAAA
* *
2900404 CCCCCAGTCTATGAACCTCCAAAGAAGCC
64 CCACCAGTGTATGAACCTCCAAAGAAGCC
2900433 GCCGGTATAT
Statistics
Matches: 268, Mismatches: 26, Indels: 13
0.87 0.08 0.04
Matches are distributed among these distances:
102 181 0.68
103 2 0.01
106 2 0.01
109 1 0.00
110 4 0.01
111 78 0.29
ACGTcount: A:0.38, C:0.32, G:0.17, T:0.13
Consensus pattern (102 bp):
GAACCTAAGCCACCAAAGCCACCAGTTTATGGACCTCCAAAGAAAGAGAAACCAGAACCCAAACC
ACCAGTGTATGAACCTCCAAAGAAGCCTCCAGTGCTT
Found at i:2900227 original size:27 final size:27
Alignment explanation
Indices: 2900191--2900273 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
2900181 AGAACCCAAA
*
2900191 CCACCGGTGTATGAACCTCCAAAGAAG
1 CCACCAGTGTATGAACCTCCAAAGAAG
* *
2900218 CCTCCAGTGTTTGAACCTAAGCCAACA-AAG
1 CCACCAGTGTATGAACCT---CCAA-AGAAG
* *
2900248 CCACCAGTTTATGAACCGCCAAAGAA
1 CCACCAGTGTATGAACCTCCAAAGAA
2900274 AGAGAAACCA
Statistics
Matches: 44, Mismatches: 7, Indels: 10
0.72 0.11 0.16
Matches are distributed among these distances:
26 1 0.02
27 21 0.48
30 21 0.48
31 1 0.02
ACGTcount: A:0.35, C:0.30, G:0.18, T:0.17
Consensus pattern (27 bp):
CCACCAGTGTATGAACCTCCAAAGAAG
Found at i:2900348 original size:9 final size:9
Alignment explanation
Indices: 2900334--2900363 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
2900324 CAGTATATGA
2900334 ACCTAAGCC
1 ACCTAAGCC
2900343 ACCTAAGCC
1 ACCTAAGCC
*
2900352 ACCAAAGCC
1 ACCTAAGCC
2900361 ACC
1 ACC
2900364 GGTTTATGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.37, C:0.47, G:0.10, T:0.07
Consensus pattern (9 bp):
ACCTAAGCC
Found at i:2900426 original size:111 final size:111
Alignment explanation
Indices: 2900232--2900448 Score: 328
Period size: 111 Copynumber: 2.0 Consensus size: 111
2900222 CAGTGTTTGA
*
2900232 ACCTAAGCCAACAAAGCCACCAGTTTATGAACCGCCAAAGAAAGAGAAACCAGAACCGAAACCAC
1 ACCTAAGCCAACAAAGCCACCAGTTTATGAACCGCCAAAGAAAGAGAAACCAGAACCCAAACCAC
2900297 CAGTATATGAACCTCCAAAGAAGCCACCAGTATATGAACCTAAGCC
66 CAGTATATGAACCTCCAAAGAAGCCACCAGTATATGAACCTAAGCC
* * * * * *
2900343 ACCTAAGCCACCAAAGCCACCGGTTTATGCACCTCCAAAGAAAGA-AAAGCCAGAACCCAAGCCC
1 ACCTAAGCCAACAAAGCCACCAGTTTATGAACCGCCAAAGAAAGAGAAA-CCAGAACCCAAACCA
* * *
2900407 CCAGTCTATGAACCTCCAAAGAAGCCGCCGGTATATGAACCT
65 CCAGTATATGAACCTCCAAAGAAGCCACCAGTATATGAACCT
2900449 CCCAAGAAAC
Statistics
Matches: 95, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
110 3 0.03
111 92 0.97
ACGTcount: A:0.40, C:0.32, G:0.16, T:0.12
Consensus pattern (111 bp):
ACCTAAGCCAACAAAGCCACCAGTTTATGAACCGCCAAAGAAAGAGAAACCAGAACCCAAACCAC
CAGTATATGAACCTCCAAAGAAGCCACCAGTATATGAACCTAAGCC
Found at i:2900443 original size:27 final size:27
Alignment explanation
Indices: 2900407--2900471 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
2900397 ACCCAAGCCC
* * *
2900407 CCAGTCTATGAACCTCCAAAGAAGCCG
1 CCAGTATATGAACCTCCAAAGAAACCA
* *
2900434 CCGGTATATGAACCTCCCAAGAAACCA
1 CCAGTATATGAACCTCCAAAGAAACCA
2900461 CCAGTATATGA
1 CCAGTATATGA
2900472 GCCACCTTAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.35, C:0.31, G:0.17, T:0.17
Consensus pattern (27 bp):
CCAGTATATGAACCTCCAAAGAAACCA
Found at i:2902887 original size:31 final size:29
Alignment explanation
Indices: 2902849--2902906 Score: 80
Period size: 31 Copynumber: 1.9 Consensus size: 29
2902839 TATTAATGAG
**
2902849 ATAATATTATTTAATTTATCTTAATAATAAA
1 ATAATATTATCAAATTTA--TTAATAATAAA
2902880 ATAATATTATCAAATTTATTAATAATA
1 ATAATATTATCAAATTTATTAATAATA
2902907 GATAAAATTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 9 0.36
31 16 0.64
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (29 bp):
ATAATATTATCAAATTTATTAATAATAAA
Found at i:2904789 original size:10 final size:11
Alignment explanation
Indices: 2904773--2904801 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
2904763 GGTATGAAAG
2904773 TAATATAAAAA
1 TAATATAAAAA
2904784 -AATATAAAAA
1 TAATATAAAAA
2904794 TAATATAA
1 TAATATAA
2904802 TTTAAAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
TAATATAAAAA
Found at i:2908533 original size:22 final size:22
Alignment explanation
Indices: 2908508--2908621 Score: 81
Period size: 22 Copynumber: 5.2 Consensus size: 22
2908498 AAAATCAGTA
*
2908508 ATAACTTTATACTAAATTAATG
1 ATAACTTTATAGTAAATTAATG
* * *
2908530 ATAACTATATAATAAATT-TTGG
1 ATAACTTTATAGTAAATTAAT-G
* * *
2908552 ATAACTTAATAGTAAAATAATA
1 ATAACTTTATAGTAAATTAATG
* * * *
2908574 ATAACCTAATAGTAAATAAATA
1 ATAACTTTATAGTAAATTAATG
2908596 ATAA-TTTAGTAGTAAA-TAATTG
1 ATAACTTTA-TAGTAAATTAA-TG
2908618 ATAA
1 ATAA
2908622 AATAATGTAT
Statistics
Matches: 72, Mismatches: 16, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
21 5 0.07
22 66 0.92
23 1 0.01
ACGTcount: A:0.52, C:0.05, G:0.07, T:0.36
Consensus pattern (22 bp):
ATAACTTTATAGTAAATTAATG
Found at i:2908744 original size:22 final size:23
Alignment explanation
Indices: 2908719--2908761 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
2908709 GTAAATTAGT
2908719 AAATGAAG-GATAAC-TTAATAAA
1 AAAT-AAGTGATAACTTTAATAAA
2908741 AAATAAGTGATAACTTTAATA
1 AAATAAGTGATAACTTTAATA
2908762 GCTAATTGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 3 0.16
22 10 0.53
23 6 0.32
ACGTcount: A:0.56, C:0.05, G:0.12, T:0.28
Consensus pattern (23 bp):
AAATAAGTGATAACTTTAATAAA
Found at i:2908828 original size:22 final size:22
Alignment explanation
Indices: 2908771--2908830 Score: 84
Period size: 22 Copynumber: 2.7 Consensus size: 22
2908761 AGCTAATTGT
*
2908771 TGATAACTTAATAATACATCAA
1 TGATAACTTAATAGTACATCAA
* **
2908793 TAATAACTTAATAGTGTATCAA
1 TGATAACTTAATAGTACATCAA
2908815 TGATAACTTAATAGTA
1 TGATAACTTAATAGTA
2908831 AATAAGATTT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.47, C:0.10, G:0.08, T:0.35
Consensus pattern (22 bp):
TGATAACTTAATAGTACATCAA
Found at i:2909393 original size:22 final size:22
Alignment explanation
Indices: 2909301--2909393 Score: 64
Period size: 22 Copynumber: 4.2 Consensus size: 22
2909291 AAATTAGATA
* *
2909301 TATAACTTAATAGTATATCAAT
1 TATAACTTAATAATAAATCAAT
* * * *
2909323 TATAATTTAGTAATAAATTAGT
1 TATAACTTAATAATAAATCAAT
* *
2909345 AATAA-TATAATAATCAAAGC-AT
1 TATAACT-TAATAAT-AAATCAAT
* *
2909367 AATAACTTAATAATATATCAAT
1 TATAACTTAATAATAAATCAAT
2909389 TATAA
1 TATAA
2909394 GATAGTTGTA
Statistics
Matches: 53, Mismatches: 14, Indels: 8
0.71 0.19 0.11
Matches are distributed among these distances:
21 4 0.08
22 45 0.85
23 4 0.08
ACGTcount: A:0.52, C:0.06, G:0.04, T:0.38
Consensus pattern (22 bp):
TATAACTTAATAATAAATCAAT
Found at i:2909575 original size:19 final size:20
Alignment explanation
Indices: 2909546--2909583 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
2909536 TTTAGTTTAA
*
2909546 TAGTAATTAAATTATAAATT
1 TAGTAATTAAATCATAAATT
2909566 TAGT-ATTAAATCATAAAT
1 TAGTAATTAAATCATAAAT
2909584 AACATAACGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (20 bp):
TAGTAATTAAATCATAAATT
Found at i:2909751 original size:22 final size:22
Alignment explanation
Indices: 2909726--2909786 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
2909716 TAAATTATCG
*
2909726 ATAACTTAGTAGTAAATCACTA
1 ATAACTTAATAGTAAATCACTA
* * *
2909748 ATAA-TGTAATAGTAAAACATTG
1 ATAACT-TAATAGTAAATCACTA
*
2909770 ATAACTTAATTGTAAAT
1 ATAACTTAATAGTAAAT
2909787 TAGTGATAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
21 1 0.03
22 29 0.94
23 1 0.03
ACGTcount: A:0.48, C:0.08, G:0.10, T:0.34
Consensus pattern (22 bp):
ATAACTTAATAGTAAATCACTA
Found at i:2909793 original size:22 final size:22
Alignment explanation
Indices: 2909768--2909834 Score: 80
Period size: 22 Copynumber: 3.0 Consensus size: 22
2909758 AGTAAAACAT
*
2909768 TGATAACTTAATTGTAAATTAG
1 TGATAATTTAATTGTAAATTAG
* * * *
2909790 TGATAATTTAGTTATAAATCAA
1 TGATAATTTAATTGTAAATTAG
*
2909812 TGATAATTTATTTGTAAATTAG
1 TGATAATTTAATTGTAAATTAG
2909834 T
1 T
2909835 TAATTATTAA
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.40, C:0.03, G:0.12, T:0.45
Consensus pattern (22 bp):
TGATAATTTAATTGTAAATTAG
Found at i:2909796 original size:44 final size:44
Alignment explanation
Indices: 2909725--2909834 Score: 105
Period size: 44 Copynumber: 2.5 Consensus size: 44
2909715 GTAAATTATC
* * * * *
2909725 GATAACTTAGTAGTAAATCACTAATAATGTA-ATAGTAAAACATT
1 GATAACTTAATTGTAAATTAGTAATAATGTAGATA-TAAAACAAT
* * * *
2909769 GATAACTTAATTGTAAATTAGTGATAATTTAGTTATAAATCAAT
1 GATAACTTAATTGTAAATTAGTAATAATGTAGATATAAAACAAT
* *
2909813 GATAATTTATTTGTAAATTAGT
1 GATAACTTAATTGTAAATTAGT
2909835 TAATTATTAA
Statistics
Matches: 54, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
44 52 0.96
45 2 0.04
ACGTcount: A:0.44, C:0.05, G:0.12, T:0.39
Consensus pattern (44 bp):
GATAACTTAATTGTAAATTAGTAATAATGTAGATATAAAACAAT
Found at i:2909861 original size:22 final size:22
Alignment explanation
Indices: 2909831--2910022 Score: 140
Period size: 22 Copynumber: 8.8 Consensus size: 22
2909821 ATTTGTAAAT
*
2909831 TAGTTAATTATTAATAACTTTA
1 TAGTAAATTATTAATAACTTTA
* *
2909853 TAGTAAATTATCAATAATTTTA
1 TAGTAAATTATTAATAACTTTA
* * *
2909875 TAGTAAATAAGTAATAACATTA
1 TAGTAAATTATTAATAACTTTA
* * *
2909897 TAATAAATAATTAATAACTTAA
1 TAGTAAATTATTAATAACTTTA
*
2909919 TAGTAAATTATCAATAAC-TTA
1 TAGTAAATTATTAATAACTTTA
* * * * *
2909940 GCAATGAATTATTTATAACTTAA
1 -TAGTAAATTATTAATAACTTTA
* * *
2909963 TAGTAAATCATTTATAACTTTG
1 TAGTAAATTATTAATAACTTTA
*
2909985 T-GATAAATCA-TAATAA-TTTA
1 TAG-TAAATTATTAATAACTTTA
* *
2910005 GTAGTAAATCAATAATAA
1 -TAGTAAATTATTAATAA
2910023 AATAGTAGTA
Statistics
Matches: 134, Mismatches: 30, Indels: 12
0.76 0.17 0.07
Matches are distributed among these distances:
20 3 0.02
21 16 0.12
22 113 0.84
23 2 0.01
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.40
Consensus pattern (22 bp):
TAGTAAATTATTAATAACTTTA
Found at i:2909958 original size:66 final size:66
Alignment explanation
Indices: 2909840--2909982 Score: 155
Period size: 66 Copynumber: 2.2 Consensus size: 66
2909830 TTAGTTAATT
* * * *
2909840 ATTAATAACTTTATAGTAAATTATCAATAATTTTATAGTAAATAAGTAATAACATT-ATAATAAA
1 ATTAATAACTTAATAGTAAATTATCAATAATCTTACAATAAATAAGTAATAAC-TTAATAATAAA
2909904 TA
65 TA
* * * * *
2909906 ATTAATAACTTAATAGTAAATTATCAATAA-CTTAGCAATGAATTATTTATAACTTAATAGTAAA
1 ATTAATAACTTAATAGTAAATTATCAATAATCTTA-CAATAAATAAGTAATAACTTAATAATAAA
*
2909970 TC
65 TA
*
2909972 ATTTATAACTT
1 ATTAATAACTT
2909983 TGTGATAAAT
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
65 5 0.08
66 59 0.92
ACGTcount: A:0.48, C:0.07, G:0.05, T:0.40
Consensus pattern (66 bp):
ATTAATAACTTAATAGTAAATTATCAATAATCTTACAATAAATAAGTAATAACTTAATAATAAAT
A
Found at i:2910028 original size:22 final size:21
Alignment explanation
Indices: 2909988--2910033 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
2909978 AACTTTGTGA
**
2909988 TAAATCATAATAATTTAGTAG
1 TAAATCATAATAAAATAGTAG
2910009 TAAATCAATAATAAAATAGTAG
1 TAAATC-ATAATAAAATAGTAG
2910031 TAA
1 TAA
2910034 GTGAAGAGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.54, C:0.04, G:0.09, T:0.33
Consensus pattern (21 bp):
TAAATCATAATAAAATAGTAG
Found at i:2910535 original size:66 final size:66
Alignment explanation
Indices: 2910428--2910651 Score: 215
Period size: 66 Copynumber: 3.4 Consensus size: 66
2910418 ACTAATAATG
* * * ** *
2910428 TAGTAATAAATTACTTATAACTTAGTTA-TATATCAAT-AATAATTTTGTAGTAAATCATCAATA
1 TAGTAATAAATTAGTTATAACTTA-ATAGTAAATC-ATCAATAATTTAATACTAAATCATCAATA
2910491 A-A
64 ACA
* * *
2910493 TTCA-TAATAAATTAGTTATAACTTTATAGTAAATTATCAATAACTTAATACTAAATCATCAATA
1 -T-AGTAATAAATTAGTTATAACTTAATAGTAAATCATCAATAATTTAATACTAAATCATCAATA
2910557 ACA
64 ACA
* * * **
2910560 TAGTAGTAAATTATTTATAACTTAATAGTAAATCATTAATAATTTAATGA-TAAATCATTGATAA
1 TAGTAATAAATTAGTTATAACTTAATAGTAAATCATCAATAATTTAAT-ACTAAATCATCAATAA
2910624 CA
65 CA
* * *
2910626 TAGCAATAAATTAGTAATAATTTAAT
1 TAGTAATAAATTAGTTATAACTTAAT
2910652 TGTTAATCGA
Statistics
Matches: 130, Mismatches: 22, Indels: 12
0.79 0.13 0.07
Matches are distributed among these distances:
65 5 0.04
66 122 0.94
67 3 0.02
ACGTcount: A:0.47, C:0.08, G:0.06, T:0.39
Consensus pattern (66 bp):
TAGTAATAAATTAGTTATAACTTAATAGTAAATCATCAATAATTTAATACTAAATCATCAATAAC
A
Found at i:2910614 original size:44 final size:44
Alignment explanation
Indices: 2910412--2910651 Score: 146
Period size: 44 Copynumber: 5.5 Consensus size: 44
2910402 AATTTAGCAG
* * * * * *
2910412 TAAATCACTAATAATGTAGTAATAAATTACTT-ATAACTTAGTTA
1 TAAATCATTAATAATTTAATAGTAAATTA-TTAATAACTTAATAA
* * ** * * * *
2910456 TATATCAATAATAATTTTGTAGTAAATCATCAATAAATTCATAA
1 TAAATCATTAATAATTTAATAGTAAATTATTAATAACTTAATAA
* * *
2910500 TAAATTAGTT-ATAACTTT-ATAGTAAATTATCAATAACTTAATAC
1 TAAATCA-TTAATAA-TTTAATAGTAAATTATTAATAACTTAATAA
* ** * * *
2910544 TAAATCATCAATAACATAGTAGTAAATTATTTATAACTTAATAG
1 TAAATCATTAATAATTTAATAGTAAATTATTAATAACTTAATAA
* * * **
2910588 TAAATCATTAATAATTTAAT-GATAAATCATTGATAACATAGCAA
1 TAAATCATTAATAATTTAATAG-TAAATTATTAATAACTTAATAA
* *
2910632 TAAATTAGTAATAATTTAAT
1 TAAATCATTAATAATTTAAT
2910652 TGTTAATCGA
Statistics
Matches: 151, Mismatches: 39, Indels: 12
0.75 0.19 0.06
Matches are distributed among these distances:
43 4 0.03
44 143 0.95
45 4 0.03
ACGTcount: A:0.47, C:0.08, G:0.06, T:0.38
Consensus pattern (44 bp):
TAAATCATTAATAATTTAATAGTAAATTATTAATAACTTAATAA
Found at i:2910618 original size:22 final size:22
Alignment explanation
Indices: 2910257--2910624 Score: 129
Period size: 22 Copynumber: 17.0 Consensus size: 22
2910247 ATTGATAAAA
* *
2910257 TTAATAGTATATCATAAATAAC
1 TTAATAGTAAATCATTAATAAC
* * * * *
2910279 TTAGTAGTAATTCAATGATAAT
1 TTAATAGTAAATCATTAATAAC
* * *
2910301 TTAGTAGTAAATAATTGATAAC
1 TTAATAGTAAATCATTAATAAC
*
2910323 TTAATAGCAAA-CTATTGAA-AAC
1 TTAATAGTAAATC-ATT-AATAAC
* * **
2910345 TTAGTAATAAATC---AAT-GG
1 TTAATAGTAAATCATTAATAAC
* *
2910363 TGATTAGTAAATGCA-TAATAA-
1 TTAATAGTAAAT-CATTAATAAC
2910384 TATAATAGTAAATCATTGAAT---
1 T-TAATAGTAAATCATT-AATAAC
** *
2910405 TTAGCAGTAAATCACTAATAA-
1 TTAATAGTAAATCATTAATAAC
* * *
2910426 TGTAGTAATAAATTACTT-ATAAC
1 T-TAATAGTAAATCA-TTAATAAC
* * * *
2910449 TTAGTTA-TATATCAATAATAAT
1 TTA-ATAGTAAATCATTAATAAC
** * *
2910471 TTTGTAGTAAATCATCAATAAA
1 TTAATAGTAAATCATTAATAAC
* * *
2910493 TTCATAATAAATTAGTT-ATAAC
1 TTAATAGTAAATCA-TTAATAAC
* * *
2910515 TTTATAGTAAATTATCAATAAC
1 TTAATAGTAAATCATTAATAAC
* *
2910537 TTAATACTAAATCATCAATAAC
1 TTAATAGTAAATCATTAATAAC
* * * *
2910559 ATAGTAGTAAATTATTTATAAC
1 TTAATAGTAAATCATTAATAAC
*
2910581 TTAATAGTAAATCATTAATAAT
1 TTAATAGTAAATCATTAATAAC
*
2910603 TTAAT-GATAAATCATTGATAAC
1 TTAATAG-TAAATCATTAATAAC
2910625 ATAGCAATAA
Statistics
Matches: 255, Mismatches: 69, Indels: 44
0.69 0.19 0.12
Matches are distributed among these distances:
18 11 0.04
19 4 0.02
20 12 0.05
21 13 0.05
22 205 0.80
23 10 0.04
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.37
Consensus pattern (22 bp):
TTAATAGTAAATCATTAATAAC
Found at i:2910815 original size:61 final size:61
Alignment explanation
Indices: 2910740--2910876 Score: 247
Period size: 61 Copynumber: 2.2 Consensus size: 61
2910730 AACTTAGTAA
*
2910740 TAAATCAGTTATAATAATAAATCAGAGTTAACTTAATTGTAATTTATTGATAACCGAATGT
1 TAAATCAGTTATAATAATAAATCAGAGTTAACTTAATTGTAATTTATTGATAACCGAATGC
*
2910801 TAAATCAGTTATAATAATAAATCAGAGTTAACTTAATTGTAATTTATTGATAACTGAATGC
1 TAAATCAGTTATAATAATAAATCAGAGTTAACTTAATTGTAATTTATTGATAACCGAATGC
*
2910862 TAAATCATTTATAAT
1 TAAATCAGTTATAAT
2910877 TTAGTTGTAA
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
61 73 1.00
ACGTcount: A:0.43, C:0.08, G:0.10, T:0.39
Consensus pattern (61 bp):
TAAATCAGTTATAATAATAAATCAGAGTTAACTTAATTGTAATTTATTGATAACCGAATGC
Found at i:2910830 original size:28 final size:28
Alignment explanation
Indices: 2910740--2910831 Score: 69
Period size: 28 Copynumber: 3.1 Consensus size: 28
2910730 AACTTAGTAA
2910740 TAAATCAGTTATAATAATAAATCAGAGT
1 TAAATCAGTTATAATAATAAATCAGAGT
* * * * * *
2910768 TAACTTAATTGTAATTTATTGATAA-CCGAATGT
1 TAAATCAGTTATAA--TAAT-A-AATCAG-A-GT
2910801 TAAATCAGTTATAATAATAAATCAGAGT
1 TAAATCAGTTATAATAATAAATCAGAGT
2910829 TAA
1 TAA
2910832 CTTAATTGTA
Statistics
Matches: 45, Mismatches: 12, Indels: 14
0.63 0.17 0.20
Matches are distributed among these distances:
28 15 0.33
29 3 0.07
30 6 0.13
31 6 0.13
32 3 0.07
33 12 0.27
ACGTcount: A:0.46, C:0.08, G:0.11, T:0.36
Consensus pattern (28 bp):
TAAATCAGTTATAATAATAAATCAGAGT
Found at i:2910843 original size:28 final size:28
Alignment explanation
Indices: 2910751--2910843 Score: 71
Period size: 28 Copynumber: 3.1 Consensus size: 28
2910741 AAATCAGTTA
2910751 TAATAATAAATCAGAGTTAACTTAATTG
1 TAATAATAAATCAGAGTTAACTTAATTG
* * * * * *
2910779 TAATTTATTGATAA-CCGAATGTTAAATCAGTTA
1 TAA--TAAT-A-AATCAG-A-GTTAACTTAATTG
2910812 TAATAATAAATCAGAGTTAACTTAATTG
1 TAATAATAAATCAGAGTTAACTTAATTG
2910840 TAAT
1 TAAT
2910844 TTATTGATAA
Statistics
Matches: 46, Mismatches: 12, Indels: 14
0.64 0.17 0.19
Matches are distributed among these distances:
28 16 0.35
29 3 0.07
30 6 0.13
31 6 0.13
32 3 0.07
33 12 0.26
ACGTcount: A:0.44, C:0.08, G:0.11, T:0.38
Consensus pattern (28 bp):
TAATAATAAATCAGAGTTAACTTAATTG
Found at i:2910937 original size:23 final size:23
Alignment explanation
Indices: 2910901--2910952 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
2910891 GTGATAACAA
*
2910901 TAAATC-AATAATAACTTATTAG
1 TAAATCAAATAATAACCTATTAG
*
2910923 TAAATCAAATAATAACCTCTTAG
1 TAAATCAAATAATAACCTATTAG
2910946 TAAATCA
1 TAAATCA
2910953 GTTTTAGCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 6 0.22
23 21 0.78
ACGTcount: A:0.50, C:0.13, G:0.04, T:0.33
Consensus pattern (23 bp):
TAAATCAAATAATAACCTATTAG
Found at i:2912587 original size:21 final size:20
Alignment explanation
Indices: 2912555--2912594 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
2912545 TTTTATAGTC
*
2912555 AAAAAATTAAAAAAAAGAAG
1 AAAAAATAAAAAAAAAGAAG
2912575 AAAAATATAAAAAAAAAGAA
1 AAAAA-ATAAAAAAAAAGAA
2912595 TGAAGATGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.82, C:0.00, G:0.07, T:0.10
Consensus pattern (20 bp):
AAAAAATAAAAAAAAAGAAG
Found at i:2914093 original size:2 final size:2
Alignment explanation
Indices: 2914086--2914111 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2914076 GTGCATGAAC
2914086 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
2914112 GCAATCATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2916985 original size:170 final size:169
Alignment explanation
Indices: 2916710--2917062 Score: 388
Period size: 170 Copynumber: 2.1 Consensus size: 169
2916700 GCTCAGCTTG
** * * * **
2916710 GCCAAAAAAGTTTGAATATATAAAATGCTTTCATAAAAACCTAACTCAACAAAACAACTCGGCCA
1 GCCAAAAAAGTTCAAATATATAAAATACCTTCATAAAAACCCAACTCAACAAAACAACTCAACCA
* * * * *
2916775 AAGAGCTCGAATGCAGCTCAACTAAAAAAGTTTAGATTTATAAAATGCTTTCATAAA-GATCCAA
66 AAGAACTCGAATGCAACTCAACCAAAAAAGTTTAGATTTATAAAATGCCTTCATAAAGGCT-CAA
* * ** *
2916839 CTCAACAAAATAGCTCGGATGAAAAGCTCAGACTTAACTCA
130 CTCAACAAAATACCTCAGACAAAAAGCTCA-AATTAACTCA
* * * * *
2916880 GCCAAAAAAGTTCAAATTTATAAAATACCTTCATAAAGACCCGACTCAACAAAATAGCTCAACCA
1 GCCAAAAAAGTTCAAATATATAAAATACCTTCATAAAAACCCAACTCAACAAAACAACTCAACCA
* * * *
2916945 TAGAACTCGAACT-CAACTCAGCCAAAAGAG-TTAGGATTTATAAAATGCCTTCATAAAGGCTTA
66 AAGAACTCGAA-TGCAACTCAACCAAAAAAGTTTA-GATTTATAAAATGCCTTCATAAAGGCTCA
* *
2917008 ACTCAACAAAATACCTCAGCCAAAAAGCTCAAATTTACTCA
129 ACTCAACAAAATACCTCAGACAAAAAGCTCAAATTAACTCA
*
2917049 GCTAAAAAAGTTCA
1 GCCAAAAAAGTTCA
2917063 GGTTGACTAA
Statistics
Matches: 151, Mismatches: 29, Indels: 7
0.81 0.16 0.04
Matches are distributed among these distances:
169 24 0.16
170 124 0.82
171 3 0.02
ACGTcount: A:0.45, C:0.22, G:0.11, T:0.22
Consensus pattern (169 bp):
GCCAAAAAAGTTCAAATATATAAAATACCTTCATAAAAACCCAACTCAACAAAACAACTCAACCA
AAGAACTCGAATGCAACTCAACCAAAAAAGTTTAGATTTATAAAATGCCTTCATAAAGGCTCAAC
TCAACAAAATACCTCAGACAAAAAGCTCAAATTAACTCA
Found at i:2917075 original size:85 final size:84
Alignment explanation
Indices: 2916710--2917063 Score: 309
Period size: 85 Copynumber: 4.2 Consensus size: 84
2916700 GCTCAGCTTG
* * * * * * * *
2916710 GCCAAAAAAGTT-TGAATATATAAAATGCTTTCATAAAAACCTAACTCAACAAAACAACTCGGCC
1 GCCAAAAAAGTTCAG-ATTTATAAAATGCCTTCATAAAGACCCAACTCAACAAAATAGCTCAGCC
* * * *
2916774 AAAGAGCTCGAATGCAGCTCA
65 AAAAAGCTCAAAT-TAACTCA
* * * * * * ***
2916795 ACTAAAAAAGTTTAGATTTATAAAATGCTTTCATAAAGATCCAACTCAACAAAATAGCTCGGATG
1 GCCAAAAAAGTTCAGATTTATAAAATGCCTTCATAAAGACCCAACTCAACAAAATAGCTCAGCCA
*
2916860 AAAAGCTCAGACTTAACTCA
66 AAAAGCTCA-AATTAACTCA
* * * *
2916880 GCCAAAAAAGTTCAAATTTATAAAATACCTTCATAAAGACCCGACTCAACAAAATAGCTCAACCA
1 GCCAAAAAAGTTCAGATTTATAAAATGCCTTCATAAAGACCCAACTCAACAAAATAGCTCAGCCA
* * *
2916945 TAGAA-CTCGAACTCAACTCA
66 -AAAAGCTC-AAATTAACTCA
* * ** *
2916965 GCCAAAAGAGTT-AGGATTTATAAAATGCCTTCATAAAGGCTTAACTCAACAAAATACCTCAGCC
1 GCCAAAAAAGTTCA-GATTTATAAAATGCCTTCATAAAGACCCAACTCAACAAAATAGCTCAGCC
*
2917029 AAAAAGCTCAAATTTACTCA
65 AAAAAGCTCAAATTAACTCA
*
2917049 GCTAAAAAAGTTCAG
1 GCCAAAAAAGTTCAG
2917064 GTTGACTAAA
Statistics
Matches: 215, Mismatches: 47, Indels: 15
0.78 0.17 0.05
Matches are distributed among these distances:
84 23 0.11
85 185 0.86
86 7 0.03
ACGTcount: A:0.45, C:0.21, G:0.12, T:0.22
Consensus pattern (84 bp):
GCCAAAAAAGTTCAGATTTATAAAATGCCTTCATAAAGACCCAACTCAACAAAATAGCTCAGCCA
AAAAGCTCAAATTAACTCA
Found at i:2917563 original size:62 final size:62
Alignment explanation
Indices: 2917447--2917563 Score: 135
Period size: 62 Copynumber: 1.9 Consensus size: 62
2917437 AATCAACTTG
* * * * * *
2917447 GCATAAATTCACCTCGATAAAAATGATCTCGGTACATATTTATCTCAGTGTAAATTACATTA
1 GCATAAAATCACCTCGATAAAAATGACCTCGGCACAGATTCATCTCAGTATAAATTACATTA
** * * *
2917509 GCATAAAATCACCTCGATGTAAATTACCTTGGCACAGATTCATCTTAGTATAAAT
1 GCATAAAATCACCTCGATAAAAATGACCTCGGCACAGATTCATCTCAGTATAAAT
2917564 CTCCTTAACA
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
62 44 1.00
ACGTcount: A:0.37, C:0.19, G:0.12, T:0.32
Consensus pattern (62 bp):
GCATAAAATCACCTCGATAAAAATGACCTCGGCACAGATTCATCTCAGTATAAATTACATTA
Found at i:2920458 original size:61 final size:58
Alignment explanation
Indices: 2920387--2920625 Score: 275
Period size: 61 Copynumber: 4.0 Consensus size: 58
2920377 TTGCTTTGTA
*
2920387 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAATATATTGGTTTTTGAAATTTTAATTT
1 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAA-ATATT--TTTTTGAAATTTTAATTT
* * * *
2920448 CAAGAAAAATTGATACTTTCAACTTTTTCTC-AAAATA-CTTTTTAACAATTTTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGA-AATTTTAATTT
* * * *
2920505 CAAGAAAAAATTGATTCTTTCAAATTTTTCCTCAAAAATATTTTTTAGAACACTTTTATTTT
1 CAAG-AAAAATTGATACTTTC-AACTTTTCCTCAAAAATATTTTTTTGAA-A-TTTTAATTT
* * *
2920567 CAAGGAAAATTGATACTTTCAACTTTTCCTAAAAAATATTTTTTTGAAAATTTTTATTT
1 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTG-AAATTTTAATTT
2920626 TAGAAACTTT
Statistics
Matches: 152, Mismatches: 18, Indels: 18
0.81 0.10 0.10
Matches are distributed among these distances:
56 6 0.04
57 14 0.09
58 15 0.10
59 19 0.12
60 34 0.22
61 51 0.34
62 13 0.09
ACGTcount: A:0.36, C:0.12, G:0.06, T:0.45
Consensus pattern (58 bp):
CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAATTTTAATTT
Found at i:2920609 original size:119 final size:118
Alignment explanation
Indices: 2920392--2920610 Score: 307
Period size: 119 Copynumber: 1.8 Consensus size: 118
2920382 TTGTACAAGG
*
2920392 AAAATTGATACTTTCAACTTTTCCTCAAAATATATTGGTTTTTGAAATTTTAATTTCAAGAAAAA
1 AAAATTGATACTTTCAACTTTTCCTCAAAATATATT-GTTTTAGAAATTTTAATTTCAAGAAAAA
* *
2920457 TTGATACTTTCAACTTTTTCTCAAAATACTTTTTAACAATTTTATTTTCAAGAA
65 TTGATACTTTCAACTTTTCCTAAAAATACTTTTTAACAATTTTATTTTCAAGAA
* * * *
2920511 AAAATTGATTCTTTCAAATTTTTCCTCAAAA-ATATT-TTTTAGAACACTTTTATTTTCAAGGAA
1 AAAATTGATACTTTC-AACTTTTCCTCAAAATATATTGTTTTAGAA-A-TTTTAATTTCAAGAAA
*
2920574 AATTGATACTTTCAACTTTTCCTAAAAAATATTTTTT
63 AATTGATACTTTCAACTTTTCCT-AAAAATACTTTTT
2920611 TGAAAATTTT
Statistics
Matches: 88, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
117 7 0.08
118 1 0.01
119 55 0.62
120 25 0.28
ACGTcount: A:0.37, C:0.13, G:0.05, T:0.45
Consensus pattern (118 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAATATATTGTTTTAGAAATTTTAATTTCAAGAAAAAT
TGATACTTTCAACTTTTCCTAAAAATACTTTTTAACAATTTTATTTTCAAGAA
Found at i:2920617 original size:74 final size:74
Alignment explanation
Indices: 2920538--2920684 Score: 217
Period size: 74 Copynumber: 2.0 Consensus size: 74
2920528 ATTTTTCCTC
* *
2920538 AAAAATATT-TTTTAGAACACTTTTATTTTCAAGGAAAATTGATACTTTCAAC-TTTTCCTAAAA
1 AAAATTATTATTTTAGAA-AC-TTTATTTTCAAGAAAAATTGATACTTTCAACTTTTTCCT-AAA
2920601 AATATTTTTTTG
63 AATATTTTTTTG
* *
2920613 AAAATTTTTATTTTAGAAACTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTCCTAAAAAT
1 AAAATTATTATTTTAGAAACTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTTCCTAAAAAT
2920678 ATTTTTT
66 ATTTTTT
2920685 AAAACTTTTT
Statistics
Matches: 66, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
74 42 0.64
75 16 0.24
76 8 0.12
ACGTcount: A:0.37, C:0.10, G:0.05, T:0.48
Consensus pattern (74 bp):
AAAATTATTATTTTAGAAACTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTTCCTAAAAAT
ATTTTTTTG
Found at i:2920709 original size:58 final size:58
Alignment explanation
Indices: 2920613--2920796 Score: 203
Period size: 58 Copynumber: 3.1 Consensus size: 58
2920603 TATTTTTTTG
* * * *
2920613 AAAATTTTTATTTTAGAAACTTTAT-TTTTAAGAAAAATTGATACTTTCAACTTTTTCCTA
1 AAAATATTT-TTTTA-AAACTTTTTATTTTCAGAGAAATTGATACTTTCAAC-TTTTCCTA
* *
2920673 AAAATA-TTTTTTAAAACTTTTTATTTTCAGAGAAATTAATACTTTCAACTTTCCCTAA
1 AAAATATTTTTTTAAAACTTTTTATTTTCAGAGAAATTGATACTTTCAACTTTTCCT-A
*
2920731 AAAATATTTTTGTTTAAAAAATTTTTATTTTCA-AGGAAAATTGATACTTTCAACTTTTCCTA
1 AAAATA-TTTT-TTT-AAAACTTTTTATTTTCAGA-G-AAATTGATACTTTCAACTTTTCCTA
2920793 AAAA
1 AAAA
2920797 ATATATATAT
Statistics
Matches: 107, Mismatches: 9, Indels: 14
0.82 0.07 0.11
Matches are distributed among these distances:
57 14 0.13
58 35 0.33
59 2 0.02
60 8 0.07
61 4 0.04
62 22 0.21
63 22 0.21
ACGTcount: A:0.39, C:0.11, G:0.05, T:0.46
Consensus pattern (58 bp):
AAAATATTTTTTTAAAACTTTTTATTTTCAGAGAAATTGATACTTTCAACTTTTCCTA
Found at i:2920735 original size:132 final size:139
Alignment explanation
Indices: 2920497--2920761 Score: 395
Period size: 135 Copynumber: 2.0 Consensus size: 139
2920487 TTTTAACAAT
*
2920497 TTTATTTTCAAGAAAAAATTGATTCTTTCAAATTTTTCCTCAAAAATATTTTTTAGAACACTTTT
1 TTTATTTTCAAGAAAAAATTGATACTTTCAAATTTTTCCTCAAAAATATTTTTTAGAACACTTTT
* * *
2920562 ATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTAAAAAATA-TTTT-TTT-GAAAATTTTTAT
66 ATTTTCAAGGAAAATTAATACTTTCAACTTTCCCTAAAAAATATTTTTGTTTAAAAAATTTTTAT
2920624 TTTAGAAAC
131 TTTAGAAAC
* *
2920633 TTTATTTTTAAG-AAAAATTGATACTTTCAACTTTTTCCT-AAAAATATTTTTTA-AA-ACTTTT
1 TTTATTTTCAAGAAAAAATTGATACTTTCAAATTTTTCCTCAAAAATATTTTTTAGAACAC-TTT
2920694 TATTTTC-A-GAGAAATTAATACTTTCAACTTTCCCTAAAAAATATTTTTGTTTAAAAAATTTTT
65 TATTTTCAAGGA-AAATTAATACTTTCAACTTTCCCTAAAAAATATTTTTGTTTAAAAAATTTTT
2920757 ATTTT
129 ATTTT
2920762 CAAGGAAAAT
Statistics
Matches: 118, Mismatches: 6, Indels: 11
0.87 0.04 0.08
Matches are distributed among these distances:
131 2 0.02
132 33 0.28
133 16 0.14
134 17 0.14
135 39 0.33
136 11 0.09
ACGTcount: A:0.37, C:0.11, G:0.05, T:0.48
Consensus pattern (139 bp):
TTTATTTTCAAGAAAAAATTGATACTTTCAAATTTTTCCTCAAAAATATTTTTTAGAACACTTTT
ATTTTCAAGGAAAATTAATACTTTCAACTTTCCCTAAAAAATATTTTTGTTTAAAAAATTTTTAT
TTTAGAAAC
Found at i:2920782 original size:63 final size:60
Alignment explanation
Indices: 2920633--2920833 Score: 225
Period size: 63 Copynumber: 3.3 Consensus size: 60
2920623 TTTTAGAAAC
* * *
2920633 TTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTCCT-AAAAATA-TTTTTTAAAACTT
1 TTTATTTTCAAGGAAAATTGATACTTTCAAC-TTTTCCTAAAAAATATTTTTTTAAAAATT
* *
2920692 TTTATTTTC-A-GAGAAATTAATACTTTCAACTTTCCCTAAAAAATATTTTTGTTTAAAAAATT
1 TTTATTTTCAAGGA-AAATTGATACTTTCAACTTTTCCTAAAAAATA-TTTT-TTT-AAAAATT
* *
2920754 TTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTAAAAAATATATATATTTTTAGAATT
1 TTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTAAAAAATAT-T-T-TTTTAAAAATT
2920817 TTTATTTT--AGGAAAATT
1 TTTATTTTCAAGGAAAATT
2920834 ATTAAAATAA
Statistics
Matches: 122, Mismatches: 9, Indels: 20
0.81 0.06 0.13
Matches are distributed among these distances:
57 7 0.06
58 24 0.20
59 8 0.07
60 3 0.02
61 12 0.10
62 16 0.13
63 45 0.37
64 6 0.05
65 1 0.01
ACGTcount: A:0.38, C:0.09, G:0.05, T:0.47
Consensus pattern (60 bp):
TTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTAAAAAATATTTTTTTAAAAATT
Found at i:2921392 original size:12 final size:12
Alignment explanation
Indices: 2921360--2921393 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
2921350 TAGAAAAAAA
2921360 TCCAAAAAA-TT
1 TCCAAAAAATTT
*
2921371 TCAAAAAAATTT
1 TCCAAAAAATTT
2921383 TCCAAAAAATT
1 TCCAAAAAATT
2921394 CTAAATTGCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 8 0.40
12 12 0.60
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.29
Consensus pattern (12 bp):
TCCAAAAAATTT
Found at i:2921681 original size:10 final size:9
Alignment explanation
Indices: 2921669--2921808 Score: 59
Period size: 10 Copynumber: 14.1 Consensus size: 9
2921659 AGGTAAAATC
2921669 AATAAAAAA
1 AATAAAAAA
2921678 CAATAATAATATA
1 -AATAA-AA-A-A
*
2921691 AATAATAATA
1 AATAA-AAAA
* *
2921701 AATAGTAAAT
1 AATA-AAAAA
2921711 AATAAAAATA
1 AATAAAAA-A
*
2921721 AATAATAAAC
1 AATAA-AAAA
*
2921731 AA-AAAAAC
1 AATAAAAAA
2921739 AATAATAAAA
1 AATAA-AAAA
2921749 AATAAAAATA
1 AATAAAAA-A
*
2921759 ATGATAATAAA
1 A--ATAAAAAA
2921770 AATAAAATAA
1 AATAAAA-AA
*
2921780 AA-ACAAAAT
1 AATA-AAAAA
*
2921789 AATAATAATA
1 AATAA-AAAA
2921799 AATAAAAAA
1 AATAAAAAA
2921808 A
1 A
2921809 TGGGCCCATC
Statistics
Matches: 101, Mismatches: 14, Indels: 31
0.69 0.10 0.21
Matches are distributed among these distances:
8 6 0.06
9 24 0.24
10 48 0.48
11 7 0.07
12 15 0.15
13 1 0.01
ACGTcount: A:0.75, C:0.03, G:0.01, T:0.21
Consensus pattern (9 bp):
AATAAAAAA
Found at i:2921687 original size:3 final size:3
Alignment explanation
Indices: 2921679--2921799 Score: 65
Period size: 3 Copynumber: 40.7 Consensus size: 3
2921669 AATAAAAAAC
* *
2921679 AAT AAT AAT -AT AAAT AAT AAT AAAT AGT AAAT AAT AAA AAT AAAT AAT
1 AAT AAT AAT AAT -AAT AAT AAT -AAT AAT -AAT AAT AAT AAT -AAT AAT
* * * * * *
2921727 AA- ACAA AAA AAC AAT AAT AA- AA- AAT AAA AAT AAT GAT AAT AAA
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
2921770 AAT AA- AAT AAA AAC AA- AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
2921800 ATAAAAAAAT
Statistics
Matches: 94, Mismatches: 14, Indels: 20
0.73 0.11 0.16
Matches are distributed among these distances:
2 11 0.12
3 72 0.77
4 11 0.12
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.22
Consensus pattern (3 bp):
AAT
Found at i:2921698 original size:25 final size:25
Alignment explanation
Indices: 2921664--2921808 Score: 100
Period size: 26 Copynumber: 5.5 Consensus size: 25
2921654 AGAAAAGGTA
*
2921664 AAATCAATAAAAAACAATAATAATAT
1 AAAT-AATAAAAAAAAATAATAATAT
*
2921690 AAATAATAATAAATAGTAAATAATAAAAAT
1 AAATAATAA-AAA-A--AAATAAT-AATAT
*
2921720 AAATAATAAACAAAAAAACAATAATA-
1 AAATAAT-AA-AAAAAAATAATAATAT
* * *
2921746 AAA-AAT-AAAAATAATGATAATAA
1 AAATAATAAAAAAAAATAATAATAT
2921769 AAATAAAATAAAAACAAAATAATAATAAT
1 AAAT--AATAAAAA-AAAATAATAAT-AT
2921798 AAATAA-AAAAA
1 AAATAATAAAAA
2921809 TGGGCCCATC
Statistics
Matches: 95, Mismatches: 11, Indels: 26
0.72 0.08 0.20
Matches are distributed among these distances:
22 12 0.13
23 4 0.04
25 8 0.08
26 18 0.19
27 10 0.11
28 15 0.16
29 11 0.12
30 12 0.13
31 5 0.05
ACGTcount: A:0.74, C:0.03, G:0.01, T:0.21
Consensus pattern (25 bp):
AAATAATAAAAAAAAATAATAATAT
Found at i:2921746 original size:31 final size:31
Alignment explanation
Indices: 2921691--2921809 Score: 89
Period size: 31 Copynumber: 3.7 Consensus size: 31
2921681 TAATAATATA
* *
2921691 AATAATAATAAATAGTAAATAATAAAAATAAAT
1 AATAATAATAAATAATAAA--ATAAAAACAAAT
* * * *
2921724 AATAAACAAAAAAACAATAATAA-AAAATAAAAAT
1 AAT-AA-TAATAAATAATAA-AATAAAA-ACAAAT
*
2921758 AATGATAATAAA-AATAAAATAAAAACAAAAT
1 AATAATAATAAATAATAAAATAAAAAC-AAAT
*
2921789 AATAATAATAAATAAAAAAAT
1 AATAATAATAAATAATAAAAT
2921810 GGGCCCATCT
Statistics
Matches: 68, Mismatches: 11, Indels: 15
0.72 0.12 0.16
Matches are distributed among these distances:
30 3 0.04
31 24 0.35
32 12 0.18
33 8 0.12
34 11 0.16
35 9 0.13
36 1 0.01
ACGTcount: A:0.75, C:0.03, G:0.02, T:0.21
Consensus pattern (31 bp):
AATAATAATAAATAATAAAATAAAAACAAAT
Found at i:2921757 original size:6 final size:6
Alignment explanation
Indices: 2921679--2921806 Score: 82
Period size: 6 Copynumber: 20.3 Consensus size: 6
2921669 AATAAAAAAC
* * * *
2921679 AATAAT AATATA AATAAT AATAAA TAGTAAA TAATAAA AATAAA TAATAAA
1 AATAAA AATAAA AATAAA AATAAA -AATAAA -AATAAA AATAAA -AATAAA
* *
2921730 CAA-AAA AACAAT AATAAAA AATAAA AATAATGA TAATAAA AAT-AA AATAAA
1 -AATAAA AATAAA AAT-AAA AATAAA AATAA--A -AATAAA AATAAA AATAAA
* *
2921781 AA-CAA AATAAT AATAATA AATAAA AA
1 AATAAA AATAAA AATAA-A AATAAA AA
2921807 AATGGGCCCA
Statistics
Matches: 97, Mismatches: 15, Indels: 20
0.73 0.11 0.15
Matches are distributed among these distances:
5 11 0.11
6 50 0.52
7 30 0.31
8 1 0.01
9 5 0.05
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.22
Consensus pattern (6 bp):
AATAAA
Found at i:2932886 original size:15 final size:16
Alignment explanation
Indices: 2932851--2932884 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
2932841 AAAATTTTTC
2932851 AAAGAAAGAAAAGAAA
1 AAAGAAAGAAAAGAAA
* *
2932867 AAAGAAATAAAATAAA
1 AAAGAAAGAAAAGAAA
2932883 AA
1 AA
2932885 GAGAGTAATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.06
Consensus pattern (16 bp):
AAAGAAAGAAAAGAAA
Found at i:2933128 original size:58 final size:59
Alignment explanation
Indices: 2933017--2933243 Score: 223
Period size: 63 Copynumber: 3.8 Consensus size: 59
2933007 TTATTTTAGA
* *
2933017 AATTTTGTTTTCAAGAAAAACTGATACTTTTAAC-TTTTCCTCAAAATACTTTTT-AAC
1 AATTTTATTTTCAAGAAAAACTGATACTTTCAACTTTTTCCTCAAAATACTTTTTAAAC
*
2933074 AATTTTATTTTCAAGAAAAAACTGATACTTTCAACTTTTTCCTTC-AAATATTTTTTAGAAC
1 AATTTTATTTTCAAG-AAAAACTGATACTTTCAACTTTTTCC-TCAAAATACTTTTTA-AAC
* * * * * * * *
2933135 ACTTTTATTTCCAAGAAAAATTAATACTTTCAAC-TTTCCCTAAAAATTATTTTTGTTTAAAA
1 AATTTTATTTTCAAGAAAAACTGATACTTTCAACTTTTTCCTCAAAA-TA--CTT-TTTAAAC
*
2933197 AATTTTTATTTTCAA-AGAAAATTGATACTTTCAAC-TTTTCCTCAAAA
1 AA-TTTTATTTTCAAGA-AAAACTGATACTTTCAACTTTTTCCTCAAAA
2933244 ATATATATTT
Statistics
Matches: 143, Mismatches: 15, Indels: 18
0.81 0.09 0.10
Matches are distributed among these distances:
57 14 0.10
58 19 0.13
59 24 0.17
60 21 0.15
61 16 0.11
62 7 0.05
63 42 0.29
ACGTcount: A:0.37, C:0.15, G:0.04, T:0.44
Consensus pattern (59 bp):
AATTTTATTTTCAAGAAAAACTGATACTTTCAACTTTTTCCTCAAAATACTTTTTAAAC
Found at i:2933153 original size:118 final size:118
Alignment explanation
Indices: 2933010--2933242 Score: 278
Period size: 118 Copynumber: 2.0 Consensus size: 118
2933000 CAAATTTTTA
* * * * * *
2933010 TTTTAGAAATTTTGTTTTCAAGAAAAACTGATACTTTTAACTTTTCCTCAAAA-TA-CTT-TTT-
1 TTTTAGAAATTTTATTTCCAAGAAAAACTAATACTTTCAACTTTCCCTAAAAATTATCTTGTTTA
*
2933071 AACAA-TTTTATTTTCAAGAAAAAACTGATACTTTCAACTTTTTCCTTCAAATATT
66 AAAAATTTTTATTTTCAA-AAAAAACTGATACTTTCAAC-TTTTCC-TCAAATATT
* *
2933126 TTTTAGAACACTTTTATTTCCAAGAAAAATTAATACTTTCAACTTTCCCTAAAAATTATTTTTGT
1 TTTTAGAA-A-TTTTATTTCCAAGAAAAACTAATACTTTCAACTTTCCCTAAAAATTA-TCTTGT
* *
2933191 TTAAAAAATTTTTATTTTCAAAGAAAATTGATACTTTCAACTTTTCCTCAAA
63 TTAAAAAATTTTTATTTTCAAAAAAAACTGATACTTTCAACTTTTCCTCAAA
2933243 AATATATATT
Statistics
Matches: 98, Mismatches: 11, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
116 8 0.08
117 1 0.01
118 37 0.38
119 2 0.02
121 7 0.07
122 9 0.09
123 22 0.22
124 12 0.12
ACGTcount: A:0.36, C:0.15, G:0.05, T:0.44
Consensus pattern (118 bp):
TTTTAGAAATTTTATTTCCAAGAAAAACTAATACTTTCAACTTTCCCTAAAAATTATCTTGTTTA
AAAAATTTTTATTTTCAAAAAAAACTGATACTTTCAACTTTTCCTCAAATATT
Found at i:2933227 original size:63 final size:60
Alignment explanation
Indices: 2933001--2933270 Score: 209
Period size: 63 Copynumber: 4.5 Consensus size: 60
2932991 TACTTTTTAC
* * * * *
2933001 AAATT-TTTATTTTAGAAA-TTTTGTTTTC-AAGAAAAACTGATACTTTTAACTTTTCCTCA
1 AAATTATTT-TTTTAAAAATTTTTATTTTCAAAG-AAAATTGATACTTTCAACTTTTCCTAA
* * * * **
2933060 AAA-TA-CTTTTTAACAA-TTTTATTTTCAAGAAAAAACTGATACTTTCAACTTTTTCCTTC
1 AAATTATTTTTTTAAAAATTTTTATTTTCAA-AGAAAATTGATACTTTCAAC-TTTTCCTAA
* * * * *
2933119 AAA-TA-TTTTTTAGAACACTTTTA-TTTCCAAGAAAAATTAATACTTTCAACTTTCCCTAA
1 AAATTATTTTTTTA-AAAATTTTTATTTTCAAAG-AAAATTGATACTTTCAACTTTTCCTAA
2933178 AAATTATTTTTGTTTAAAAAATTTTTATTTTCAAAGAAAATTGATACTTTCAACTTTTCCTCAA
1 AAATTA-TTTT-TTT-AAAAATTTTTATTTTCAAAGAAAATTGATACTTTCAACTTTTCCT-AA
*
2933242 AAATATATATTTTTT-GAAATTTTTATTTT
1 AAAT-TAT-TTTTTTAAAAATTTTTATTTT
2933271 AGGAAAATTA
Statistics
Matches: 171, Mismatches: 24, Indels: 29
0.76 0.11 0.13
Matches are distributed among these distances:
57 16 0.09
58 20 0.12
59 32 0.19
60 25 0.15
61 5 0.03
62 16 0.09
63 34 0.20
64 18 0.11
65 5 0.03
ACGTcount: A:0.36, C:0.13, G:0.04, T:0.47
Consensus pattern (60 bp):
AAATTATTTTTTTAAAAATTTTTATTTTCAAAGAAAATTGATACTTTCAACTTTTCCTAA
Found at i:2934160 original size:3 final size:3
Alignment explanation
Indices: 2934152--2934280 Score: 65
Period size: 3 Copynumber: 43.7 Consensus size: 3
2934142 ATCAATCAAA
* *
2934152 AAT AAT AAT AAT -AT AAAT AAT AAT -AT AAT AGT AAAT AAT AAA AAT
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT
* * * * *
2934197 AAAT AAT AA- ACAA AAA AAC AAT AAT AA- AAGA AAT AA- AAA AAT AAT
1 -AAT AAT AAT A-AT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT
* * * *
2934242 GAT AAT AAA AAT AA- AAT AAA AAC AA- AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
2934281 ATAAATAAAT
Statistics
Matches: 100, Mismatches: 14, Indels: 24
0.72 0.10 0.17
Matches are distributed among these distances:
2 13 0.13
3 77 0.77
4 10 0.10
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.22
Consensus pattern (3 bp):
AAT
Found at i:2934219 original size:28 final size:29
Alignment explanation
Indices: 2934149--2934288 Score: 121
Period size: 28 Copynumber: 4.8 Consensus size: 29
2934139 AAAATCAATC
*
2934149 AAAAATAATAATAATATAAATAATAATATAA
1 AAAAATAATAATAA-ATAAATAATAA-ACAA
*
2934180 TAGTAAATAATAA-AAATAAATAATAAACAA
1 -A-AAAATAATAATAAATAAATAATAAACAA
* *
2934210 AAAAACAATAATAAA-AGA-AATAAA-AA
1 AAAAATAATAATAAATAAATAATAAACAA
2934236 AATAATGATAATAA-AAATAAAATAA-AAACAA
1 AA-AA--ATAATAATAAAT-AAATAATAAACAA
*
2934267 AATAATAATAATAAATAAATAA
1 AAAAATAATAATAAATAAATAA
2934289 ATATAGGCCC
Statistics
Matches: 90, Mismatches: 8, Indels: 24
0.74 0.07 0.20
Matches are distributed among these distances:
26 4 0.04
27 8 0.09
28 26 0.29
29 14 0.16
30 9 0.10
31 17 0.19
32 3 0.03
33 9 0.10
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.22
Consensus pattern (29 bp):
AAAAATAATAATAAATAAATAATAAACAA
Found at i:2934277 original size:57 final size:57
Alignment explanation
Indices: 2934150--2934289 Score: 167
Period size: 57 Copynumber: 2.4 Consensus size: 57
2934140 AAATCAATCA
* * * *
2934150 AAAATAATAATAATATAAATAATAATATAATAGTAAATAATAAAAATAAATAATAAAC
1 AAAATAATAATAATA-AAAAAATAAAAAAATAATAAATAATAAAAATAAATAATAAAC
* * *
2934208 AAAAAAACAATAATAAAAGAAATAAAAAAATAAT-GATAATAAAAATAAAATAA-AAAC
1 AAAATAATAATAATAAAA-AAATAAAAAAATAATAAATAATAAAAAT-AAATAATAAAC
*
2934265 AAAATAATAATAATAAATAAATAAA
1 AAAATAATAATAATAAAAAAATAAA
2934290 TATAGGCCCA
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
56 7 0.10
57 33 0.47
58 30 0.43
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.22
Consensus pattern (57 bp):
AAAATAATAATAATAAAAAAATAAAAAAATAATAAATAATAAAAATAAATAATAAAC
Found at i:2935631 original size:14 final size:14
Alignment explanation
Indices: 2935612--2935642 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
2935602 AAATGTTAAA
*
2935612 CTTTAAAATTTGTT
1 CTTTAAAATTTGAT
2935626 CTTTAAAATTTGAT
1 CTTTAAAATTTGAT
2935640 CTT
1 CTT
2935643 GGATTTATCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.29, C:0.10, G:0.06, T:0.55
Consensus pattern (14 bp):
CTTTAAAATTTGAT
Found at i:2936722 original size:23 final size:23
Alignment explanation
Indices: 2936648--2936725 Score: 70
Period size: 23 Copynumber: 3.3 Consensus size: 23
2936638 ATAAACAAGC
*
2936648 AATAAATAAATTTTATATTTATAGTA
1 AATAAATAAATATTA-ATTT-TA-TA
* *
2936674 AATCAAAT-GATATT-ATTTTATT
1 AAT-AAATAAATATTAATTTTATA
*
2936696 AATAAATAAATATTAATTTTAAA
1 AATAAATAAATATTAATTTTATA
2936719 AATAAAT
1 AATAAAT
2936726 TATATAAAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 9
0.74 0.10 0.16
Matches are distributed among these distances:
21 4 0.09
22 9 0.21
23 15 0.35
24 4 0.09
26 7 0.16
27 4 0.09
ACGTcount: A:0.53, C:0.01, G:0.03, T:0.44
Consensus pattern (23 bp):
AATAAATAAATATTAATTTTATA
Found at i:2936737 original size:16 final size:18
Alignment explanation
Indices: 2936693--2936755 Score: 60
Period size: 18 Copynumber: 3.6 Consensus size: 18
2936683 ATATTATTTT
* *
2936693 ATTAATAAATAAATATTA
1 ATTAAAAAATCAATATTA
*
2936711 ATTTTAAAAAT-AA-ATT-
1 A-TTAAAAAATCAATATTA
2936727 ATATAAAAAATCAATATTA
1 AT-TAAAAAATCAATATTA
2936746 ATTAAAAAAT
1 ATTAAAAAAT
2936756 TTATTTATTA
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
15 1 0.03
16 8 0.22
17 5 0.14
18 14 0.38
19 9 0.24
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (18 bp):
ATTAAAAAATCAATATTA
Found at i:2936751 original size:18 final size:17
Alignment explanation
Indices: 2936693--2936777 Score: 59
Period size: 16 Copynumber: 4.9 Consensus size: 17
2936683 ATATTATTTT
*
2936693 ATTAATAAATAAATATTA
1 ATTAAAAAAT-AATATTA
*
2936711 ATTTTAAAAATAA-ATT-
1 A-TTAAAAAATAATATTA
2936727 ATATAAAAAATCAATATTA
1 AT-TAAAAAAT-AATATTA
* *
2936746 ATTAAAAAAT-TTATTT
1 ATTAAAAAATAATATTA
*
2936762 ATTAATAAAGTAATAT
1 ATTAA-AAAATAATAT
2936778 CATTTGATTT
Statistics
Matches: 53, Mismatches: 7, Indels: 14
0.72 0.09 0.19
Matches are distributed among these distances:
15 1 0.02
16 17 0.32
17 9 0.17
18 17 0.32
19 9 0.17
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.40
Consensus pattern (17 bp):
ATTAAAAAATAATATTA
Found at i:2936777 original size:34 final size:34
Alignment explanation
Indices: 2936690--2936809 Score: 85
Period size: 35 Copynumber: 3.6 Consensus size: 34
2936680 ATGATATTAT
*
2936690 TTTATTAAT-AAATAAATATTAATTTTAAAAA-TAA
1 TTTATTAATAAAATAAATATTAA--TTAAAAATTTA
* *
2936724 ATTATATAA-AAAATCAATATTAATTAAAAAATTTA
1 TTTAT-TAATAAAATAAATATTAATT-AAAAATTTA
* * **
2936759 TTTATTAATAAAGT-AATA-TCATT--TGATTTA
1 TTTATTAATAAAATAAATATTAATTAAAAATTTA
2936789 TTTATTAATAAAAT-AATATTA
1 TTTATTAATAAAATAAATATTA
2936810 TTTGATTTAT
Statistics
Matches: 70, Mismatches: 10, Indels: 15
0.74 0.11 0.16
Matches are distributed among these distances:
30 22 0.31
31 1 0.01
33 6 0.09
34 16 0.23
35 25 0.36
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (34 bp):
TTTATTAATAAAATAAATATTAATTAAAAATTTA
Found at i:2936833 original size:33 final size:32
Alignment explanation
Indices: 2936760--2936835 Score: 102
Period size: 30 Copynumber: 2.4 Consensus size: 32
2936750 AAAAATTTAT
*
2936760 TTATTAATAAAGTAATATCATTTGATTTA-T-
1 TTATTAATAAAATAATATCATTTGATTTATTA
*
2936790 TTATTAATAAAATAATATTATTTGATTTATTA
1 TTATTAATAAAATAATATCATTTGATTTATTA
*
2936822 TTAATTTATAAAAT
1 TT-ATTAATAAAAT
2936836 TTATATACTG
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
30 27 0.68
31 1 0.03
32 2 0.05
33 10 0.25
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.51
Consensus pattern (32 bp):
TTATTAATAAAATAATATCATTTGATTTATTA
Found at i:2936839 original size:29 final size:30
Alignment explanation
Indices: 2936754--2936826 Score: 121
Period size: 30 Copynumber: 2.5 Consensus size: 30
2936744 TAATTAAAAA
* *
2936754 ATTTATTTATTAATAAAGTAATATCATTTG
1 ATTTATTTATTAATAAAATAATATTATTTG
2936784 ATTTATTTATTAATAAAATAATATTATTTG
1 ATTTATTTATTAATAAAATAATATTATTTG
2936814 ATTTA-TTATTAAT
1 ATTTATTTATTAAT
2936827 TTATAAAATT
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
29 8 0.20
30 33 0.80
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.53
Consensus pattern (30 bp):
ATTTATTTATTAATAAAATAATATTATTTG
Found at i:2939021 original size:54 final size:54
Alignment explanation
Indices: 2938952--2939135 Score: 219
Period size: 54 Copynumber: 3.4 Consensus size: 54
2938942 GAACCTCCAA
* *
2938952 AGAAACCAGAACCTAAGCCACCCAAGCCCCCTGTCTATGAACCTCCAAAGAAAG
1 AGAAACCAGAACCTAAGCCACCTAAGCCCCCAGTCTATGAACCTCCAAAGAAAG
* * * * * *
2939006 AGAAGCCAGAGCCTAAACCACCTAAGCCACCAGTCTATGAGCCTCCTAAG-AAG
1 AGAAACCAGAACCTAAGCCACCTAAGCCCCCAGTCTATGAACCTCCAAAGAAAG
* * **
2939059 AAGAAACCAGAACCAAAGCCACCTAAGCCCCCAGTTTATTCACCTCCAAAGAAAG
1 -AGAAACCAGAACCTAAGCCACCTAAGCCCCCAGTCTATGAACCTCCAAAGAAAG
*
2939114 AGAAGCCAGAA-CTCAAGCCACC
1 AGAAACCAGAACCT-AAGCCACC
2939136 AGTCTATGAA
Statistics
Matches: 107, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
53 4 0.04
54 100 0.93
55 3 0.03
ACGTcount: A:0.39, C:0.34, G:0.16, T:0.11
Consensus pattern (54 bp):
AGAAACCAGAACCTAAGCCACCTAAGCCCCCAGTCTATGAACCTCCAAAGAAAG
Found at i:2939110 original size:108 final size:107
Alignment explanation
Indices: 2938951--2939565 Score: 390
Period size: 102 Copynumber: 6.0 Consensus size: 107
2938941 CGAACCTCCA
* * * *
2938951 AAGAAACCAGAACCTAAGCCACCCAAGCCCCCTGTCTATGAACCTCCAAAGAAAGAGAAGCCAGA
1 AAGAAACCAGAACCTAAGCCACCAAAGCCCCCAGTTTATGCACCTCCAAAGAAAGAGAAGCCAGA
* *
2939016 GCCTAAACCACCTAAGCCACCAGTCTATGAGCCTCCTAAGAAG-
66 GCC-AAACCACC-AAGCCACCAGTCTATGAACCTCCAAAGAAGC
* * *
2939059 AAGAAACCAGAACCAAAGCCACCTAAGCCCCCAGTTTATTCACCTCCAAAGAAAGAGAAGCC--A
1 AAGAAACCAGAACCTAAGCCACCAAAGCCCCCAGTTTATGCACCTCCAAAGAAAGAGAAGCCAGA
*
2939122 G---AA-C-TCAAGCCACCAGTCTATGAACCTCCAAAGAAGCC
66 GCCAAACCACCAAGCCACCAGTCTATGAACCTCCAAAGAAG-C
** ** * * *
2939160 ACCAGTCTATGAACCTAAGCCACCAAAGCCACCAGTTTATGCACCACCAAAGAAAGAGAAGCC--
1 AAGAAACCA-GAACCTAAGCCACCAAAGCCCCCAGTTTATGCACCTCCAAAGAAAGAGAAGCCAG
* * *
2939223 AG---AA-C-CCAAACCACCGGTGTATGAACCTCCAAAGAAGCCTC
65 AGCCAAACCACCAAGCCACCAGTCTATGAACCTCCAAAGAAG---C
* ***** *
2939264 CAG-TGTTTGAACCTAAGCCA-CAGAAGCCACCAGTTTATGCACCTCCAAAGAAAGAGAAGCC--
1 AAGAAACCAGAACCTAAGCCACCA-AAGCCCCCAGTTTATGCACCTCCAAAGAAAGAGAAGCCAG
* * *
2939325 AG---AA-CA-CAAACCACCGGTGTATGAACCTCCAAAGAAGC
65 AGCCAAACCACCAAGCCACCAGTCTATGAACCTCCAAAGAAGC
**** * ** * * * *
2939363 CTCCAGCGTTTGAACCTAAACCACCAAAGCCACCAGTTTATGCACCACCAAAGAAAGAGAAACC-
1 AAGAAAC--CAGAACCTAAGCCACCAAAGCCCCCAGTTTATGCACCTCCAAAGAAAGAGAAGCCA
* *
2939427 -AG---AA-C-CCAAACCACCAGTATATGAACCTCCAAAGAAGCC
64 GAGCCAAACCACCAAGCCACCAGTCTATGAACCTCCAAAGAAG-C
** * * * *
2939466 ACCAATA-TATGAACCTAAGCCACCAAAGCCGCCGGTTTATGCACCTCCAAAGAAAGAAAAGCC-
1 AAGAA-ACCA-GAACCTAAGCCACCAAAGCCCCCAGTTTATGCACCTCCAAAGAAAGAGAAGCCA
*
2939529 -AG---AA-C-CCAAGCCCCCAGTCTATGAACCTCCAAAGAAG
64 GAGCCAAACCACCAAGCCACCAGTCTATGAACCTCCAAAGAAG
2939566 ACGTCGGTGT
Statistics
Matches: 437, Mismatches: 55, Indels: 36
0.83 0.10 0.07
Matches are distributed among these distances:
99 30 0.07
100 2 0.00
101 8 0.02
102 332 0.76
103 6 0.01
104 1 0.00
106 2 0.00
108 56 0.13
ACGTcount: A:0.39, C:0.32, G:0.16, T:0.13
Consensus pattern (107 bp):
AAGAAACCAGAACCTAAGCCACCAAAGCCCCCAGTTTATGCACCTCCAAAGAAAGAGAAGCCAGA
GCCAAACCACCAAGCCACCAGTCTATGAACCTCCAAAGAAGC
Found at i:2939210 original size:102 final size:102
Alignment explanation
Indices: 2939068--2939565 Score: 712
Period size: 102 Copynumber: 4.9 Consensus size: 102
2939058 GAAGAAACCA
* * * * * *
2939068 GAACCAAAGCCACCTAAGCCCCCAGTTTATTCACCTCCAAAGAAAGAGAAGCCAGAACTCAAGCC
1 GAACCTAAGCCACCAAAGCCACCAGTTTATGCACCTCCAAAGAAAGAGAAGCCAGAACCCAAACC
2939133 ACCAGTCTATGAACCTCCAAAGAAGCCACCAGTCTAT
66 ACCAGTCTATGAACCTCCAAAGAAGCCACCAGTCTAT
*
2939170 GAACCTAAGCCACCAAAGCCACCAGTTTATGCACCACCAAAGAAAGAGAAGCCAGAACCCAAACC
1 GAACCTAAGCCACCAAAGCCACCAGTTTATGCACCTCCAAAGAAAGAGAAGCCAGAACCCAAACC
* * * * *
2939235 ACCGGTGTATGAACCTCCAAAGAAGCCTCCAGTGTTT
66 ACCAGTCTATGAACCTCCAAAGAAGCCACCAGTCTAT
*
2939272 GAACCTAAGCCA-CAGAAGCCACCAGTTTATGCACCTCCAAAGAAAGAGAAGCCAGAACACAAAC
1 GAACCTAAGCCACCA-AAGCCACCAGTTTATGCACCTCCAAAGAAAGAGAAGCCAGAACCCAAAC
* * * *
2939336 CACCGGTGTATGAACCTCCAAAGAAGCCTCCAG-CGTTT
65 CACCAGTCTATGAACCTCCAAAGAAGCCACCAGTC-TAT
* * *
2939374 GAACCTAAACCACCAAAGCCACCAGTTTATGCACCACCAAAGAAAGAGAAACCAGAACCCAAACC
1 GAACCTAAGCCACCAAAGCCACCAGTTTATGCACCTCCAAAGAAAGAGAAGCCAGAACCCAAACC
* * *
2939439 ACCAGTATATGAACCTCCAAAGAAGCCACCAATATAT
66 ACCAGTCTATGAACCTCCAAAGAAGCCACCAGTCTAT
* * * *
2939476 GAACCTAAGCCACCAAAGCCGCCGGTTTATGCACCTCCAAAGAAAGAAAAGCCAGAACCCAAGCC
1 GAACCTAAGCCACCAAAGCCACCAGTTTATGCACCTCCAAAGAAAGAGAAGCCAGAACCCAAACC
*
2939541 CCCAGTCTATGAACCTCCAAAGAAG
66 ACCAGTCTATGAACCTCCAAAGAAG
2939566 ACGTCGGTGT
Statistics
Matches: 358, Mismatches: 34, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
101 2 0.01
102 354 0.99
103 2 0.01
ACGTcount: A:0.39, C:0.32, G:0.16, T:0.13
Consensus pattern (102 bp):
GAACCTAAGCCACCAAAGCCACCAGTTTATGCACCTCCAAAGAAAGAGAAGCCAGAACCCAAACC
ACCAGTCTATGAACCTCCAAAGAAGCCACCAGTCTAT
Found at i:2939237 original size:45 final size:45
Alignment explanation
Indices: 2939182--2939462 Score: 140
Period size: 45 Copynumber: 5.7 Consensus size: 45
2939172 ACCTAAGCCA
* *
2939182 CCAAAGCCACCAGTTTATGCACCACCAAAGAAAGAGAAGCCAGAAC
1 CCAAAGCCACCAGTTTATGAACCTCCAAAGAAAGAGAA-CCAGAAC
* * * *
2939228 CCAAA-CCACCGGTGTATGAACCTCCAAAGAAGCCTCCAGTGTTTGAACCTA-AGC
1 CCAAAGCCACCAGTTTATGAACCTCCAAAGAA------A--G--AGAACC-AGAAC
*
2939282 CACAGAAGCCACCAGTTTATGCACCTCCAAAGAAAGAGAAGCCAGAAC
1 C-CA-AAGCCACCAGTTTATGAACCTCCAAAGAAAGAGAA-CCAGAAC
* * * *
2939330 ACAAA-CCACCGGTGTATGAACCTCCAAAGAAGCCTCCAGCGTTTGAACCTA-AACC
1 CCAAAGCCACCAGTTTATGAACCTCCAAAGAA------A--G--AGAACC-AGAA-C
* *
2939385 ACCAAAGCCACCAGTTTATGCACCACCAAAGAAAGAGAAACCAGAAC
1 -CCAAAGCCACCAGTTTATGAACCTCCAAAGAAAGAG-AACCAGAAC
*
2939432 CCAAA-CCACCAGTATATGAACCTCCAAAGAA
1 CCAAAGCCACCAGTTTATGAACCTCCAAAGAA
2939463 GCCACCAATA
Statistics
Matches: 178, Mismatches: 25, Indels: 65
0.66 0.09 0.24
Matches are distributed among these distances:
45 68 0.38
46 12 0.07
47 9 0.05
48 10 0.06
49 2 0.01
51 4 0.02
53 2 0.01
54 9 0.05
55 11 0.06
56 6 0.03
57 45 0.25
ACGTcount: A:0.40, C:0.31, G:0.16, T:0.13
Consensus pattern (45 bp):
CCAAAGCCACCAGTTTATGAACCTCCAAAGAAAGAGAACCAGAAC
Found at i:2939277 original size:27 final size:27
Alignment explanation
Indices: 2939233--2939315 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
2939223 AGAACCCAAA
* *
2939233 CCACCGGTGTATGAACCTCCAAAGAAG
1 CCACCAGTGTTTGAACCTCCAAAGAAG
* *
2939260 CCTCCAGTGTTTGAACCTAAGCCACAGAAG
1 CCACCAGTGTTTGAACCT---CCAAAGAAG
*
2939290 CCACCAGT-TTATGCACCTCCAAAGAA
1 CCACCAGTGTT-TGAACCTCCAAAGAA
2939316 AGAGAAGCCA
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
27 22 0.49
29 2 0.04
30 21 0.47
ACGTcount: A:0.33, C:0.31, G:0.18, T:0.18
Consensus pattern (27 bp):
CCACCAGTGTTTGAACCTCCAAAGAAG
Found at i:2939309 original size:57 final size:55
Alignment explanation
Indices: 2939229--2939417 Score: 143
Period size: 57 Copynumber: 3.6 Consensus size: 55
2939219 AGCCAGAACC
*
2939229 CAAA-CCACCGGTGTATGAACCTCCAAAGAAGCCTCCAGTGTTTGAACCTAAGCCA
1 CAAAGCCACCAGTGTATGAACCTCCAAAGAAGCCTCCAG-GTTTGAACCTAAGCCA
* * * *
2939284 CAGAAGCCACCAGTTTATGCACCTCCAAAGAA------A-G--AGAAGCC--AGAACA
1 CA-AAGCCACCAGTGTATGAACCTCCAAAGAAGCCTCCAGGTTTGAA-CCTAAG-CCA
* *
2939331 CAAA-CCACCGGTGTATGAACCTCCAAAGAAGCCTCCAGCGTTTGAACCTAAACCA
1 CAAAGCCACCAGTGTATGAACCTCCAAAGAAGCCTCCAG-GTTTGAACCTAAGCCA
* * *
2939386 CCAAAGCCACCAGTTTATGCACCACCAAAGAA
1 -CAAAGCCACCAGTGTATGAACCTCCAAAGAA
2939418 AGAGAAACCA
Statistics
Matches: 101, Mismatches: 15, Indels: 34
0.67 0.10 0.23
Matches are distributed among these distances:
45 23 0.23
46 4 0.04
47 7 0.07
48 2 0.02
49 1 0.01
51 2 0.02
53 1 0.01
54 2 0.02
55 7 0.07
56 7 0.07
57 45 0.45
ACGTcount: A:0.37, C:0.31, G:0.17, T:0.15
Consensus pattern (55 bp):
CAAAGCCACCAGTGTATGAACCTCCAAAGAAGCCTCCAGGTTTGAACCTAAGCCA
Found at i:2939519 original size:306 final size:303
Alignment explanation
Indices: 2939068--2939619 Score: 820
Period size: 306 Copynumber: 1.8 Consensus size: 303
2939058 GAAGAAACCA
* * * * * * *
2939068 GAACCAAAGCCACCTAAGCCCCCAGTTTATTCACCTCCAAAGAAAGAGAAGCCAGAACTCAAGCC
1 GAACCAAAGCCACCAAAGCCACCAGTTTATGCACCACCAAAGAAAGAGAAACCAGAACCCAAACC
* * *
2939133 ACCAGTCTATGAACCTCCAAAGAAGCCACCAGTCTATGAACCTAAGCCACCAAAGCCACCAGTTT
66 ACCAGTATATGAACCTCCAAAGAAGCCACCAATATATGAACCTAAGCCACCAAAGCCACCAGTTT
* * *
2939198 ATGCACCACCAAAGAAAGAGAAGCCAGAACCCAAACCACCGGTGTATGAACCTCCAAAGAAG-CC
131 ATGCACCACCAAAGAAAGAAAAGCCAGAACCCAAACCACCAGTCTATGAACCTCCAAAGAAGACC
* * * * *
2939262 TCCAGTGTTTGAACCTAAGCCACAGAAGCCACCAGTTTATGCACCTCCAAAGAAAGAGAAGCCAG
196 T-CAGTGTATGAACCT--CCCA-AGAAACCACCAGTATATGAACCTCCAAAGAAAGAGAAGCCAG
2939327 AACACAAACCACCGGTGTATGAACCTCCAAAGAAGCCTCCAGCGTTT
257 AACACAAACCACCGGTGTATGAACCTCCAAAGAAGCCTCCAGCGTTT
2939374 GAACCTAAA-CCACCAAAGCCACCAGTTTATGCACCACCAAAGAAAGAGAAACCAGAACCCAAAC
1 GAACC-AAAGCCACCAAAGCCACCAGTTTATGCACCACCAAAGAAAGAGAAACCAGAACCCAAAC
* *
2939438 CACCAGTATATGAACCTCCAAAGAAGCCACCAATATATGAACCTAAGCCACCAAAGCCGCCGGTT
65 CACCAGTATATGAACCTCCAAAGAAGCCACCAATATATGAACCTAAGCCACCAAAGCCACCAGTT
* * *
2939503 TATGCACCTCCAAAGAAAGAAAAGCCAGAACCCAAGCCCCCAGTCTATGAACCTCCAAAGAAGAC
130 TATGCACCACCAAAGAAAGAAAAGCCAGAACCCAAACCACCAGTCTATGAACCTCCAAAGAAGAC
* *
2939568 GTCGGTGTATGAACCTCCCAAGAAACCACCAGTATATGAACCTCCAAAGAAA
195 CTCAGTGTATGAACCTCCCAAGAAACCACCAGTATATGAACCTCCAAAGAAA
2939620 CCACCAGTAT
Statistics
Matches: 219, Mismatches: 25, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
303 29 0.13
304 3 0.01
306 182 0.83
307 5 0.02
ACGTcount: A:0.39, C:0.32, G:0.16, T:0.13
Consensus pattern (303 bp):
GAACCAAAGCCACCAAAGCCACCAGTTTATGCACCACCAAAGAAAGAGAAACCAGAACCCAAACC
ACCAGTATATGAACCTCCAAAGAAGCCACCAATATATGAACCTAAGCCACCAAAGCCACCAGTTT
ATGCACCACCAAAGAAAGAAAAGCCAGAACCCAAACCACCAGTCTATGAACCTCCAAAGAAGACC
TCAGTGTATGAACCTCCCAAGAAACCACCAGTATATGAACCTCCAAAGAAAGAGAAGCCAGAACA
CAAACCACCGGTGTATGAACCTCCAAAGAAGCCTCCAGCGTTT
Found at i:2939605 original size:27 final size:27
Alignment explanation
Indices: 2939542--2939633 Score: 114
Period size: 27 Copynumber: 3.4 Consensus size: 27
2939532 ACCCAAGCCC
* *
2939542 CCAGTCTATGAACCTCCAAAGAAGA-CG
1 CCAGTATATGAACCTCCAAAGAA-ACCA
* * * *
2939569 TCGGTGTATGAACCTCCCAAGAAACCA
1 CCAGTATATGAACCTCCAAAGAAACCA
2939596 CCAGTATATGAACCTCCAAAGAAACCA
1 CCAGTATATGAACCTCCAAAGAAACCA
2939623 CCAGTATATGA
1 CCAGTATATGA
2939634 GTCACCTTAT
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
26 1 0.02
27 54 0.98
ACGTcount: A:0.38, C:0.28, G:0.16, T:0.17
Consensus pattern (27 bp):
CCAGTATATGAACCTCCAAAGAAACCA
Found at i:2942927 original size:5 final size:5
Alignment explanation
Indices: 2942915--2942956 Score: 52
Period size: 5 Copynumber: 8.4 Consensus size: 5
2942905 AGAGAAGAAG
2942915 AAAA- AAAAT AAAAT AAAAT AAAAT AATAATT AAAA- AAAAT AA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AA-AA-T AAAAT AAAAT AA
2942957 TGTTTACAGT
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
4 8 0.24
5 19 0.56
6 4 0.12
7 3 0.09
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:2942953 original size:16 final size:15
Alignment explanation
Indices: 2942915--2942957 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 15
2942905 AGAGAAGAAG
2942915 AAAAAAAATAA-AAT
1 AAAAAAAATAATAAT
2942929 AAAATAAAATAATAATT
1 AAAA-AAAATAATAA-T
2942946 AAAAAAAATAAT
1 AAAAAAAATAAT
2942958 GTTTACAGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
14 4 0.15
15 7 0.27
16 10 0.38
17 5 0.19
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (15 bp):
AAAAAAAATAATAAT
Found at i:2943197 original size:46 final size:47
Alignment explanation
Indices: 2943147--2943947 Score: 715
Period size: 46 Copynumber: 16.9 Consensus size: 47
2943137 GTTTAAAAGG
** *
2943147 CTCCTCTCAGTAGAGGTTCAACAACTTT-AAAATCTCATCTGAAAAA
1 CTCCTCTCAACAGAGGCTCAACAACTTTAAAAATCTCATCTGAAAAA
* * * *
2943193 CTCCTCTTAACATAGGCTTAACAACTTTAAAAATCTC-T-TAAAAAA
1 CTCCTCTCAACAGAGGCTCAACAACTTTAAAAATCTCATCTGAAAAA
* * * * *
2943238 GCTCCTCTCAATAGAGGCTCAACAACTTTAAAATTCTCTTTTGGAAAAG
1 -CTCCTCTCAACAGAGGCTCAACAACTTTAAAAATCTCATCT-GAAAAA
* *
2943287 CTCTTCTCAACAGAGGCTCAATAACTTTAAAAATCTC-T-TGAAAAA
1 CTCCTCTCAACAGAGGCTCAACAACTTTAAAAATCTCATCTGAAAAA
* *
2943332 GCTCCTCTCAACAGAGGCTCAACAACTTTAAAATTCTC-T-TAAAAAA
1 -CTCCTCTCAACAGAGGCTCAACAACTTTAAAAATCTCATCTGAAAAA
*
2943378 GCTCCTCTCAACAGAGGCTCAACAACTTT-AAAATCTCATATCTTGAAAAGGG
1 -CTCCTCTCAACAGAGGCTCAACAACTTTAAAAATCTC--ATC-TGAAAA--A
* * * *
2943430 CTCCTCTCAGCAGAGGCTTAACAACTTTAAAAATCTCTTCTTGGAAAAG
1 CTCCTCTCAACAGAGGCTCAACAACTTTAAAAATCTCATC-T-GAAAAA
** ** * *
2943479 CTCCTCTCAGTAGAGGCTCAACAACTTTAAAAAAATCTTATGAAAAA
1 CTCCTCTCAACAGAGGCTCAACAACTTTAAAAATCTCATCTGAAAAA
*
2943526 GCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCA--TGAAAAA
1 -CTCCTCTCAACAGAGGCTCAACAACTTTAAAAATCTCATCTGAAAAA
* * * *
2943572 GCTCTTCTCAGCAGAGGTTCAACAACTTTAAAAAAAATCTCA--TGAAAAGG
1 -CTCCTCTCAACAGAGGCTCAACAACTTT---AAAAATCTCATCTGAAAA-A
*
2943622 CTCCTCTCAGA-AGAGGCTCAACAACTTT-AAAATCTCATCTGGAAAAG
1 CTCCTCTCA-ACAGAGGCTCAACAACTTTAAAAATCTCATCT-GAAAAA
* * *
2943669 CTCCTCTTAACAAAGGCTCAACAACTTTAAAAATCTC-T-TGAAAAGG
1 CTCCTCTCAACAGAGGCTCAACAACTTTAAAAATCTCATCTGAAAA-A
* * * * * *
2943715 TTCTTCTCAACAGAAGCTCAACAACTTTAAAATTCTCTTCTGGAAAAG
1 CTCCTCTCAACAGAGGCTCAACAACTTTAAAAATCTCATCT-GAAAAA
* * *
2943763 TTCCTTTCAACAGAAGCTCAACAACTTTAAAAATCTC-T-TGAAAAA
1 CTCCTCTCAACAGAGGCTCAACAACTTTAAAAATCTCATCTGAAAAA
* * * *
2943808 GGTCCTCTCAATAGAGGCTTAACAACTTTAAAATTCTC-T-TGAAAAA
1 -CTCCTCTCAACAGAGGCTCAACAACTTTAAAAATCTCATCTGAAAAA
* *
2943854 GCTCCTCTCAACAGAGGCTCAATAACTTTAAAAATCTCATATCTTGAAAAGGG
1 -CTCCTCTCAACAGAGGCTCAACAACTTTAAAAATCTC--ATC-TGAAAA--A
* * * *
2943907 CTCCTCTCAGCAAATGCTCAACAACTTTAAAATTCTCATCT
1 CTCCTCTCAACAGAGGCTCAACAACTTTAAAAATCTCATCT
2943948 ATTTTCAAAT
Statistics
Matches: 643, Mismatches: 74, Indels: 73
0.81 0.09 0.09
Matches are distributed among these distances:
45 37 0.06
46 267 0.42
47 44 0.07
48 119 0.19
49 87 0.14
50 12 0.02
51 37 0.06
52 40 0.06
ACGTcount: A:0.37, C:0.24, G:0.11, T:0.27
Consensus pattern (47 bp):
CTCCTCTCAACAGAGGCTCAACAACTTTAAAAATCTCATCTGAAAAA
Found at i:2943331 original size:94 final size:93
Alignment explanation
Indices: 2943141--2943943 Score: 895
Period size: 94 Copynumber: 8.5 Consensus size: 93
2943131 TTGAAAGTTT
** * * * *
2943141 AAAAGGCTCCTCTCAGTAGAGGTTCAACAACTTTAAAA-TCTCATCT-GAAAAACTCCTCTTAAC
1 AAAAGGCTCCTCTCAACAGAGGCTCAACAACTTTAAAATTCTC-TTTGGAAAAGCTCCTCTCAAC
* * *
2943204 ATAGGCTTAACAACTTTAAAAATCTCTTA
65 AGAGGCTCAACAACTTTAAAAATCTCTTG
* * *
2943233 AAAAAGCTCCTCTCAATAGAGGCTCAACAACTTTAAAATTCTCTTTTGGAAAAGCTCTTCTCAAC
1 AAAAGGCTCCTCTCAACAGAGGCTCAACAACTTTAAAATTCTC-TTTGGAAAAGCTCCTCTCAAC
*
2943298 AGAGGCTCAATAACTTTAAAAATCTCTTG
65 AGAGGCTCAACAACTTTAAAAATCTCTTG
* **
2943327 AAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAATTCTC-TTAAAAAAGCTCCTCTCAACA
1 AAAAGGCTCCTCTCAACAGAGGCTCAACAACTTTAAAATTCTCTTTGGAAAAGCTCCTCTCAACA
*
2943391 GAGGCTCAACAACTTTAAAATCTCATATCTTG
66 GAGGCTCAACAACTTTAAAA----ATCTCTTG
* * *
2943423 AAAAGGGCTCCTCTCAGCAGAGGCTTAACAACTTTAAAAATCTCTTCTTGGAAAAGCTCCTCTCA
1 AAAA-GGCTCCTCTCAACAGAGGCTCAACAACTTTAAAATTCTC-T-TTGGAAAAGCTCCTCTCA
**
2943488 GTAGAGGCTCAACAACTTTAAAAAAATCT-TATG
63 ACAGAGGCTCAACAACTTT--AAAAATCTCT-TG
* * * * * * *
2943521 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTC-ATGAAAAAGCTCTTCTCAGCA
1 AAAAGGCTCCTCTCAACAGAGGCTCAACAACTTTAAAATTCTCTTTGGAAAAGCTCCTCTCAACA
* *
2943585 GAGGTTCAACAACTTTAAAAAAAATCTCATG
66 GAGGCTCAACAACTTT---AAAAATCTCTTG
* *
2943616 AAAAGGCTCCTCTCAGA-AGAGGCTCAACAACTTTAAAA-TCTCATCTGGAAAAGCTCCTCTTAA
1 AAAAGGCTCCTCTCA-ACAGAGGCTCAACAACTTTAAAATTCTC-TTTGGAAAAGCTCCTCTCAA
*
2943679 CAAAGGCTCAACAACTTTAAAAATCTCTTG
64 CAGAGGCTCAACAACTTTAAAAATCTCTTG
* * * * *
2943709 AAAAGGTTCTTCTCAACAGAAGCTCAACAACTTTAAAATTCTCTTCTGGAAAAGTTCCTTTCAAC
1 AAAAGGCTCCTCTCAACAGAGGCTCAACAACTTTAAAATTCTCTT-TGGAAAAGCTCCTCTCAAC
*
2943774 AGAAGCTCAACAACTTTAAAAATCTCTTG
65 AGAGGCTCAACAACTTTAAAAATCTCTTG
* * *
2943803 AAAAAGG-TCCTCTCAATAGAGGCTTAACAACTTTAAAATTCTC-TTGAAAAAGCTCCTCTCAAC
1 -AAAAGGCTCCTCTCAACAGAGGCTCAACAACTTTAAAATTCTCTTTGGAAAAGCTCCTCTCAAC
*
2943866 AGAGGCTCAATAACTTTAAAAATCTCATATCTTG
65 AGAGGCTCAACAACTTTAAAAA--TC---TCTTG
* * *
2943900 AAAAGGGCTCCTCTCAGCAAATGCTCAACAACTTTAAAATTCTC
1 AAAA-GGCTCCTCTCAACAGAGGCTCAACAACTTTAAAATTCTC
2943944 ATCTATTTTC
Statistics
Matches: 614, Mismatches: 68, Indels: 52
0.84 0.09 0.07
Matches are distributed among these distances:
92 109 0.18
93 52 0.08
94 198 0.32
95 53 0.09
96 45 0.07
97 80 0.13
98 40 0.07
100 33 0.05
102 4 0.01
ACGTcount: A:0.38, C:0.23, G:0.12, T:0.27
Consensus pattern (93 bp):
AAAAGGCTCCTCTCAACAGAGGCTCAACAACTTTAAAATTCTCTTTGGAAAAGCTCCTCTCAACA
GAGGCTCAACAACTTTAAAAATCTCTTG
Found at i:2963785 original size:11 final size:11
Alignment explanation
Indices: 2963769--2963799 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
2963759 TTGCCAAAAC
2963769 TTTTTTTTTAA
1 TTTTTTTTTAA
*
2963780 TTTTTTTCTAA
1 TTTTTTTTTAA
2963791 TTTTTTTTT
1 TTTTTTTTT
2963800 GGTGATGTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.13, C:0.03, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTTTTTTAA
Found at i:2964662 original size:49 final size:49
Alignment explanation
Indices: 2964535--2964804 Score: 339
Period size: 49 Copynumber: 5.6 Consensus size: 49
2964525 AATTAAAATC
* * * *
2964535 ATCTTAGAAAAA-CTCCTCTAAGTAAAGACTTAACAACTTTAAAAATTTC
1 ATCTT-GAAAAAGCTCCTCTAAGTAGAGGCTCAACAACTTTAAAAATTTT
* * *
2964584 ATCTTG-AAAAGTTTCTCTAAGTAGAGGCTCTACAACTTTAAAAATTTT
1 ATCTTGAAAAAGCTCCTCTAAGTAGAGGCTCAACAACTTTAAAAATTTT
* * * *
2964632 ATCTAGAAAAAGCTCCTCTAAGTAGAGGCTCAATAACTTTAAAAATCTC
1 ATCTTGAAAAAGCTCCTCTAAGTAGAGGCTCAACAACTTTAAAAATTTT
* * * *
2964681 ATCTTGAAAAAACTCTTGTAAGTAGAGGCTCAATAACTTT-AAAATTTT
1 ATCTTGAAAAAGCTCCTCTAAGTAGAGGCTCAACAACTTTAAAAATTTT
* *
2964729 ATCTTGAAAAAGCTACTCTAAGTAGAGGCTCAACTACTTTAAAAATTTT
1 ATCTTGAAAAAGCTCCTCTAAGTAGAGGCTCAACAACTTTAAAAATTTT
* *
2964778 ATCTTGAAAAAACTCCTCTGAGTAGAG
1 ATCTTGAAAAAGCTCCTCTAAGTAGAG
2964805 ATTCAATGAC
Statistics
Matches: 189, Mismatches: 29, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
47 4 0.02
48 76 0.40
49 109 0.58
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.32
Consensus pattern (49 bp):
ATCTTGAAAAAGCTCCTCTAAGTAGAGGCTCAACAACTTTAAAAATTTT
Found at i:2964703 original size:146 final size:146
Alignment explanation
Indices: 2964533--2964831 Score: 386
Period size: 146 Copynumber: 2.0 Consensus size: 146
2964523 CAAATTAAAA
* *
2964533 TCATCTTAGAAAAACTCCTCTAAGTAAAGACTTAACAACTTTAAAAATTTCATCTTG-AAAAGTT
1 TCATCTTAGAAAAACTCCTCTAAGTAAAGACTCAACAACTTT-AAAATTTCATCTTGAAAAAGCT
* * * *
2964597 TCTCTAAGTAGAGGCTCTACAACTTTAAAAATTTTATCTAGAAAAAGCTCCTCTAAGTAGAGGCT
65 ACTCTAAGTAGAGGCTCAACAACTTTAAAAATTTTATCTAGAAAAAACTCCTCTAAGTAGAGACT
*
2964662 CAATAACTTTAAAAATC
130 CAATAACTTCAAAAATC
* * * * * *
2964679 TCATCTT-GAAAAAACTCTTGTAAGTAGAGGCTCAATAACTTTAAAATTTTATCTTGAAAAAGCT
1 TCATCTTAG-AAAAACTCCTCTAAGTAAAGACTCAACAACTTTAAAATTTCATCTTGAAAAAGCT
* * * *
2964743 ACTCTAAGTAGAGGCTCAACTACTTTAAAAATTTTATCTTGAAAAAACTCCTCTGAGTAGAGATT
65 ACTCTAAGTAGAGGCTCAACAACTTTAAAAATTTTATCTAGAAAAAACTCCTCTAAGTAGAGACT
* * *
2964808 CAATGACTTCAAAATTT
130 CAATAACTTCAAAAATC
2964825 TCATCTT
1 TCATCTT
2964832 TTCTTGAAAT
Statistics
Matches: 131, Mismatches: 20, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
145 14 0.11
146 117 0.89
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (146 bp):
TCATCTTAGAAAAACTCCTCTAAGTAAAGACTCAACAACTTTAAAATTTCATCTTGAAAAAGCTA
CTCTAAGTAGAGGCTCAACAACTTTAAAAATTTTATCTAGAAAAAACTCCTCTAAGTAGAGACTC
AATAACTTCAAAAATC
Found at i:2964811 original size:97 final size:97
Alignment explanation
Indices: 2964535--2964831 Score: 357
Period size: 97 Copynumber: 3.1 Consensus size: 97
2964525 AATTAAAATC
* * * * ** *
2964535 ATCTTAGAAAAA-CTCCTCTAAGTAAAGACTTAACAACTTTAAAAATTTCATCTTG-AAAAGTTT
1 ATCTT-GAAAAAGCTCCTCTAAGTAGAGGCTCAACTACTTTAAAAATTTCATCTTGAAAAAACTC
* *
2964598 CTCTAAGTAGAGGCTCTACAACTTTAAAAATTTT
65 CTCTAAGTAGAGGCTCAATAACTTT-AAAATTTT
* *
2964632 ATCTAGAAAAAGCTCCTCTAAGTAGAGGCTCAA-TAACTTTAAAAATCTCATCTTGAAAAAACTC
1 ATCTTGAAAAAGCTCCTCTAAGTAGAGGCTCAACT-ACTTTAAAAATTTCATCTTGAAAAAACTC
* *
2964696 TTGTAAGTAGAGGCTCAATAACTTTAAAATTTT
65 CTCTAAGTAGAGGCTCAATAACTTTAAAATTTT
* *
2964729 ATCTTGAAAAAGCTACTCTAAGTAGAGGCTCAACTACTTTAAAAATTTTATCTTGAAAAAACTCC
1 ATCTTGAAAAAGCTCCTCTAAGTAGAGGCTCAACTACTTTAAAAATTTCATCTTGAAAAAACTCC
* ** * *
2964794 TCTGAGTAGAGATTCAATGACTTCAAAATTTT
66 TCTAAGTAGAGGCTCAATAACTTTAAAATTTT
2964826 CATCTT
1 -ATCTT
2964832 TTCTTGAAAT
Statistics
Matches: 171, Mismatches: 24, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
96 6 0.04
97 133 0.78
98 32 0.19
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (97 bp):
ATCTTGAAAAAGCTCCTCTAAGTAGAGGCTCAACTACTTTAAAAATTTCATCTTGAAAAAACTCC
TCTAAGTAGAGGCTCAATAACTTTAAAATTTT
Found at i:2975446 original size:161 final size:161
Alignment explanation
Indices: 2975145--2975503 Score: 404
Period size: 161 Copynumber: 2.2 Consensus size: 161
2975135 AAATGAATGA
* * * * * *
2975145 ACTTTTTGTGCCGTTAAAAGGTAAAAATGCAAATTAACAGTTATTGTTTTGTTTTAATAGTTTTG
1 ACTTTTTGTGCCGTTAAAAGGTAAAAATACAAATTAACAGTCATTATTCTATTTTAATAGTTTGG
* *
2975210 ATAGTTTTAATACATGATATTAAACTTATCCAAAGTATTGAACTTAGTTTCCACAGTTGATATAT
66 ATAGCTTCAATACATGATATTAAACTTATCCAAAGTATTGAACTTAGTTTCCACAGTTGATATAT
2975275 ATGAAAAAGTTATT-GTTTATGTCTATTCAGG
131 ATGAAAAAGTT-TTCGTTTATGTCTATTCAGG
* **
2975306 ACTTTTTGTGCCGTTAATAGGTAAAAATACAAAATT-ATTGTCATTATTCTATTTTAATAGTTTG
1 ACTTTTTGTGCCGTTAAAAGGTAAAAATAC-AAATTAACAGTCATTATTCTATTTTAATAGTTTG
* * * *
2975370 GATAGCTTCAATACATGATATTAAACTTGTCCAAA-TGATTGAACTTGGTTTCTACGGTTGATAT
65 GATAGCTTCAATACATGATATTAAACTTATCCAAAGT-ATTGAACTTAGTTTCCACAGTTGATAT
* * ** * **
2975434 GTGT-ATAAAAGTTTTCGTTTACCTTTATTTGGG
129 ATATGA-AAAAGTTTTCGTTTATGTCTATTCAGG
* * * *
2975467 ACTATTTT-TGCCTTTTAAAGGCAATAATACAAATTAA
1 ACT-TTTTGTGCCGTTAAAAGGTAAAAATACAAATTAA
2975504 ACTTTTGGAT
Statistics
Matches: 165, Mismatches: 27, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
160 9 0.05
161 147 0.89
162 9 0.05
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.42
Consensus pattern (161 bp):
ACTTTTTGTGCCGTTAAAAGGTAAAAATACAAATTAACAGTCATTATTCTATTTTAATAGTTTGG
ATAGCTTCAATACATGATATTAAACTTATCCAAAGTATTGAACTTAGTTTCCACAGTTGATATAT
ATGAAAAAGTTTTCGTTTATGTCTATTCAGG
Found at i:2977207 original size:19 final size:19
Alignment explanation
Indices: 2977180--2977228 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
2977170 CTAAGAATAT
2977180 TTAGCTTGGCCAAAAGAGA
1 TTAGCTTGGCCAAAAGAGA
* **
2977199 TTAGTTTGGTTAAAAGAGA
1 TTAGCTTGGCCAAAAGAGA
2977218 TTAGCTTGGCC
1 TTAGCTTGGCC
2977229 CAGTAAAATT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.31
Consensus pattern (19 bp):
TTAGCTTGGCCAAAAGAGA
Found at i:2979234 original size:3 final size:3
Alignment explanation
Indices: 2979226--2979283 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
2979216 TAAAACAAAT
2979226 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
2979274 ATA ATA ATA A
1 ATA ATA ATA A
2979284 ATAAACAAAT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:2979288 original size:4 final size:4
Alignment explanation
Indices: 2979279--2979318 Score: 53
Period size: 4 Copynumber: 10.0 Consensus size: 4
2979269 TAATAATAAT
* * *
2979279 AATA AATA AACA AATA AACA AATA AACA AATA AATA AATA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA
2979319 TAAAAAATAT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.75, C:0.07, G:0.00, T:0.17
Consensus pattern (4 bp):
AATA
Found at i:2979295 original size:8 final size:8
Alignment explanation
Indices: 2979282--2979318 Score: 65
Period size: 8 Copynumber: 4.6 Consensus size: 8
2979272 TAATAATAAT
2979282 AAATAAAC
1 AAATAAAC
2979290 AAATAAAC
1 AAATAAAC
2979298 AAATAAAC
1 AAATAAAC
*
2979306 AAATAAAT
1 AAATAAAC
2979314 AAATA
1 AAATA
2979319 TAAAAAATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (8 bp):
AAATAAAC
Found at i:2981739 original size:17 final size:18
Alignment explanation
Indices: 2981706--2981739 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
2981696 AATATCTAAA
2981706 AAATTTTCACCATAACAC
1 AAATTTTCACCATAACAC
*
2981724 AAATTTT-ACTATAACA
1 AAATTTTCACCATAACA
2981740 TTAATCTTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.47, C:0.21, G:0.00, T:0.32
Consensus pattern (18 bp):
AAATTTTCACCATAACAC
Found at i:2982552 original size:35 final size:35
Alignment explanation
Indices: 2982471--2982557 Score: 83
Period size: 35 Copynumber: 2.5 Consensus size: 35
2982461 TGATATTATT
* **
2982471 TTATTAAT-AAATAAATATTAATTTTTAAAATAAA
1 TTATTAATAAAATTAATATTAATTTAAAAAATAAA
* *
2982505 TTATATAA-AAAATTAATATTAA-TTAAAAAATTTAC
1 TTAT-TAATAAAATTAATATTAATTTAAAAAA-TAAA
2982540 TTATTAATAAAA-TAATAT
1 TTATTAATAAAATTAATAT
2982558 CATCTTATTT
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
34 19 0.43
35 25 0.57
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (35 bp):
TTATTAATAAAATTAATATTAATTTAAAAAATAAA
Found at i:2984819 original size:55 final size:54
Alignment explanation
Indices: 2984727--2984912 Score: 187
Period size: 55 Copynumber: 3.4 Consensus size: 54
2984717 GAACCTCCAA
* * *
2984727 AGAAACCAGAACCTAAGCCACCCAAGCGCACCTGTCTATGAACCTCCAAAGAAAG
1 AGAAACCAGAACCTAAACCACCTAAGC-CACCAGTCTATGAACCTCCAAAGAAAG
* * * *
2984782 AGAAGCCAGAGCCTAAACCACCTTAAGCCACCAGTCTATGAGCCTCCTAAG-AAG
1 AGAAACCAGAACCTAAACCACC-TAAGCCACCAGTCTATGAACCTCCAAAGAAAG
* * * **
2984836 AAGAAACCAGAACC-AAAGCCAGCTAAGCCCCCAGTTTATTCACCTCCAAAGAAAG
1 -AGAAACCAGAACCTAAA-CCACCTAAGCCACCAGTCTATGAACCTCCAAAGAAAG
* * *
2984891 AGAAGCCAGAACCCAAGCCACC
1 AGAAACCAGAACCTAAACCACC
2984913 AGTCTATGAA
Statistics
Matches: 107, Mismatches: 19, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
54 44 0.41
55 59 0.55
56 4 0.04
ACGTcount: A:0.39, C:0.33, G:0.17, T:0.11
Consensus pattern (54 bp):
AGAAACCAGAACCTAAACCACCTAAGCCACCAGTCTATGAACCTCCAAAGAAAG
Found at i:2984915 original size:45 final size:45
Alignment explanation
Indices: 2984860--2985426 Score: 178
Period size: 45 Copynumber: 11.6 Consensus size: 45
2984850 AAAGCCAGCT
* **
2984860 AAGCCCCCAGTTTATTCACCTCCAAAGAAAGAGAAGCCAGAACCC
1 AAGCCACCAGTTTATGAACCTCCAAAGAAAGAGAAGCCAGAACCC
* * * * *
2984905 AAGCCACCAGTCTATGAACCTCCGAAGAAGCCACCAGTCTATGAAACTA-AGCCAC
1 AAGCCACCAGTTTATGAACCTCC--A-AAG--A-AAG---A-GAAGCCAGAACC-C
* * *
2984960 TAAAGCCACCAGTTTATGCACCACCAAAGAAAAAGAAGCCAGAACCC
1 --AAGCCACCAGTTTATGAACCTCCAAAGAAAGAGAAGCCAGAACCC
* * * *** *
2985007 AAACCACCAGTGTATGAACCTCCAAAG-AAGCCTCCAG-TGTTTGAACCA
1 AAGCCACCAGTTTATGAACCTCCAAAGAAAG-----AGAAGCCAGAACCC
* *
2985055 AAGCCACCAGTTTATGCACCACCAAAGAAAGAGAAGCCAGAACCC
1 AAGCCACCAGTTTATGAACCTCCAAAGAAAGAGAAGCCAGAACCC
* * * * * *** *
2985100 AAACCGCCGGTGTATGAACCTCCAAAG-AAGCCTCCAG-TGTTTGAACCT
1 AAGCCACCAGTTTATGAACCTCCAAAGAAAG-----AGAAGCCAGAACCC
* *
2985148 AAGCCACCAGTTTATGCACCACCAAAGAAAGAGAAGCCAGAACCC
1 AAGCCACCAGTTTATGAACCTCCAAAGAAAGAGAAGCCAGAACCC
* * * * * * *
2985193 AAACCGCCGGTGTATGAACCTCCAAAGAAGCCTCCAGTGTTTGAA-CCTAAGCCACCA
1 AAGCCACCAGTTTATGAACCTCCAAAGAA------A--G--AGAAGCC--AG-AACCC
* *
2985250 AAGCCACCAGTTTATGCACCTCCAAAGAAAGAGAAGCCAGAACAC
1 AAGCCACCAGTTTATGAACCTCCAAAGAAAGAGAAGCCAGAACCC
* * * *
2985295 AAACCACCGGTGTATGAACCTCCAAAGAAGCCTCCAGTGTTTGAA-CCTA-AACCACC
1 AAGCCACCAGTTTATGAACCTCCAAAGAA------A--G--AGAAGCC-AGAA-C-CC
* * *
2985351 AAAGCCACCAGTTTATGCACCACCAAAGAAAGGAGAAACCAGAACCC
1 -AAGCCACCAGTTTATGAACCTCCAAAGAAA-GAGAAGCCAGAACCC
* *
2985398 AAACCACCAGTATATGAACCTCCAAAGAA
1 AAGCCACCAGTTTATGAACCTCCAAAGAA
2985427 GCCACCAGTA
Statistics
Matches: 372, Mismatches: 92, Indels: 115
0.64 0.16 0.20
Matches are distributed among these distances:
44 9 0.02
45 125 0.34
46 27 0.07
47 12 0.03
48 70 0.19
49 15 0.04
50 2 0.01
51 7 0.02
52 1 0.00
53 2 0.01
54 13 0.03
55 15 0.04
56 3 0.01
57 71 0.19
ACGTcount: A:0.38, C:0.31, G:0.17, T:0.14
Consensus pattern (45 bp):
AAGCCACCAGTTTATGAACCTCCAAAGAAAGAGAAGCCAGAACCC
Found at i:2984997 original size:102 final size:102
Alignment explanation
Indices: 2984845--2985523 Score: 873
Period size: 102 Copynumber: 6.9 Consensus size: 102
2984835 GAAGAAACCA
* * * * * * *
2984845 GAACCAAAGCCAGCTAAGCCCCCAGTTTATTCACCTCCAAAGAAAGAGAAGCCAGAACCCAAGCC
1 GAACCTAAGCCACCAAAGCCACCAGTTTATGCACCACCAAAGAAAGAGAAGCCAGAACCCAAACC
* * * * *
2984910 ACCAGTCTATGAACCTCCGAAGAAGCCACCAGTCTAT
66 ACCAGTGTATGAACCTCCAAAGAAGCCTCCAGTGTTT
* * *
2984947 GAAACTAAGCCACTAAAGCCACCAGTTTATGCACCACCAAAGAAAAAGAAGCCAGAACCCAAACC
1 GAACCTAAGCCACCAAAGCCACCAGTTTATGCACCACCAAAGAAAGAGAAGCCAGAACCCAAACC
2985012 ACCAGTGTATGAACCTCCAAAGAAGCCTCCAGTGTTT
66 ACCAGTGTATGAACCTCCAAAGAAGCCTCCAGTGTTT
2985049 G------A---ACCAAAGCCACCAGTTTATGCACCACCAAAGAAAGAGAAGCCAGAACCCAAACC
1 GAACCTAAGCCACCAAAGCCACCAGTTTATGCACCACCAAAGAAAGAGAAGCCAGAACCCAAACC
* *
2985105 GCCGGTGTATGAACCTCCAAAGAAGCCTCCAGTGTTT
66 ACCAGTGTATGAACCTCCAAAGAAGCCTCCAGTGTTT
2985142 GAACCT---------AAGCCACCAGTTTATGCACCACCAAAGAAAGAGAAGCCAGAACCCAAACC
1 GAACCTAAGCCACCAAAGCCACCAGTTTATGCACCACCAAAGAAAGAGAAGCCAGAACCCAAACC
* *
2985198 GCCGGTGTATGAACCTCCAAAGAAGCCTCCAGTGTTT
66 ACCAGTGTATGAACCTCCAAAGAAGCCTCCAGTGTTT
* *
2985235 GAACCTAAGCCACCAAAGCCACCAGTTTATGCACCTCCAAAGAAAGAGAAGCCAGAACACAAACC
1 GAACCTAAGCCACCAAAGCCACCAGTTTATGCACCACCAAAGAAAGAGAAGCCAGAACCCAAACC
*
2985300 ACCGGTGTATGAACCTCCAAAGAAGCCTCCAGTGTTT
66 ACCAGTGTATGAACCTCCAAAGAAGCCTCCAGTGTTT
* *
2985337 GAACCTAAACCACCAAAGCCACCAGTTTATGCACCACCAAAGAAAGGAGAAACCAGAACCCAAAC
1 GAACCTAAGCCACCAAAGCCACCAGTTTATGCACCACCAAAGAAA-GAGAAGCCAGAACCCAAAC
* * * *
2985402 CACCAGTATATGAACCTCCAAAGAAGCCACCAGTATCT
65 CACCAGTGTATGAACCTCCAAAGAAGCCTCCAGTGTTT
* * * * *
2985440 GAACCT-AGCCACCAAAGCCGCCGGTTTATGTACCTCCAAAGAAA-A-AATGCCAGAA-CCAAGC
1 GAACCTAAGCCACCAAAGCCACCAGTTTATGCACCACCAAAGAAAGAGAA-GCCAGAACCCAAAC
*
2985501 C-CCAGTCTATGAACCTCCAAAGA
65 CACCAGTGTATGAACCTCCAAAGA
2985524 GACGCCGGTG
Statistics
Matches: 522, Mismatches: 39, Indels: 36
0.87 0.07 0.06
Matches are distributed among these distances:
93 181 0.35
96 1 0.00
98 21 0.04
99 8 0.02
100 7 0.01
102 248 0.48
103 56 0.11
ACGTcount: A:0.38, C:0.31, G:0.17, T:0.14
Consensus pattern (102 bp):
GAACCTAAGCCACCAAAGCCACCAGTTTATGCACCACCAAAGAAAGAGAAGCCAGAACCCAAACC
ACCAGTGTATGAACCTCCAAAGAAGCCTCCAGTGTTT
Found at i:2985077 original size:93 final size:94
Alignment explanation
Indices: 2984961--2985523 Score: 679
Period size: 93 Copynumber: 5.8 Consensus size: 94
2984951 CTAAGCCACT
*
2984961 AAAGCCACCAGTTTATGCACCACCAAAGAAAAAGAAGCCAGAACCCAAACCACCAGTGTATGAAC
1 AAAGCCACCAGTTTATGCACCACCAAAGAAAGAGAAGCCAGAACCCAAACCACCAGTGTATGAAC
2985026 CTCCAAAGAAGCCTCCAGTGTTTG-AACC
66 CTCCAAAGAAGCCTCCAGTGTTTGAAACC
* *
2985054 AAAGCCACCAGTTTATGCACCACCAAAGAAAGAGAAGCCAGAACCCAAACCGCCGGTGTATGAAC
1 AAAGCCACCAGTTTATGCACCACCAAAGAAAGAGAAGCCAGAACCCAAACCACCAGTGTATGAAC
2985119 CTCCAAAGAAGCCTCCAGTGTTTG-AACC
66 CTCCAAAGAAGCCTCCAGTGTTTGAAACC
* * *
2985147 TAAGCCACCAGTTTATGCACCACCAAAGAAAGAGAAGCCAGAACCCAAACCGCCGGTGTATGAAC
1 AAAGCCACCAGTTTATGCACCACCAAAGAAAGAGAAGCCAGAACCCAAACCACCAGTGTATGAAC
2985212 CTCCAAAGAAGCCTCCAGTGTTTGAACCTAAGCCACC
66 CTCCAAAGAAGCCTCCAGTGTTTG-----AA---ACC
* * *
2985249 AAAGCCACCAGTTTATGCACCTCCAAAGAAAGAGAAGCCAGAACACAAACCACCGGTGTATGAAC
1 AAAGCCACCAGTTTATGCACCACCAAAGAAAGAGAAGCCAGAACCCAAACCACCAGTGTATGAAC
2985314 CTCCAAAGAAGCCTCCAGTGTTTGAACCTAAACCACC
66 CTCCAAAGAAGCCTCCAGTGTTTG------AA--ACC
* *
2985351 AAAGCCACCAGTTTATGCACCACCAAAGAAAGGAGAAACCAGAACCCAAACCACCAGTATATGAA
1 AAAGCCACCAGTTTATGCACCACCAAAGAAA-GAGAAGCCAGAACCCAAACCACCAGTGTATGAA
* * *
2985416 CCTCCAAAGAAGCCACCAGTATCTGAACCTAGCCACC
65 CCTCCAAAGAAGCCTCCAGTGTTTG-A---A---ACC
* * * * * *
2985453 AAAGCCGCCGGTTTATGTACCTCCAAAGAAA-A-AATGCCAGAA-CCAAGCC-CCAGTCTATGAA
1 AAAGCCACCAGTTTATGCACCACCAAAGAAAGAGAA-GCCAGAACCCAAACCACCAGTGTATGAA
2985514 CCTCCAAAGA
65 CCTCCAAAGA
2985524 GACGCCGGTG
Statistics
Matches: 428, Mismatches: 26, Indels: 27
0.89 0.05 0.06
Matches are distributed among these distances:
93 178 0.42
98 23 0.05
99 9 0.02
100 7 0.02
101 1 0.00
102 155 0.36
103 55 0.13
ACGTcount: A:0.38, C:0.31, G:0.17, T:0.14
Consensus pattern (94 bp):
AAAGCCACCAGTTTATGCACCACCAAAGAAAGAGAAGCCAGAACCCAAACCACCAGTGTATGAAC
CTCCAAAGAAGCCTCCAGTGTTTGAAACC
Found at i:2985080 original size:48 final size:47
Alignment explanation
Indices: 2985005--2985249 Score: 150
Period size: 48 Copynumber: 5.2 Consensus size: 47
2984995 AAGCCAGAAC
*
2985005 CCAAACCACCAGTGTATGAACCTCCAAAGAAGCCTCCAGTGTTTGAA
1 CCAAACCACCAGTGTATGAACCACCAAAGAAGCCTCCAGTGTTTGAA
* * * ***
2985052 CCAAAGCCACCAGTTTATGCACCACCAAAGAAAG-----AGAAGCCAGAA
1 CCAAA-CCACCAGTGTATGAACCACCAAAG-AAGCCTCCAG-TGTTTGAA
* * *
2985097 CCCAAACCGCCGGTGTATGAACCTCCAAAGAAGCCTCCAGTGTTTGAA
1 -CCAAACCACCAGTGTATGAACCACCAAAGAAGCCTCCAGTGTTTGAA
* * * * ***
2985145 CCTAAGCCACCAGTTTATGCACCACCAAAGAAAG-----AGAAGCCAGAA
1 CC-AAACCACCAGTGTATGAACCACCAAAG-AAGCCTCCAG-TGTTTGAA
* * *
2985190 CCCAAACCGCCGGTGTATGAACCTCCAAAGAAGCCTCCAGTGTTTGAA
1 -CCAAACCACCAGTGTATGAACCACCAAAGAAGCCTCCAGTGTTTGAA
*
2985238 CCTAAGCCACCA
1 CC-AAACCACCA
2985250 AAGCCACCAG
Statistics
Matches: 140, Mismatches: 39, Indels: 37
0.65 0.18 0.17
Matches are distributed among these distances:
44 10 0.07
45 48 0.34
46 7 0.05
47 9 0.06
48 56 0.40
49 10 0.07
ACGTcount: A:0.36, C:0.31, G:0.18, T:0.15
Consensus pattern (47 bp):
CCAAACCACCAGTGTATGAACCACCAAAGAAGCCTCCAGTGTTTGAA
Done.