Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold446
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: 3567220
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 15 of 22
Found at i:2394888 original size:21 final size:20
Alignment explanation
Indices: 2394843--2394890 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
2394833 TTTTGTGAAG
2394843 ATTTTGATGAAAAATAGATA
1 ATTTTGATGAAAAATAGATA
* *
2394863 GTTTTGATGTGAAAAT-GATGA
1 ATTTTGATG-AAAAATAGAT-A
2394884 ATTTTGA
1 ATTTTGA
2394891 AAAAGGATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 11 0.48
21 12 0.52
ACGTcount: A:0.40, C:0.00, G:0.21, T:0.40
Consensus pattern (20 bp):
ATTTTGATGAAAAATAGATA
Found at i:2395086 original size:20 final size:21
Alignment explanation
Indices: 2395056--2395094 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
2395046 ATATGGGTTT
2395056 TTCAGATGTATCGATACATCG
1 TTCAGATGTATCGATACATCG
*
2395077 TTCA-ATGTATTGATACAT
1 TTCAGATGTATCGATACAT
2395095 TCTGGAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (21 bp):
TTCAGATGTATCGATACATCG
Found at i:2396446 original size:16 final size:16
Alignment explanation
Indices: 2396425--2396455 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2396415 CAATATTTCC
*
2396425 TCTATTAAAACTTTTT
1 TCTATTAAAAATTTTT
2396441 TCTATTAAAAATTTT
1 TCTATTAAAAATTTT
2396456 GAAAGTCTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.10, G:0.00, T:0.55
Consensus pattern (16 bp):
TCTATTAAAAATTTTT
Found at i:2400146 original size:23 final size:23
Alignment explanation
Indices: 2400116--2400160 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
2400106 TTCGAGTCTA
2400116 ATGGCATTTAAATTATTCTCCAT
1 ATGGCATTTAAATTATTCTCCAT
2400139 ATGGCATTTAAATTATTCTCCA
1 ATGGCATTTAAATTATTCTCCA
2400161 ATGCCATAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.31, C:0.18, G:0.09, T:0.42
Consensus pattern (23 bp):
ATGGCATTTAAATTATTCTCCAT
Found at i:2403412 original size:21 final size:20
Alignment explanation
Indices: 2403388--2403426 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
2403378 ATTGGGACCT
2403388 TGTATCGATACATTCTAGAAA
1 TGTATCGATACATT-TAGAAA
2403409 TGTATCGATACATTTAGA
1 TGTATCGATACATTTAGA
2403427 TAAAATTGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (20 bp):
TGTATCGATACATTTAGAAA
Found at i:2404523 original size:13 final size:13
Alignment explanation
Indices: 2404505--2404529 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2404495 ACAATGAGCA
2404505 TGTATCGATACAT
1 TGTATCGATACAT
2404518 TGTATCGATACA
1 TGTATCGATACA
2404530 AAGCATAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2404548 original size:33 final size:32
Alignment explanation
Indices: 2404486--2404550 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
2404476 CAATTAAGTG
* *
2404486 TGTATCGATACAATGAGCATGTATCGATACAT
1 TGTATCGATACAAAGAGAATGTATCGATACAT
* *
2404518 TGTATCGATACAAAGCATAATGTATTGATACAT
1 TGTATCGATACAAAG-AGAATGTATCGATACAT
2404551 CTAGATATGC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 14 0.50
33 14 0.50
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (32 bp):
TGTATCGATACAAAGAGAATGTATCGATACAT
Found at i:2405367 original size:3 final size:3
Alignment explanation
Indices: 2405348--2405390 Score: 50
Period size: 3 Copynumber: 14.3 Consensus size: 3
2405338 CGAGTCAACT
* * * *
2405348 TCA TCA GCA TTA TCA TCA TCA TCA TCA TCA TCT TCC TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
2405391 TGATGGTTGA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.28, C:0.33, G:0.02, T:0.37
Consensus pattern (3 bp):
TCA
Found at i:2407096 original size:13 final size:13
Alignment explanation
Indices: 2407078--2407102 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2407068 TACTATGAAC
2407078 ATGTATCGATACA
1 ATGTATCGATACA
2407091 ATGTATCGATAC
1 ATGTATCGATAC
2407103 TAAGCAATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2407800 original size:61 final size:61
Alignment explanation
Indices: 2407688--2407805 Score: 211
Period size: 61 Copynumber: 1.9 Consensus size: 61
2407678 AAAAATATAA
2407688 TTATATAACTTAAAGAAATATTACAGTAGAGTTTGTTAATGAATGTTCATTTCAAATGATTC
1 TTATATAACTTAAAGAAATATTACAGTA-AGTTTGTTAATGAATGTTCATTTCAAATGATTC
2407750 TTATATAAACTTAAAGAAATATTACAGT-AGTTTGTTAATGAATGTTCATTTCAAAT
1 TTATAT-AACTTAAAGAAATATTACAGTAAGTTTGTTAATGAATGTTCATTTCAAAT
2407806 TTCTTACTTT
Statistics
Matches: 55, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
61 28 0.51
62 6 0.11
63 21 0.38
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.41
Consensus pattern (61 bp):
TTATATAACTTAAAGAAATATTACAGTAAGTTTGTTAATGAATGTTCATTTCAAATGATTC
Found at i:2407857 original size:2 final size:2
Alignment explanation
Indices: 2407850--2407885 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
2407840 GAAAAGAAAA
2407850 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2407886 TACTTTAGCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2412326 original size:52 final size:52
Alignment explanation
Indices: 2412248--2412376 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
2412238 CGAAATATGA
* *
2412248 AAATTTACCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
*
2412300 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
2412352 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
2412377 AAGATCAGTG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
Found at i:2412389 original size:52 final size:51
Alignment explanation
Indices: 2412248--2412396 Score: 219
Period size: 52 Copynumber: 2.9 Consensus size: 51
2412238 CGAAATATGA
*
2412248 AAATTTACCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
* *
2412300 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
*
2412352 AAATTTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
2412397 ATGTATCGAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
51 2 0.02
52 87 0.98
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGC
Found at i:2412403 original size:13 final size:13
Alignment explanation
Indices: 2412385--2412409 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2412375 CAAAGATCAG
2412385 TGTATCGATACAA
1 TGTATCGATACAA
2412398 TGTATCGATACA
1 TGTATCGATACA
2412410 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2412487 original size:33 final size:33
Alignment explanation
Indices: 2412450--2412516 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2412440 AGTAGCTTAA
2412450 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
2412483 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
2412516 A
1 A
2412517 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:2412490 original size:13 final size:13
Alignment explanation
Indices: 2412472--2412496 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2412462 CAAAAAAATA
2412472 TGTATCGATACAT
1 TGTATCGATACAT
2412485 TGTATCGATACA
1 TGTATCGATACA
2412497 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2414775 original size:13 final size:13
Alignment explanation
Indices: 2414757--2414781 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2414747 ACATTTGGTC
2414757 ATGTATCGATACA
1 ATGTATCGATACA
2414770 ATGTATCGATAC
1 ATGTATCGATAC
2414782 TGTGCAATCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2415594 original size:20 final size:20
Alignment explanation
Indices: 2415566--2415606 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
2415556 TACATACTGC
* *
2415566 TAAGGAAATGTTTCGATACA
1 TAAGGAAATGTATCAATACA
*
2415586 TAAGTAAATGTATCAATACA
1 TAAGGAAATGTATCAATACA
2415606 T
1 T
2415607 GCTTACAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.44, C:0.10, G:0.15, T:0.32
Consensus pattern (20 bp):
TAAGGAAATGTATCAATACA
Found at i:2418226 original size:129 final size:129
Alignment explanation
Indices: 2418044--2418298 Score: 297
Period size: 129 Copynumber: 2.0 Consensus size: 129
2418034 TCATTGATGT
* * * ***
2418044 TTTTATTTCCAAAATACGATTTTCCACCATCGGAGATACTCCAATCCCGTTATTTT-TGAGGGGA
1 TTTTATTTCCAAAATACAATTTTCCACCATCGGAGATACTCCAACCCCATTATTTTCT-AAAAGA
*
2418108 TACTCTAAACC-CAATTTTATTTCTAAAACA-TCAATTTTCTACCATC-AGAGATACTCCAACCT
65 CACT-TAAACCTCAATTTTATTTCTAAAACACT-AATTTTCTACCATCAAG-GATACTCCAACCT
2418170 CAG
127 CAG
* * *
2418173 TTTTATTT-CTAAATACCAATTTTTCACCATCGG-GAATACTCTAACCCCATTATTTTCTAAAAG
1 TTTTATTTCCAAAATA-CAATTTTCCACCATCGGAG-ATACTCCAACCCCATTATTTTCTAAAAG
* * *
2418236 ACACTTTAACCTCGATTTTATTTCTAAAACACTAATTTTCTACCATCAAGGATGCTCCAACCT
64 ACACTTAAACCTCAATTTTATTTCTAAAACACTAATTTTCTACCATCAAGGATACTCCAACCT
2418299 TGTTCTTTTC
Statistics
Matches: 107, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
128 12 0.11
129 91 0.85
130 4 0.04
ACGTcount: A:0.31, C:0.25, G:0.08, T:0.36
Consensus pattern (129 bp):
TTTTATTTCCAAAATACAATTTTCCACCATCGGAGATACTCCAACCCCATTATTTTCTAAAAGAC
ACTTAAACCTCAATTTTATTTCTAAAACACTAATTTTCTACCATCAAGGATACTCCAACCTCAG
Found at i:2418333 original size:78 final size:79
Alignment explanation
Indices: 2418250--2418453 Score: 222
Period size: 77 Copynumber: 2.6 Consensus size: 79
2418240 TTTAACCTCG
* *
2418250 ATTTTATTTCTAAAACACTAATTTTCTACCATCAAGGATGCTCCAACCTTGTTCTTT-TCGAAAG
1 ATTTTATTTCTAAAACACTAATTTTCTACCATCAAGGATACTCCAACCTTGTTATTTCT-GAAAG
*
2418314 GATACTCC-TACCCA
65 GATACTCCAAACCCA
* * * * **
2418328 GTTTTATTTCT-AAATA-TCAATTTT-TCACCATCAGGGATACTCCAACCTTGTTATTTCTTAGG
1 ATTTTATTTCTAAAACACT-AATTTTCT-ACCATCAAGGATACTCCAACCTTGTTATTTCTGAAA
2418390 GGATACTCCAAACCCA
64 GGATACTCCAAACCCA
* * *
2418406 ATTTTATTTCTAAAACACTGATTTTCCACCATCGAA-GATACCCCAACC
1 ATTTTATTTCTAAAACACTAATTTTCTACCATC-AAGGATACTCCAACC
2418454 CCATTATTTT
Statistics
Matches: 103, Mismatches: 15, Indels: 15
0.77 0.11 0.11
Matches are distributed among these distances:
76 2 0.02
77 47 0.46
78 26 0.25
79 26 0.25
80 2 0.02
ACGTcount: A:0.30, C:0.25, G:0.09, T:0.35
Consensus pattern (79 bp):
ATTTTATTTCTAAAACACTAATTTTCTACCATCAAGGATACTCCAACCTTGTTATTTCTGAAAGG
ATACTCCAAACCCA
Found at i:2418379 original size:77 final size:76
Alignment explanation
Indices: 2418157--2418419 Score: 239
Period size: 78 Copynumber: 3.4 Consensus size: 76
2418147 TACCATCAGA
* **
2418157 GATACTCCAACCTCAGTTTTATTTCTAAATACCAATTTTTCACCATC-GGGAATACTCTAACCCC
1 GATACTCCAACCTCAGTTTTATTTCTAAATA-CAATTTTTCACCATCAGGG-ATACTCCAACCTT
* *
2418221 ATTATTTTCTAAAA
64 GTT-TTTTCTAAAG
* ** * * *
2418235 GACACTTTAACCTC-GATTTTATTTCTAAA-ACACTAATTTTCTACCATCAAGGATGCTCCAACC
1 GATACTCCAACCTCAG-TTTTATTTCTAAATACA--ATTTTTC-ACCATCAGGGATACTCCAACC
*
2418298 TTGTTCTTTTCGAAAG
62 TTGTT-TTTTCTAAAG
*
2418314 GATACTCCTACC-CAGTTTTATTTCTAAATATCAATTTTTCACCATCAGGGATACTCCAACCTTG
1 GATACTCCAACCTCAGTTTTATTTCTAAATA-CAATTTTTCACCATCAGGGATACTCCAACCTTG
* **
2418378 TTATTTCTTAGGG
65 TTTTTTC-TAAAG
*
2418391 GATACTCCAAACC-CAATTTTATTTCTAAA
1 GATACTCC-AACCTCAGTTTTATTTCTAAA
2418420 ACACTGATTT
Statistics
Matches: 149, Mismatches: 26, Indels: 20
0.76 0.13 0.10
Matches are distributed among these distances:
76 6 0.04
77 36 0.24
78 68 0.46
79 35 0.23
80 4 0.03
ACGTcount: A:0.30, C:0.24, G:0.09, T:0.37
Consensus pattern (76 bp):
GATACTCCAACCTCAGTTTTATTTCTAAATACAATTTTTCACCATCAGGGATACTCCAACCTTGT
TTTTTCTAAAG
Found at i:2418464 original size:156 final size:157
Alignment explanation
Indices: 2418157--2418512 Score: 359
Period size: 156 Copynumber: 2.3 Consensus size: 157
2418147 TACCATCAGA
*
2418157 GATACTCCAACCTCAGTTTTATTTCTAAATACCAATTTTTCACCATCGGGAATACTCTAACCCCA
1 GATACTCCAACCTCAGTTTTATTTCTAAATACCAATTTTTCACCATCGGGAATACTCCAACCCCA
** * *
2418222 TTATTTTCTAAAAGACACTTTAACCTCGATTTTATTTCTAAAACACTAATTTTCTACCATCAAGG
66 TTATTTTCTAAAAGACACTCAAACCTCAATTTTATTTCTAAAACACTAATTTTCCACCATCAAGG
* * *** *
2418287 ATGCTCCAACCTTGTTCTTTTCGAAAG
131 ATACCCCAACCCCATTATTTTCGAAAG
* * **
2418314 GATACTCCTACC-CAGTTTTATTTCTAAATATCAATTTTTCACCATCAGGG-ATACTCCAACCTT
1 GATACTCCAACCTCAGTTTTATTTCTAAATACCAATTTTTCACCATC-GGGAATACTCCAACCCC
* *** * *
2418377 GTTA-TTTCTTAGGGGATACTCCAAACC-CAATTTTATTTCTAAAACACTGATTTTCCACCATCG
65 ATTATTTTC-TAAAAGACACT-CAAACCTCAATTTTATTTCTAAAACACTAATTTTCCACCATC-
*
2418440 AA-GATACCCCAACCCCATTATTTTC--CAG
127 AAGGATACCCCAACCCCATTATTTTCGAAAG
* * *
2418468 GAAATACTCCAACCTC-GATTTTATTTCCAATATATCAACTTTTCA
1 G--ATACTCCAACCTCAG-TTTTATTTCTAA-ATACCAATTTTTCA
2418513 TAATTAGGGA
Statistics
Matches: 165, Mismatches: 25, Indels: 17
0.80 0.12 0.08
Matches are distributed among these distances:
154 3 0.02
155 4 0.02
156 113 0.68
157 32 0.19
158 13 0.08
ACGTcount: A:0.30, C:0.26, G:0.08, T:0.36
Consensus pattern (157 bp):
GATACTCCAACCTCAGTTTTATTTCTAAATACCAATTTTTCACCATCGGGAATACTCCAACCCCA
TTATTTTCTAAAAGACACTCAAACCTCAATTTTATTTCTAAAACACTAATTTTCCACCATCAAGG
ATACCCCAACCCCATTATTTTCGAAAG
Found at i:2418627 original size:130 final size:130
Alignment explanation
Indices: 2418389--2418632 Score: 296
Period size: 130 Copynumber: 1.9 Consensus size: 130
2418379 TATTTCTTAG
*
2418389 GGGATACTCCAAACCCAATTTTATTTCTAAAACACTGATTTTCCACCATCGAAGATACCCCAACC
1 GGGATACTCCAAACCCAATTTTATTTCTAAAACACTAATTTTCCACCATCGAAGATACCCCAACC
* *
2418454 CCATTATTTTCCAGGAAATACTCCAACCTCGATTTTATTTCCAATATATCAACTTTTCATAATTA
66 CCATTATTTTCCAGGAAATACTCCAACCTCGATTTTATCTCCAAAATATCAACTTTTCATAATTA
* * * * * * *
2418519 GGGATACTTC-AACCCTAATTTTATTT-TCAAAATATTAATTTTTCACCATCGAGGATACTCTAA
1 GGGATACTCCAAACCC-AATTTTATTTCT-AAAACACTAATTTTCCACCATCGAAGATACCCCAA
** ** * *
2418582 CCCTGTTATTTTTTAGGAGATACTCCAACC-CTATTTTTATCTCCAAAATAT
64 CCCCATTATTTTCCAGGAAATACTCCAACCTCGA-TTTTATCTCCAAAATAT
2418633 TAAATTTTTC
Statistics
Matches: 95, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
129 8 0.08
130 87 0.92
ACGTcount: A:0.32, C:0.24, G:0.08, T:0.36
Consensus pattern (130 bp):
GGGATACTCCAAACCCAATTTTATTTCTAAAACACTAATTTTCCACCATCGAAGATACCCCAACC
CCATTATTTTCCAGGAAATACTCCAACCTCGATTTTATCTCCAAAATATCAACTTTTCATAATTA
Found at i:2421834 original size:12 final size:12
Alignment explanation
Indices: 2421797--2421835 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
2421787 CAACCATCAA
*
2421797 TGATGATGAAGA
1 TGATGATGAAGT
* *
2421809 TGATGATTATGT
1 TGATGATGAAGT
2421821 TGATGATGAAGT
1 TGATGATGAAGT
2421833 TGA
1 TGA
2421836 CTAGGATAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.33, C:0.00, G:0.31, T:0.36
Consensus pattern (12 bp):
TGATGATGAAGT
Found at i:2429125 original size:19 final size:18
Alignment explanation
Indices: 2429099--2429167 Score: 76
Period size: 19 Copynumber: 4.0 Consensus size: 18
2429089 AATTTTAGCG
2429099 ATTTGTATCGATACATAA
1 ATTTGTATCGATACATAA
2429117 ATGTTGTATCGATAC---A
1 AT-TTGTATCGATACATAA
2429133 A--TGTATCGATACATAA
1 ATTTGTATCGATACATAA
*
2429149 GTATTGTATCGATACATAA
1 AT-TTGTATCGATACATAA
2429168 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 1, Indels: 13
0.75 0.02 0.23
Matches are distributed among these distances:
13 11 0.26
16 3 0.07
18 2 0.05
19 27 0.63
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (18 bp):
ATTTGTATCGATACATAA
Found at i:2429138 original size:32 final size:32
Alignment explanation
Indices: 2429102--2429164 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
2429092 TTTAGCGATT
*
2429102 TGTATCGATACATAAATGTTGTATCGATACAA
1 TGTATCGATACATAAATATTGTATCGATACAA
*
2429134 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAATATTGTATCGATACA
2429165 TAATTAGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAATATTGTATCGATACAA
Found at i:2429139 original size:13 final size:13
Alignment explanation
Indices: 2429121--2429145 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2429111 ACATAAATGT
2429121 TGTATCGATACAA
1 TGTATCGATACAA
2429134 TGTATCGATACA
1 TGTATCGATACA
2429146 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2429231 original size:21 final size:21
Alignment explanation
Indices: 2429187--2429243 Score: 89
Period size: 21 Copynumber: 2.8 Consensus size: 21
2429177 GCCAAGGGAA
*
2429187 TGTATCGATACAT-TTTTCTG
1 TGTATCGATACATCTATTCTG
*
2429207 TGTATCGATACATCTATTCTT
1 TGTATCGATACATCTATTCTG
2429228 TGTATCGATACATCTA
1 TGTATCGATACATCTA
2429244 GGAAGTTTAC
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
20 13 0.38
21 21 0.62
ACGTcount: A:0.25, C:0.18, G:0.12, T:0.46
Consensus pattern (21 bp):
TGTATCGATACATCTATTCTG
Found at i:2431702 original size:53 final size:51
Alignment explanation
Indices: 2431578--2431974 Score: 218
Period size: 53 Copynumber: 7.6 Consensus size: 51
2431568 TTGAGTTTCT
* * *
2431578 CAATTTTCCACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACAC
1 CAATTTTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACAC
* * *
2431629 TAA-TTTTCTATAATCGGGGATACCCCAACTCCGATTTTATTTCCAAAAAACAC
1 CAATTTTTC-ACAATCGGGGATACTCCAACTCCGATTTTATTTCC--AAAACAC
* * * **
2431682 CAATTTTTCACAATCGGGGATACTCCAA-TCCCG--TTAATCATCGGGGATACTCCCACC
1 CAATTTTTCACAATCGGGGATACTCCAACT-CCGATTTTAT-TTC---CA-A--AACA-C
* * * * * * *
2431739 CCATTATTTC-CGA--GGGGATACTCCAACCCCTG-CTTTA-TTCTTAAAATAT
1 CAATT-TTTCACAATCGGGGATACTCCAACTCC-GATTTTATTTC-CAAAACAC
** * * * * * *
2431788 TGATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACAC
1 CAATTTTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACAC
* * * *
2431839 TAATTTTTCCACAATCGGGGATACTCCAACCCCGGTTTTACTTTTCAAAACAC
1 CAATTTTT-CACAATCGGGGATACTCCAACTCCGATTTTA-TTTCCAAAACAC
* ** * * *
2431892 CAATTTTCCTTTAATCAGGGATACTCCAGCCCCGATTTTATTTCCAAAAACAC
1 CAATTTTTC-ACAATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAACAC
*
2431945 CAATTTTTTCACAATCGAGGATACTCCAAC
1 CAA-TTTTTCACAATCGGGGATACTCCAAC
2431975 CTCGTTATTT
Statistics
Matches: 265, Mismatches: 54, Indels: 52
0.71 0.15 0.14
Matches are distributed among these distances:
48 3 0.01
49 4 0.02
50 6 0.02
51 70 0.26
52 41 0.15
53 96 0.36
54 11 0.04
55 17 0.06
56 3 0.01
57 10 0.04
58 4 0.02
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.31
Consensus pattern (51 bp):
CAATTTTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACAC
Found at i:2432060 original size:265 final size:262
Alignment explanation
Indices: 2431581--2432085 Score: 737
Period size: 265 Copynumber: 1.9 Consensus size: 262
2431571 AGTTTCTCAA
* * * *
2431581 TTTTCCACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGG
1 TTTTCCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCAG
* *
2431646 GGATACCCCAACTCCGATTTTATTTCCAAAAAACACCAATTTTTCACAATCGGGGATACTCCAAT
66 GGATACCCCAACCCCGATTTTATTTCCAAAAAACACCAATTTTTCACAATCGAGGATACTCCAAT
* * **
2431711 CCCGTTAATCATCGGGGATACTCCCACCCCATTATTTCCGAGGGGATACTCCAACCCCTGCTTTA
131 CCCGTTAATCATCGAGGATACTCCAACCCCATTACCTCCGAGGGGATACTCCAACCCCTGCTTTA
** *
2431776 TTCTTAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTA
196 TTCCCAAAATATCGATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTA
2431841 AT
261 AT
* *
2431843 TTTTCCACAATCGGGGATACTCCAACCCCGGTTTTACTTTTCAAAACACCAATTTTCCTTTAATC
1 TTTTCCACAATCGGGGATACTCCAACCCCGATTTTA-TTTTCAAAACACCAATTTT-CTATAATC
* *
2431908 AGGGATACTCCAGCCCCGATTTTATTTCC-AAAAACACCAATTTTTTCACAATCGAGGATACTCC
64 AGGGATACCCCAACCCCGATTTTATTTCCAAAAAACACCAA-TTTTTCACAATCGAGGATACTCC
* * *
2431972 AA-CCTCGTTATTTCATCGAGGATACTCCAACCCCGTTACCTCCGAGGGGATATTCCAACCCC-G
128 AATCC-CGTTA-ATCATCGAGGATACTCCAACCCCATTACCTCCGAGGGGATACTCCAACCCCTG
* *
2432035 ACTTTATTCCCAAAATATCGATTTCTCATAATTGGGGATACTCTAACCCCG
191 -CTTTATTCCCAAAATATCGATTTCTCATAATCGGGGATACTCCAACCCCG
2432086 TTATTTCTGA
Statistics
Matches: 215, Mismatches: 22, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
262 33 0.15
263 31 0.14
264 62 0.29
265 89 0.41
ACGTcount: A:0.28, C:0.28, G:0.13, T:0.31
Consensus pattern (262 bp):
TTTTCCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCAG
GGATACCCCAACCCCGATTTTATTTCCAAAAAACACCAATTTTTCACAATCGAGGATACTCCAAT
CCCGTTAATCATCGAGGATACTCCAACCCCATTACCTCCGAGGGGATACTCCAACCCCTGCTTTA
TTCCCAAAATATCGATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTA
AT
Found at i:2433226 original size:20 final size:20
Alignment explanation
Indices: 2433201--2433247 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
2433191 CTATCACTAT
2433201 TTGTATCGATACATGGTACA
1 TTGTATCGATACATGGTACA
2433221 TTGTATCGATACATGGTACA
1 TTGTATCGATACATGGTACA
2433241 TTGTATC
1 TTGTATC
2433248 AATGCATTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.38
Consensus pattern (20 bp):
TTGTATCGATACATGGTACA
Found at i:2435108 original size:20 final size:19
Alignment explanation
Indices: 2435085--2435126 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 19
2435075 CCTAAGATTT
2435085 AAAAAAACAAAAGCAAAACA
1 AAAAAAACAAAAGCAAAA-A
*
2435105 AAAAAGACAAAAGCAAAAA
1 AAAAAAACAAAAGCAAAAA
2435124 AAA
1 AAA
2435127 TAGATCTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.81, C:0.12, G:0.07, T:0.00
Consensus pattern (19 bp):
AAAAAAACAAAAGCAAAAA
Found at i:2435157 original size:20 final size:20
Alignment explanation
Indices: 2435088--2435158 Score: 63
Period size: 20 Copynumber: 3.3 Consensus size: 20
2435078 AAGATTTAAA
2435088 AAAACAAAAGCAAAACAAAAA-
1 AAAA-AAAAGCAAAA-AAAAAG
* *
2435109 AGACAAAAGCAAAAAAAATAG
1 AAAAAAAAGCAAAAAAAA-AG
2435130 ATCTAAAAAAAGCAAAAAAAAAG
1 A---AAAAAAAGCAAAAAAAAAG
2435153 AAAAAA
1 AAAAAA
2435159 CTCAAATGGA
Statistics
Matches: 41, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
19 4 0.10
20 16 0.39
21 3 0.07
23 3 0.07
24 15 0.37
ACGTcount: A:0.77, C:0.10, G:0.08, T:0.04
Consensus pattern (20 bp):
AAAAAAAAGCAAAAAAAAAG
Found at i:2436396 original size:26 final size:26
Alignment explanation
Indices: 2436360--2436434 Score: 69
Period size: 28 Copynumber: 2.8 Consensus size: 26
2436350 ACATGAATCT
*
2436360 AAGCCCACATTTGCTGGCACAAGTTA
1 AAGCCTACATTTGCTGGCACAAGTTA
* * * *
2436386 AAGCCTGCATTTGTTGGTAGACAAGTTT
1 AAGCCTACATTTGCTGG--CACAAGTTA
**
2436414 AAGCCTACATTCACTGGCACA
1 AAGCCTACATTTGCTGGCACA
2436435 TAAGTCAATG
Statistics
Matches: 37, Mismatches: 10, Indels: 4
0.73 0.20 0.08
Matches are distributed among these distances:
26 17 0.46
28 20 0.54
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (26 bp):
AAGCCTACATTTGCTGGCACAAGTTA
Found at i:2436459 original size:28 final size:28
Alignment explanation
Indices: 2436427--2436889 Score: 161
Period size: 28 Copynumber: 16.8 Consensus size: 28
2436417 CCTACATTCA
*
2436427 CTGGCACATAAGTCAATGCCCATATTAG
1 CTGGCACATAAGTCAAAGCCCATATTAG
*
2436455 CTGGCATC-TAAGTCTAAA-CCCATATTAT
1 CTGGCA-CATAAGTC-AAAGCCCATATTAG
* * *
2436483 TTGGCACCTGAGTCAAAGCCCATACTT-G
1 CTGGCACATAAGTCAAAGCCCATA-TTAG
** * * * **
2436511 CAAGC-C-TAAGTTAAAGCCTACATTCT
1 CTGGCACATAAGTCAAAGCCCATATTAG
* ** * *
2436537 TTGGCACATAAGTTTAAGCCCACA-AACG
1 CTGGCACATAAGTCAAAGCCCATATTA-G
* * *
2436565 TTGGCACGTAAGTCAAAGCCCAAACTT-G
1 CTGGCACATAAGTCAAAGCCCATA-TTAG
* * * *
2436593 GTGGCAC--AAGTTAAAGCCCACATTTG
1 CTGGCACATAAGTCAAAGCCCATATTAG
* **
2436619 TTGGCACATAAGTTTAAGCCCATAATT-G
1 CTGGCACATAAGTCAAAGCCCAT-ATTAG
* * *
2436647 CTAGCACATAAGTCAATGCCCACATTAG
1 CTGGCACATAAGTCAAAGCCCATATTAG
* *
2436675 CTGGCATC-TAAGTCTAAA-CTCATATTAT
1 CTGGCA-CATAAGTC-AAAGCCCATATTAG
* * * *
2436703 TTGGCACCTAAGTCAAAGCCCACACTAG
1 CTGGCACATAAGTCAAAGCCCATATTAG
* ** * * *
2436731 TTAACACCTTAGTCAAAGCCCATATTTG
1 CTGGCACATAAGTCAAAGCCCATATTAG
* * * * *
2436759 CTAGCACATAAGTCTAAGCCCACACTAC
1 CTGGCACATAAGTCAAAGCCCATATTAG
** * *
2436787 CTAACACCTTAGTCAAAGCCCATATTCA-
1 CTGGCACATAAGTCAAAGCCCATATT-AG
* * * * *
2436815 TTAGCCCAAAAATCAAAGCCCATATTCA-
1 CTGGCACATAAGTCAAAGCCCATATT-AG
* * *
2436843 TTAGG-ACATAAGTCAAAGCCTACACTT-G
1 CT-GGCACATAAGTCAAAGCCCATA-TTAG
2436871 CTGGCAC--AAGTCAAAGCCC
1 CTGGCACATAAGTCAAAGCCC
2436890 CCATTCTTTG
Statistics
Matches: 326, Mismatches: 84, Indels: 52
0.71 0.18 0.11
Matches are distributed among these distances:
25 4 0.01
26 45 0.14
27 15 0.05
28 247 0.76
29 15 0.05
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (28 bp):
CTGGCACATAAGTCAAAGCCCATATTAG
Found at i:2436542 original size:110 final size:110
Alignment explanation
Indices: 2436408--2436728 Score: 311
Period size: 110 Copynumber: 2.9 Consensus size: 110
2436398 GTTGGTAGAC
*
2436408 AAGTTTAAGCCTACATTCACTGGCACATAAGTCAATGCCCATATTAGCTGGCATCTAAGTCTAAA
1 AAGTTTAAGCCTACATT--CTGGCACATAAGTCAATGCCCACATTAGCTGGCATCTAAGTCTAAA
* *
2436473 CCCATATTATTTGGCACCTGAGTCAAAGCCCATACTTGCAAGC-C-T
64 CCCATATTATTTGGCACCTAAGTCAAAGCCCACACTTGCAAGCACAT
* * * *
2436518 AAGTTAAAGCCTACATTCTTTGGCACATAAGTTTAA-GCCCACA-AACGTTGGCA-CGTAAGTC-
1 AAGTTTAAGCCTACATTC--TGGCACATAAG-TCAATGCCCACATTA-GCTGGCATC-TAAGTCT
* ** * * ***
2436579 AAAGCCCAAACTT-GGTGGCA-C-AAGTTAAAGCCCACATTTGTTGGCACAT
61 AAA-CCCATA-TTATTTGGCACCTAAGTCAAAGCCCACACTTGCAAGCACAT
*
2436628 AAGTTTAAGCCCATA-ATTGCTAGCACATAAGTCAATGCCCACATTAGCTGGCATCTAAGTCTAA
1 AAGTTTAAG-CC-TACATT-CTGGCACATAAGTCAATGCCCACATTAGCTGGCATCTAAGTCTAA
*
2436692 ACTCATATTATTTGGCACCTAAGTCAAAGCCCACACT
63 ACCCATATTATTTGGCACCTAAGTCAAAGCCCACACT
2436729 AGTTAACACC
Statistics
Matches: 166, Mismatches: 26, Indels: 36
0.73 0.11 0.16
Matches are distributed among these distances:
108 18 0.11
109 12 0.07
110 102 0.61
111 16 0.10
112 18 0.11
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.26
Consensus pattern (110 bp):
AAGTTTAAGCCTACATTCTGGCACATAAGTCAATGCCCACATTAGCTGGCATCTAAGTCTAAACC
CATATTATTTGGCACCTAAGTCAAAGCCCACACTTGCAAGCACAT
Found at i:2436579 original size:82 final size:82
Alignment explanation
Indices: 2436483--2436640 Score: 221
Period size: 82 Copynumber: 1.9 Consensus size: 82
2436473 CCCATATTAT
* * *
2436483 TTGGCACCTGAGTCAAAGCCCATACTTGCAAGC-CTAAGTTAAAGCCTACATTCT-TTGGCACAT
1 TTGGCACCTAAGTCAAAGCCCAAACTTGCAAGCAC-AAGTTAAAGCCCACATT-TGTTGGCACAT
2436546 AAGTTTAAGCCCACAAACG
64 AAGTTTAAGCCCACAAACG
* ***
2436565 TTGGCACGTAAGTCAAAGCCCAAACTTGGTGGCACAAGTTAAAGCCCACATTTGTTGGCACATAA
1 TTGGCACCTAAGTCAAAGCCCAAACTTGCAAGCACAAGTTAAAGCCCACATTTGTTGGCACATAA
2436630 GTTTAAGCCCA
66 GTTTAAGCCCA
2436641 TAATTGCTAG
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
81 1 0.01
82 65 0.97
83 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (82 bp):
TTGGCACCTAAGTCAAAGCCCAAACTTGCAAGCACAAGTTAAAGCCCACATTTGTTGGCACATAA
GTTTAAGCCCACAAACG
Found at i:2436603 original size:26 final size:26
Alignment explanation
Indices: 2436574--2436626 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
2436564 GTTGGCACGT
2436574 AAGTCAAAGCCCAAACTTGGTGGCAC
1 AAGTCAAAGCCCAAACTTGGTGGCAC
* * * *
2436600 AAGTTAAAGCCCACATTTGTTGGCAC
1 AAGTCAAAGCCCAAACTTGGTGGCAC
2436626 A
1 A
2436627 TAAGTTTAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.34, C:0.25, G:0.21, T:0.21
Consensus pattern (26 bp):
AAGTCAAAGCCCAAACTTGGTGGCAC
Found at i:2436654 original size:54 final size:55
Alignment explanation
Indices: 2436540--2436672 Score: 126
Period size: 54 Copynumber: 2.4 Consensus size: 55
2436530 ACATTCTTTG
* ** * * *
2436540 GCACATAAGTTTAAGCCCACAAACGTTGGCACGTAAGTCAAAGCCCAAACTTGGTG
1 GCACA-AAGTTAAAGCCCACATTCGTTGGCACATAAGTCAAAGCCCAAACTTGCTA
* **
2436596 GCAC-AAGTTAAAGCCCACATTTGTTGGCACATAAGTTTAAGCCCATAA-TTGCTA
1 GCACAAAGTTAAAGCCCACATTCGTTGGCACATAAGTCAAAGCCCA-AACTTGCTA
* *
2436650 GCACATAAGTCAATGCCCACATT
1 GCACA-AAGTTAAAGCCCACATT
2436673 AGCTGGCATC
Statistics
Matches: 63, Mismatches: 11, Indels: 6
0.79 0.14 0.08
Matches are distributed among these distances:
54 42 0.67
55 2 0.03
56 19 0.30
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (55 bp):
GCACAAAGTTAAAGCCCACATTCGTTGGCACATAAGTCAAAGCCCAAACTTGCTA
Found at i:2436680 original size:82 final size:82
Alignment explanation
Indices: 2436493--2436726 Score: 215
Period size: 82 Copynumber: 2.8 Consensus size: 82
2436483 TTGGCACCTG
* ** *
2436493 AGTCAAAGCCCATACTTGCAAGC-CTAAGTTAAAGCCTACATTCTTTGGCACATAAGTTTAAGCC
1 AGTCAAAGCCCAAACTTGCTGGCAC-AAGTTAAAGCCCACATTCTTTGGCACATAAGTTTAAGCC
* * *
2436557 CACAAACGTTGGCACGTA
65 CACAAACGCTAGCACATA
*
2436575 AGTCAAAGCCCAAACTTGGTGGCACAAGTTAAAGCCCACATT-TGTTGGCACATAAGTTTAAGCC
1 AGTCAAAGCCCAAACTTGCTGGCACAAGTTAAAGCCCACATTCT-TTGGCACATAAGTTTAAGCC
* **
2436639 CATAATTGCTAGCACATA
65 CACAAACGCTAGCACATA
* * * * * * **
2436657 AGTCAATGCCCACA-TTAGCTGGCATCTAAGTCTAAA-CTCATATTATTTGGCACCTAAGTCAAA
1 AGTCAAAGCCCAAACTT-GCTGGCA-C-AAGT-TAAAGCCCACATTCTTTGGCACATAAGTTTAA
2436720 GCCCACA
62 GCCCACA
2436727 CTAGTTAACA
Statistics
Matches: 125, Mismatches: 20, Indels: 12
0.80 0.13 0.08
Matches are distributed among these distances:
81 3 0.02
82 85 0.68
83 2 0.02
84 30 0.24
85 5 0.04
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (82 bp):
AGTCAAAGCCCAAACTTGCTGGCACAAGTTAAAGCCCACATTCTTTGGCACATAAGTTTAAGCCC
ACAAACGCTAGCACATA
Found at i:2436783 original size:56 final size:55
Alignment explanation
Indices: 2436634--2436812 Score: 191
Period size: 56 Copynumber: 3.2 Consensus size: 55
2436624 ACATAAGTTT
* * ** * *
2436634 AAGCCCATAATTGCTAGCACATAAGTCAATGCCCACATTAGCTGGCATCTAAGTCTA
1 AAGCCCATATTTGCTAGCACATAAGTCAA-GCCCACACTAGCTAACACCTTAGTC-A
* * * * *
2436691 AA-CTCATATTAT-TTGGCACCTAAGTCAAAGCCCACACTAGTTAACACCTTAGTCA
1 AAGCCCATATT-TGCTAGCACATAAGTC-AAGCCCACACTAGCTAACACCTTAGTCA
*
2436746 AAGCCCATATTTGCTAGCACATAAGTCTAAGCCCACACTACCTAACACCTTAGTCA
1 AAGCCCATATTTGCTAGCACATAAGTC-AAGCCCACACTAGCTAACACCTTAGTCA
2436802 AAGCCCATATT
1 AAGCCCATATT
2436813 CATTAGCCCA
Statistics
Matches: 100, Mismatches: 18, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
55 4 0.04
56 91 0.91
57 5 0.05
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.25
Consensus pattern (55 bp):
AAGCCCATATTTGCTAGCACATAAGTCAAGCCCACACTAGCTAACACCTTAGTCA
Found at i:2438020 original size:4 final size:4
Alignment explanation
Indices: 2438011--2438035 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
2438001 AGAAAAAGGG
2438011 AAGA AAGA AAGA AAGA AAGA AAGA A
1 AAGA AAGA AAGA AAGA AAGA AAGA A
2438036 GGAAGAGGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:2438296 original size:4 final size:4
Alignment explanation
Indices: 2438287--2438324 Score: 67
Period size: 4 Copynumber: 9.5 Consensus size: 4
2438277 TTGAGTGATA
*
2438287 TTAT TTAT TTAT TTAT TTAT TTGT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
2438325 TTGTTTAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (4 bp):
TTAT
Found at i:2439054 original size:110 final size:109
Alignment explanation
Indices: 2438893--2439581 Score: 608
Period size: 110 Copynumber: 6.3 Consensus size: 109
2438883 GGGCACTAAG
* * ** * * *
2438893 GGATTGGCCCCAAAATAGATCATTGTCTAGAGTTGTAAAATGACATACGAACGCCTTTTATATAG
1 GGATTGGCCCCGAAATAGGTCATTGTCTAGAGTCATAAAGTGGCATACGAACGCCCTTTATATAG
*
2438958 GACAATTCATTGTTTGCATAAATTACATAGTATTCGAGCACCAAA
66 GATAATTCATT-TTTGCATAAATTACATAGTATTCGAGCACCAAA
* * * * * *
2439003 AGATTGGCCCCGAAATAGGTAAGTGTCTAGAGTCATAAAGTGGCGTACGAACACCCGTT-TATAG
1 GGATTGGCCCCGAAATAGGTCATTGTCTAGAGTCATAAAGTGGCATACGAACGCCCTTTATATAG
* * * * *
2439067 AATAATTTATTTTTCGCGTAAATTACATAGTATTTGGGCACCAAA
66 GATAATTCATTTTT-GCATAAATTACATAGTATTCGAGCACCAAA
* * *
2439112 GGATTGG-CCCTAAATAGGTCATTGTCTAAAGTCATAAAGTGGCATAC-AATCCCCCTTTATATA
1 GGATTGGCCCCGAAATAGGTCATTGTCTAGAGTCATAAAGTGGCATACGAA-CGCCCTTTATATA
* * ** *
2439175 TGATAATTCATTTAATTGCATTAATTATGTAG-ATTC-AGGCAACAAA
65 GGATAATTCATTT--TTGCATAAATTACATAGTATTCGA-GCACCAAA
* * * * *
2439221 GGATTGGCTCCGAAATAGGTCATTGTTTAGAGTCATAAAGTGGCATACGAATGCCTTTTTATATC
1 GGATTGGCCCCGAAATAGGTCATTGTCTAGAGTCATAAAGTGGCATACGAACGCC-CTTTATATA
* * * * * *
2439286 GGATAATTTATTTTTTTGCATTAATTACGTA-AATTCAAGTACCAAA
65 GGATAATTCA--TTTTTGCATAAATTACATAGTATTCGAGCACCAAA
* * * * *
2439332 GGATTGGCCCCAAAATTGGTCATTGTCTAGAGTTAT-AAGTGGCATACGAATGCCCTTTATACAG
1 GGATTGGCCCCGAAATAGGTCATTGTCTAGAGTCATAAAGTGGCATACGAACGCCCTTTATATAG
* * *
2439396 GATAATTCATTTTTTGCATAAATTACATAATATT-TAGGCACCAAG
66 GATAATTCA-TTTTTGCATAAATTACATAGTATTCGA-GCACCAAA
** ** * ** * * * *
2439441 GGATTGGCTTCGAAATAAATCATTATCTAGAGTTGTAAAGTGACGTACAAATGCCCTTTATATAG
1 GGATTGGCCCCGAAATAGGTCATTGTCTAGAGTCATAAAGTGGCATACGAACGCCCTTTATATAG
* * ** *
2439506 AATAATTTATTTTTTAACT-AATTACATAG-ATTCGGGCACC-AA
66 GATAATTCATTTTTGCA-TAAATTACATAGTATTCGAGCACCAAA
* *
2439548 GGAATTGGCCTCGAAATAGGTCATTGTTTAGAGT
1 GG-ATTGGCCCCGAAATAGGTCATTGTCTAGAGT
2439582 AATTTATTTT
Statistics
Matches: 470, Mismatches: 90, Indels: 40
0.78 0.15 0.07
Matches are distributed among these distances:
107 5 0.01
108 97 0.21
109 144 0.31
110 145 0.31
111 75 0.16
112 1 0.00
113 3 0.01
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (109 bp):
GGATTGGCCCCGAAATAGGTCATTGTCTAGAGTCATAAAGTGGCATACGAACGCCCTTTATATAG
GATAATTCATTTTTGCATAAATTACATAGTATTCGAGCACCAAA
Found at i:2439392 original size:220 final size:218
Alignment explanation
Indices: 2438893--2439581 Score: 689
Period size: 218 Copynumber: 3.2 Consensus size: 218
2438883 GGGCACTAAG
* * * * * *
2438893 GGATTGGCCCCAAAATAGATCATTGTCTAGAGTTGTAAAATGACATACGAACGCCTTTTATATAG
1 GGATTGGCCCCAAAATAGGTCATTGTCTAGAGTTATAAAGTGGCATACGAATGCCCTTTATATAG
* * *
2438958 GACAATTCATTGTTTGCATAAATTACATAGTATTC-GAGCACCAAAAGATTGGCCCCGAAATAGG
66 GATAATTCATT-TTTGCATAAATTACATAG-ATTCAG-GCACCAAAGGATTGGCTCCGAAATAGG
* * ** *
2439022 TAAGTGTCTAGAGTCATAAAGTGGCGTACGAACACCCGTTTATA-GAATAATTTA-TTTTTCGCG
128 TCATTGTCTAGAGTCATAAAGTGGCGTACGAATGCCC-TTTATATGAATAATTTATTTTTTCGCA
* ***
2439085 TAAATTACATAGTATTTGGGCACCAAA
192 TAAATTACATAGAATTCAAGCACCAAA
* * * *
2439112 GGATTGG-CCCTAAATAGGTCATTGTCTAAAGTCATAAAGTGGCATAC-AATCCCCCTTTATATA
1 GGATTGGCCCCAAAATAGGTCATTGTCTAGAGTTATAAAGTGGCATACGAAT-GCCCTTTATATA
* * ** *
2439175 TGATAATTCATTTAATTGCATTAATTATGTAGATTCAGGCAACAAAGGATTGGCTCCGAAATAGG
65 GGATAATTCATTT--TTGCATAAATTACATAGATTCAGGCACCAAAGGATTGGCTCCGAAATAGG
* * * * *
2439240 TCATTGTTTAGAGTCATAAAGTGGCATACGAATGCCTTTTTATATCGGATAATTTATTTTTTTGC
128 TCATTGTCTAGAGTCATAAAGTGGCGTACGAATGCC-CTTTATAT-GAATAATTTATTTTTTCGC
* * *
2439305 ATTAATTACGTA-AATTCAAGTACCAAA
191 ATAAATTACATAGAATTCAAGCACCAAA
* *
2439332 GGATTGGCCCCAAAATTGGTCATTGTCTAGAGTTAT-AAGTGGCATACGAATGCCCTTTATACAG
1 GGATTGGCCCCAAAATAGGTCATTGTCTAGAGTTATAAAGTGGCATACGAATGCCCTTTATATAG
* * * * **
2439396 GATAATTCATTTTTTGCATAAATTACATAATATTTAGGCACCAAGGGATTGGCTTCGAAATAAAT
66 GATAATTCA-TTTTTGCATAAATTACAT-AGATTCAGGCACCAAAGGATTGGCTCCGAAATAGGT
* ** * * **
2439461 CATTATCTAGAGTTGTAAAGTGACGTACAAATGCCCTTTATATAGAATAATTTATTTTTTAAC-T
129 CATTGTCTAGAGTCATAAAGTGGCGTACGAATGCCCTTTATAT-GAATAATTTATTTTTTCGCAT
**
2439525 -AATTACATAG-ATTCGGGCACC-AA
193 AAATTACATAGAATTCAAGCACCAAA
* * *
2439548 GGAATTGGCCTCGAAATAGGTCATTGTTTAGAGT
1 GG-ATTGGCCCCAAAATAGGTCATTGTCTAGAGT
2439582 AATTTATTTT
Statistics
Matches: 384, Mismatches: 72, Indels: 30
0.79 0.15 0.06
Matches are distributed among these distances:
216 4 0.01
217 46 0.12
218 118 0.31
219 57 0.15
220 113 0.29
221 46 0.12
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (218 bp):
GGATTGGCCCCAAAATAGGTCATTGTCTAGAGTTATAAAGTGGCATACGAATGCCCTTTATATAG
GATAATTCATTTTTGCATAAATTACATAGATTCAGGCACCAAAGGATTGGCTCCGAAATAGGTCA
TTGTCTAGAGTCATAAAGTGGCGTACGAATGCCCTTTATATGAATAATTTATTTTTTCGCATAAA
TTACATAGAATTCAAGCACCAAA
Found at i:2439628 original size:73 final size:73
Alignment explanation
Indices: 2439503--2439645 Score: 241
Period size: 73 Copynumber: 2.0 Consensus size: 73
2439493 GCCCTTTATA
*
2439503 TAGAATAATTTATTTTTTAACTAATTACATAGATTCGGGCACCAAGGAATTGGCCTCGAAATAGG
1 TAGAATAATTTATTTTTTAACTAATTACATAGATTCGGGCACCAAGGAATTGGACTCGAAATAGG
2439568 TCATTGTT
66 TCATTGTT
* * * *
2439576 TAGAGTAATTTATTTTTTAACTAATTATATAGATTCGGGCACCAAGGGATTGGACTCGGAATAGG
1 TAGAATAATTTATTTTTTAACTAATTACATAGATTCGGGCACCAAGGAATTGGACTCGAAATAGG
2439641 TCATT
66 TCATT
2439646 ATTAAAAGTC
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
73 65 1.00
ACGTcount: A:0.32, C:0.13, G:0.20, T:0.36
Consensus pattern (73 bp):
TAGAATAATTTATTTTTTAACTAATTACATAGATTCGGGCACCAAGGAATTGGACTCGAAATAGG
TCATTGTT
Found at i:2440189 original size:10 final size:11
Alignment explanation
Indices: 2440169--2440206 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
2440159 ATCTTTTTTA
2440169 AAAATAATAAT
1 AAAATAATAAT
2440180 AAAA-AATAAT
1 AAAATAATAAT
2440190 AAAATAA-AAGT
1 AAAATAATAA-T
2440201 AAAATA
1 AAAATA
2440207 TTTTTTCTCC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 12 0.48
11 13 0.52
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (11 bp):
AAAATAATAAT
Found at i:2441375 original size:21 final size:20
Alignment explanation
Indices: 2441346--2441403 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
2441336 AAAACCCTGA
**
2441346 AAAGTATCGATACACATTTT
1 AAAGTATCGATACACATTGC
*
2441366 AAATGTATCGATACAGATTGC
1 AAA-GTATCGATACACATTGC
*
2441387 ATAGTATCGATACACAT
1 AAAGTATCGATACACAT
2441404 AAATATGTAC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
20 16 0.50
21 16 0.50
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.31
Consensus pattern (20 bp):
AAAGTATCGATACACATTGC
Found at i:2441471 original size:53 final size:53
Alignment explanation
Indices: 2441390--2441526 Score: 229
Period size: 53 Copynumber: 2.6 Consensus size: 53
2441380 AGATTGCATA
* *
2441390 GTATCGATACACATAAATATGTACCGATACAGGACATTGGCAGTAGCCAAATTT
1 GTATCGATACACA-AAATATGTATCGATACAGGACACTGGCAGTAGCCAAATTT
* *
2441444 GTATCGATACACACAATATGTATCGATACAGGTCACTGGCAGTAGCCAAATTT
1 GTATCGATACACAAAATATGTATCGATACAGGACACTGGCAGTAGCCAAATTT
2441497 GTATCGATACACAAAATATGTATCGATACA
1 GTATCGATACACAAAATATGTATCGATACA
2441527 TTGGTAGTAG
Statistics
Matches: 78, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
53 65 0.83
54 13 0.17
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (53 bp):
GTATCGATACACAAAATATGTATCGATACAGGACACTGGCAGTAGCCAAATTT
Found at i:2441633 original size:14 final size:14
Alignment explanation
Indices: 2441616--2441643 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
2441606 CACTGTTCAT
2441616 ACTATTCATGTATC
1 ACTATTCATGTATC
2441630 ACTATTCATGTATC
1 ACTATTCATGTATC
2441644 GTTAAAAATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.21, G:0.07, T:0.43
Consensus pattern (14 bp):
ACTATTCATGTATC
Found at i:2441690 original size:13 final size:13
Alignment explanation
Indices: 2441672--2441710 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
2441662 TCACTATTCA
2441672 TGTATCGATACAT
1 TGTATCGATACAT
*
2441685 TGTATCGATACAG
1 TGTATCGATACAT
2441698 TGTATCGATACAT
1 TGTATCGATACAT
2441711 CATAAATAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2443659 original size:24 final size:24
Alignment explanation
Indices: 2443627--2443684 Score: 107
Period size: 24 Copynumber: 2.4 Consensus size: 24
2443617 TTTTGAGTGT
2443627 TTTGAAATATTTGGTGCAAAACAA
1 TTTGAAATATTTGGTGCAAAACAA
2443651 TTTGAAATATTTGGTGCAAAACAA
1 TTTGAAATATTTGGTGCAAAACAA
*
2443675 TTCGAAATAT
1 TTTGAAATAT
2443685 AATAAGATTG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.41, C:0.09, G:0.16, T:0.34
Consensus pattern (24 bp):
TTTGAAATATTTGGTGCAAAACAA
Found at i:2444349 original size:20 final size:19
Alignment explanation
Indices: 2444324--2444377 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 19
2444314 GTTTGAGGCA
2444324 ATGTATCGATACAAT-TCATC
1 ATGTATCGATACAATATC--C
2444344 ATGTATCGATACAATATGCC
1 ATGTATCGATACAATAT-CC
2444364 ATGTATCGATACAA
1 ATGTATCGATACAA
2444378 ACAGTGGTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 30 0.94
21 1 0.03
22 1 0.03
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.31
Consensus pattern (19 bp):
ATGTATCGATACAATATCC
Found at i:2444435 original size:20 final size:20
Alignment explanation
Indices: 2444406--2444463 Score: 75
Period size: 19 Copynumber: 3.0 Consensus size: 20
2444396 CTGCCAGTTT
*
2444406 CATGTATCGATACAATTGTG
1 CATGTATCGATACAATTGTA
* *
2444426 CATTTATCGATACAA-TGAA
1 CATGTATCGATACAATTGTA
2444445 CATGTATCGATAC-ATTGTA
1 CATGTATCGATACAATTGTA
2444464 TCGATACAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
18 1 0.03
19 17 0.53
20 14 0.44
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (20 bp):
CATGTATCGATACAATTGTA
Found at i:2444465 original size:13 final size:13
Alignment explanation
Indices: 2444447--2444471 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2444437 ACAATGAACA
2444447 TGTATCGATACAT
1 TGTATCGATACAT
2444460 TGTATCGATACA
1 TGTATCGATACA
2444472 AAGCATAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2444488 original size:33 final size:31
Alignment explanation
Indices: 2444426--2444492 Score: 91
Period size: 33 Copynumber: 2.1 Consensus size: 31
2444416 TACAATTGTG
*
2444426 CATTTATCGATACAATGAACATGTATCGATA
1 CATTTATCGATACAAAGAACATGTATCGATA
2444457 CATTGTATCGATACAAAGCATA-ATGTATCGATA
1 CATT-TATCGATACAAAG-A-ACATGTATCGATA
2444490 CAT
1 CAT
2444493 CTAGATGTGT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
31 4 0.12
32 12 0.38
33 15 0.47
34 1 0.03
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.31
Consensus pattern (31 bp):
CATTTATCGATACAAAGAACATGTATCGATA
Found at i:2445132 original size:17 final size:16
Alignment explanation
Indices: 2445110--2445144 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 16
2445100 GTCAAGTCTT
2445110 AAAAAATTCATTTTCAA
1 AAAAAATT-ATTTTCAA
2445127 AAAAAATTATTTTCAA
1 AAAAAATTATTTTCAA
2445143 AA
1 AA
2445145 CTTTCTCCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (16 bp):
AAAAAATTATTTTCAA
Found at i:2446975 original size:21 final size:20
Alignment explanation
Indices: 2446951--2446995 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
2446941 AGTAACCTGG
2446951 TTTTCCAGAAGTATCGATACA
1 TTTTCCA-AAGTATCGATACA
* *
2446972 TTTTTCAATGTATCGATACA
1 TTTTCCAAAGTATCGATACA
2446992 TTTT
1 TTTT
2446996 AGAAAATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.29, C:0.16, G:0.11, T:0.44
Consensus pattern (20 bp):
TTTTCCAAAGTATCGATACA
Found at i:2449252 original size:104 final size:105
Alignment explanation
Indices: 2449067--2449279 Score: 392
Period size: 104 Copynumber: 2.0 Consensus size: 105
2449057 TTGTTCTAAA
2449067 TTTTCTTCATAAATTTCTACATCATTGTCAACAAAAGATACCTTCCTTTCGGAGGAGTTAGAATC
1 TTTTCTTCATAAATTTCTACATCATTGTCAACAAAAGATACCTTCCTTTCGGAGGAGTTAGAATC
*
2449132 ATCAAAAACAATATGGATTGATTCTTCAACAATAAAGTT-
66 ATCAAAAACAACATGGATTGATTCTTCAACAATAAAGTTC
* *
2449171 TTTTCTTCATAAATTTCTACATCATTGTCAACAAAAGATACCTTTCTTTTGGAGGAGTTAGAATC
1 TTTTCTTCATAAATTTCTACATCATTGTCAACAAAAGATACCTTCCTTTCGGAGGAGTTAGAATC
2449236 ATCAAAAACAACATGGATTGATTCTTCAACAATAAAGTTC
66 ATCAAAAACAACATGGATTGATTCTTCAACAATAAAGTTC
2449276 TTTT
1 TTTT
2449280 GTTAAACACT
Statistics
Matches: 105, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
104 101 0.96
105 4 0.04
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.36
Consensus pattern (105 bp):
TTTTCTTCATAAATTTCTACATCATTGTCAACAAAAGATACCTTCCTTTCGGAGGAGTTAGAATC
ATCAAAAACAACATGGATTGATTCTTCAACAATAAAGTTC
Found at i:2455118 original size:33 final size:33
Alignment explanation
Indices: 2455061--2455125 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
2455051 TAGCCAAACT
* * *
2455061 TGTATCGATACACCAAAGTATGTATTGATACAA
1 TGTATCGATACACAAAAATATGTATCGATACAA
2455094 TGTATCGATACACAAAAA-ATTGTATCGATACA
1 TGTATCGATACACAAAAATA-TGTATCGATACA
2455126 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 1 0.04
33 27 0.96
ACGTcount: A:0.42, C:0.15, G:0.14, T:0.29
Consensus pattern (33 bp):
TGTATCGATACACAAAAATATGTATCGATACAA
Found at i:2459192 original size:15 final size:15
Alignment explanation
Indices: 2459172--2459202 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2459162 CAAAAGTGTC
*
2459172 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
2459187 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
2459202 C
1 C
2459203 CAAACGAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:2461301 original size:13 final size:13
Alignment explanation
Indices: 2461283--2461331 Score: 89
Period size: 13 Copynumber: 3.8 Consensus size: 13
2461273 TTTTTCTTTA
2461283 TATCGATACATTG
1 TATCGATACATTG
2461296 TATCGATACATTG
1 TATCGATACATTG
*
2461309 TATCGATAAATTG
1 TATCGATACATTG
2461322 TATCGATACA
1 TATCGATACA
2461332 GAGGGATTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 34 1.00
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.37
Consensus pattern (13 bp):
TATCGATACATTG
Found at i:2463912 original size:20 final size:20
Alignment explanation
Indices: 2463886--2463938 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
2463876 GTAGCCAAAC
* *
2463886 TTGTATCGATACAC-CAAAG
1 TTGTATCGATACACAAAAAA
2463905 TATGTATCGATACACAAAAAA
1 T-TGTATCGATACACAAAAAA
2463926 TTGTATCGATACA
1 TTGTATCGATACA
2463939 TTGGCTTGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 1 0.03
20 25 0.83
21 4 0.13
ACGTcount: A:0.42, C:0.17, G:0.13, T:0.28
Consensus pattern (20 bp):
TTGTATCGATACACAAAAAA
Found at i:2470345 original size:13 final size:13
Alignment explanation
Indices: 2470327--2470357 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
2470317 ACATTTCCTC
2470327 ATGTATCGATACA
1 ATGTATCGATACA
2470340 ATGTATCGATACA
1 ATGTATCGATACA
*
2470353 TTGTA
1 ATGTA
2470358 CCATGTATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2470345 original size:33 final size:33
Alignment explanation
Indices: 2470305--2470373 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
2470295 CCATTACAAG
* *
2470305 CAATGTATTGATACATT-TCCTCATGTATCGATA
1 CAATGTATCGATACATTGTAC-CATGTATCGATA
2470338 CAATGTATCGATACATTGTACCATGTATCGATA
1 CAATGTATCGATACATTGTACCATGTATCGATA
2470371 CAA
1 CAA
2470374 ATAGTGATAG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
33 31 0.94
34 2 0.06
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.35
Consensus pattern (33 bp):
CAATGTATCGATACATTGTACCATGTATCGATA
Found at i:2471170 original size:13 final size:13
Alignment explanation
Indices: 2471152--2471177 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2471142 ACATTTTATG
2471152 ATGTATCGATACA
1 ATGTATCGATACA
2471165 ATGTATCGATACA
1 ATGTATCGATACA
2471178 TACTGTGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2471194 original size:32 final size:33
Alignment explanation
Indices: 2471130--2471197 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 33
2471120 CGTTACAAGC
* **
2471130 CAATGTATTGATACATTTTATGATGTATCGATA
1 CAATGTATCGATACATACTATGATGTATCGATA
*
2471163 CAATGTATCGATACATACTGTG-TGTATCGATA
1 CAATGTATCGATACATACTATGATGTATCGATA
2471195 CAA
1 CAA
2471198 GTTTGGCTAC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 13 0.42
33 18 0.58
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (33 bp):
CAATGTATCGATACATACTATGATGTATCGATA
Found at i:2471309 original size:20 final size:20
Alignment explanation
Indices: 2471284--2471333 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
2471274 TGGATACAAA
*
2471284 GTATCGATACAATGCAATCT
1 GTATCGATACAATGAAATCT
* * *
2471304 GTATCGATACATTTAAATGT
1 GTATCGATACAATGAAATCT
2471324 GTATCGATAC
1 GTATCGATAC
2471334 TTTTTAGGGT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (20 bp):
GTATCGATACAATGAAATCT
Found at i:2471667 original size:19 final size:19
Alignment explanation
Indices: 2471623--2471678 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
2471613 CTGCCAGTTT
* **
2471623 CATGTATCGATACATTTGTC
1 CATGTATCGATACA-ATGAA
2471643 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
2471662 CATGTATCGATACAATG
1 CATGTATCGATACAATG
2471679 TATCGATACA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 19 0.58
20 14 0.42
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:2471681 original size:13 final size:13
Alignment explanation
Indices: 2471663--2471689 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2471653 TACAATGAAC
2471663 ATGTATCGATACA
1 ATGTATCGATACA
2471676 ATGTATCGATACA
1 ATGTATCGATACA
2471689 A
1 A
2471690 AGCAGCATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2471704 original size:33 final size:32
Alignment explanation
Indices: 2471644--2471708 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
2471634 ACATTTGTCC
*
2471644 ATGTATCGATACAATGAACATGTATCGATACA
1 ATGTATCGATACAAAGAACATGTATCGATACA
*
2471676 ATGTATCGATACAAAGCAGCATGTATCGATACA
1 ATGTATCGATACAAAG-AACATGTATCGATACA
2471709 TCTAGGTGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (32 bp):
ATGTATCGATACAAAGAACATGTATCGATACA
Found at i:2473205 original size:20 final size:20
Alignment explanation
Indices: 2473167--2473206 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
2473157 TTACAAATTT
2473167 CTTCATTTTCACTTCAAAATA
1 CTTCATTTTCAC-TCAAAATA
2473188 CTTCATTTTTCA-TCAAAAT
1 CTTCA-TTTTCACTCAAAAT
2473207 TATCAACAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 5 0.28
22 6 0.33
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.45
Consensus pattern (20 bp):
CTTCATTTTCACTCAAAATA
Found at i:2474333 original size:13 final size:13
Alignment explanation
Indices: 2474315--2474340 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2474305 TATACAAAGT
2474315 ATGTATCGATACA
1 ATGTATCGATACA
2474328 ATGTATCGATACA
1 ATGTATCGATACA
2474341 CCAAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2474357 original size:33 final size:32
Alignment explanation
Indices: 2474297--2474360 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
2474287 TAGCCAAACT
* **
2474297 TGTATCGATATACAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAAAATGTATCGATACAA
2474329 TGTATCGATACACCAAAAAATGTATCGATACA
1 TGTATCGATACA-CAAAAAATGTATCGATACA
2474361 TTAGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 11 0.39
33 17 0.61
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACAAAAAATGTATCGATACAA
Found at i:2480543 original size:13 final size:13
Alignment explanation
Indices: 2480525--2480550 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2480515 ACATCATTCT
2480525 TTGTATCGATACA
1 TTGTATCGATACA
2480538 TTGTATCGATACA
1 TTGTATCGATACA
2480551 GGGGGATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2480696 original size:21 final size:20
Alignment explanation
Indices: 2480672--2480718 Score: 51
Period size: 22 Copynumber: 2.3 Consensus size: 20
2480662 AAATCTTTTG
*
2480672 CAAAATAC-TTGTTTTTCACTT
1 CAAAATACATCGTTTTTCA--T
*
2480693 CAAATTACATCGTTTTTCAT
1 CAAAATACATCGTTTTTCAT
2480713 CAAAAT
1 CAAAAT
2480719 CACCTTCAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 6 0.27
21 7 0.32
22 9 0.41
ACGTcount: A:0.34, C:0.19, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACATCGTTTTTCAT
Found at i:2482478 original size:31 final size:31
Alignment explanation
Indices: 2482379--2482471 Score: 159
Period size: 31 Copynumber: 3.0 Consensus size: 31
2482369 GTGTTTATGA
* *
2482379 TTAATTAAGGGGGAAAATGTGCAAATTTGTT
1 TTAATTAAGGGGGAGAATGCGCAAATTTGTT
2482410 TTAATTAAGGGGGAGAATGCGCAAATTTGTT
1 TTAATTAAGGGGGAGAATGCGCAAATTTGTT
*
2482441 TTAATTAAGAGGGAGAATGCGCAAATTTGTT
1 TTAATTAAGGGGGAGAATGCGCAAATTTGTT
2482472 AAAATTATCT
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 59 1.00
ACGTcount: A:0.34, C:0.05, G:0.27, T:0.33
Consensus pattern (31 bp):
TTAATTAAGGGGGAGAATGCGCAAATTTGTT
Found at i:2482519 original size:22 final size:22
Alignment explanation
Indices: 2482473--2482513 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 22
2482463 AAATTTGTTA
2482473 AAATTATCTTATTAAGGGGGAG
1 AAATTATCTTATTAAGGGGGAG
2482495 AAATTAT-TT-TTAAGGGGGA
1 AAATTATCTTATTAAGGGGGA
2482514 TAGAAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.53
21 2 0.11
22 7 0.37
ACGTcount: A:0.37, C:0.02, G:0.27, T:0.34
Consensus pattern (22 bp):
AAATTATCTTATTAAGGGGGAG
Found at i:2483155 original size:13 final size:13
Alignment explanation
Indices: 2483137--2483161 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2483127 TAGCCAAACT
2483137 TGTATCGATACAA
1 TGTATCGATACAA
2483150 TGTATCGATACA
1 TGTATCGATACA
2483162 CCAAAAAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2485523 original size:13 final size:13
Alignment explanation
Indices: 2485505--2485540 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
2485495 ATTGCTTAGT
*
2485505 ATCGATATATTGC
1 ATCGATACATTGC
*
2485518 ATCGATACATTGT
1 ATCGATACATTGC
2485531 ATCGATACAT
1 ATCGATACAT
2485541 GTTCATTGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (13 bp):
ATCGATACATTGC
Found at i:2485570 original size:20 final size:19
Alignment explanation
Indices: 2485524--2485580 Score: 87
Period size: 19 Copynumber: 2.9 Consensus size: 19
2485514 TTGCATCGAT
*
2485524 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGC
*
2485543 TCATTGTATCGATACATGC
1 ACATTGTATCGATACATGC
2485562 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
2485581 AAACTGGCAG
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 18 0.53
20 16 0.47
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.35
Consensus pattern (19 bp):
ACATTGTATCGATACATGC
Found at i:2485669 original size:33 final size:33
Alignment explanation
Indices: 2485610--2485674 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
2485600 TACCACTGTT
* *
2485610 TGTATCGATACATGGTACATTATATCGATACAA
1 TGTATCGATACATGATACATCATATCGATACAA
*
2485643 TGTATCGATACATGATGA-ATCGTATCGATACA
1 TGTATCGATACATGAT-ACATCATATCGATACA
2485675 TTACTTCTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 27 0.96
34 1 0.04
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.32
Consensus pattern (33 bp):
TGTATCGATACATGATACATCATATCGATACAA
Found at i:2486945 original size:13 final size:13
Alignment explanation
Indices: 2486905--2486956 Score: 53
Period size: 13 Copynumber: 4.5 Consensus size: 13
2486895 CCGTTTGAGG
2486905 CAATGTATCGATA
1 CAATGTATCGATA
2486918 CAA--T-TC-AT-
1 CAATGTATCGATA
2486926 C-ATGTATCGATA
1 CAATGTATCGATA
2486938 CAATGTATCGATA
1 CAATGTATCGATA
*
2486951 TAATGT
1 CAATGT
2486957 GCCATGTATT
Statistics
Matches: 32, Mismatches: 1, Indels: 12
0.71 0.02 0.27
Matches are distributed among these distances:
7 1 0.03
8 1 0.03
9 3 0.09
10 4 0.12
11 3 0.09
12 1 0.03
13 19 0.59
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:2486963 original size:33 final size:32
Alignment explanation
Indices: 2486905--2486973 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 32
2486895 CCGTTTGAGG
2486905 CAATGTATCGATACAATTCATCATGTATCGATA
1 CAATGTATCGATACAATTCA-CATGTATCGATA
* *
2486938 CAATGTATCGATATAATGTGC-CATGTATTGATA
1 CAATGTATCGATACAAT-T-CACATGTATCGATA
2486971 CAA
1 CAA
2486974 ACAGTGGTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
33 30 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.33
Consensus pattern (32 bp):
CAATGTATCGATACAATTCACATGTATCGATA
Found at i:2487046 original size:19 final size:20
Alignment explanation
Indices: 2487002--2487052 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
2486992 CTGCCAGTTT
**
2487002 CATGTATCGATACAATTGTG
1 CATGTATCGATACAATTGAA
*
2487022 CATGTATCGATACGA-TGAA
1 CATGTATCGATACAATTGAA
2487041 CATGTATCGATA
1 CATGTATCGATA
2487053 TATTGTATCA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:2488938 original size:13 final size:13
Alignment explanation
Indices: 2488920--2488945 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2488910 ATAATCACAT
2488920 TACATTGAGAAAG
1 TACATTGAGAAAG
2488933 TACATTGAGAAAG
1 TACATTGAGAAAG
2488946 CTCAAGGAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.23, T:0.23
Consensus pattern (13 bp):
TACATTGAGAAAG
Found at i:2489831 original size:13 final size:13
Alignment explanation
Indices: 2489813--2489870 Score: 56
Period size: 13 Copynumber: 4.9 Consensus size: 13
2489803 ACATTTGGTC
2489813 ATGTATCGATACA
1 ATGTATCGATACA
2489826 ATGTATCGATAC-
1 ATGTATCGATACA
* *
2489838 -TGT-GC-AT--T
1 ATGTATCGATACA
2489846 ATGTATCGATACA
1 ATGTATCGATACA
2489859 ATGTATCGATAC
1 ATGTATCGATAC
2489871 TGTGCATTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 12
0.71 0.06 0.24
Matches are distributed among these distances:
9 5 0.14
10 2 0.06
11 5 0.14
13 24 0.67
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2489850 original size:33 final size:33
Alignment explanation
Indices: 2489813--2489890 Score: 156
Period size: 33 Copynumber: 2.4 Consensus size: 33
2489803 ACATTTGGTC
2489813 ATGTATCGATACAATGTATCGATACTGTGCATT
1 ATGTATCGATACAATGTATCGATACTGTGCATT
2489846 ATGTATCGATACAATGTATCGATACTGTGCATT
1 ATGTATCGATACAATGTATCGATACTGTGCATT
2489879 ATGTATCGATAC
1 ATGTATCGATAC
2489891 TGTTGAAGGT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (33 bp):
ATGTATCGATACAATGTATCGATACTGTGCATT
Found at i:2489851 original size:20 final size:20
Alignment explanation
Indices: 2489826--2489893 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
2489816 TATCGATACA
2489826 ATGTATCGATACTGTGCATT
1 ATGTATCGATACTGTGCATT
2489846 ATGTATCGATA-----CA--
1 ATGTATCGATACTGTGCATT
2489859 ATGTATCGATACTGTGCATT
1 ATGTATCGATACTGTGCATT
2489879 ATGTATCGATACTGT
1 ATGTATCGATACTGT
2489894 TGAAGGTGTA
Statistics
Matches: 41, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
13 11 0.27
15 2 0.05
18 2 0.05
20 26 0.63
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACTGTGCATT
Found at i:2493465 original size:298 final size:297
Alignment explanation
Indices: 2492918--2493516 Score: 1180
Period size: 298 Copynumber: 2.0 Consensus size: 297
2492908 ATGGGAAGCT
2492918 AAGGTGACCGCAATCGAAGAGTCCAAGGATCCCAACATCTTATCCTTGGATGAGCTCATAGGTTC
1 AAGGTGACCGCAATCGAAGAGTCCAAGGATCCCAACATCTTATCCTTGGATGAGCTCATAGGTTC
2492983 GTTGTTAACCTATGAAATGAAGATCAAACATGCTCACGTACAAGAGCCACCGAGGAAGGCAAGTG
66 GTTGTTAACCTATGAAATGAAGATCAAACATGCTCACGTACAAGAGCCACCGAGGAAGGCAAGTG
2493048 TTGCTTTCAAGTCAACCATCAAGGACAAAGAAGATGATGAAGATGTTGATGAAGATGGTGACTCA
131 TTGCTTTCAAGTCAACCATCAAGGACAAAGAAGATGATGAAGATGTTGATGAAGATGGTGACTCA
2493113 GATGAAGAAATAGCAACGATGGCCAGAAGATTCAACAAATTCTTGAAGATGAGATCAAGAAGGCC
196 GATGAAGAAATAGCAACGATGGCCAGAAGATTCAACAAATTCTTGAAGATGAGATCAAGAAGGCC
2493178 ACAAAAGAAAGTTTTGCTCAAAGGAGAATCGAGCAAA
261 ACAAAAGAAAGTTTTGCTCAAAGGAGAATCGAGCAAA
2493215 AAGGTGACCGCAAATCGAAGAGTCCAAGGATCCCAACATCTTATCCTTGGATGAGCTCATAGGTT
1 AAGGTGACCGC-AATCGAAGAGTCCAAGGATCCCAACATCTTATCCTTGGATGAGCTCATAGGTT
2493280 CGTTGTTAACCTATGAAATGAAGATCAAACATGCTCACGTACAAGAGCCACCGAGGAAGGCAAGT
65 CGTTGTTAACCTATGAAATGAAGATCAAACATGCTCACGTACAAGAGCCACCGAGGAAGGCAAGT
*
2493345 GTTGCTTTCAAGTCAACCATCAAGGACGAAGAAGATGATGAAGATGTTGATGAAGATGGTGACTC
130 GTTGCTTTCAAGTCAACCATCAAGGACAAAGAAGATGATGAAGATGTTGATGAAGATGGTGACTC
2493410 AGATGAAGAAATAGCAACGATGGCCAGAAGATTCAACAAATTCTTGAAGATGAGATCAAGAAGGC
195 AGATGAAGAAATAGCAACGATGGCCAGAAGATTCAACAAATTCTTGAAGATGAGATCAAGAAGGC
2493475 CACAAAAGAAAGTTTTGCTCAAAGGAGAATCGAGCAAA
260 CACAAAAGAAAGTTTTGCTCAAAGGAGAATCGAGCAAA
2493513 AAGG
1 AAGG
2493517 ACAAAGAGCA
Statistics
Matches: 300, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
297 11 0.04
298 289 0.96
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.20
Consensus pattern (297 bp):
AAGGTGACCGCAATCGAAGAGTCCAAGGATCCCAACATCTTATCCTTGGATGAGCTCATAGGTTC
GTTGTTAACCTATGAAATGAAGATCAAACATGCTCACGTACAAGAGCCACCGAGGAAGGCAAGTG
TTGCTTTCAAGTCAACCATCAAGGACAAAGAAGATGATGAAGATGTTGATGAAGATGGTGACTCA
GATGAAGAAATAGCAACGATGGCCAGAAGATTCAACAAATTCTTGAAGATGAGATCAAGAAGGCC
ACAAAAGAAAGTTTTGCTCAAAGGAGAATCGAGCAAA
Found at i:2498142 original size:20 final size:20
Alignment explanation
Indices: 2498099--2498145 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
2498089 AAATCTTTTG
2498099 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
2498120 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
2498140 CAAAAT
1 CAAAAT
2498146 CAGCTTCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 6 0.26
21 9 0.39
22 8 0.35
ACGTcount: A:0.32, C:0.19, G:0.04, T:0.45
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:2500571 original size:13 final size:13
Alignment explanation
Indices: 2500553--2500578 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2500543 TACACTAAGT
2500553 ATGTATCGATACA
1 ATGTATCGATACA
2500566 ATGTATCGATACA
1 ATGTATCGATACA
2500579 TCAGAAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2502052 original size:9 final size:9
Alignment explanation
Indices: 2502038--2502074 Score: 56
Period size: 9 Copynumber: 3.9 Consensus size: 9
2502028 AATGAATTGA
2502038 TATTTTATT
1 TATTTTATT
2502047 TATTTTATT
1 TATTTTATT
2502056 TATTTTATTAT
1 TATTTTA-T-T
2502067 TATTTTAT
1 TATTTTAT
2502075 GAAAAGCACT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
9 16 0.62
10 2 0.08
11 8 0.31
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (9 bp):
TATTTTATT
Found at i:2502053 original size:5 final size:5
Alignment explanation
Indices: 2502038--2502074 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
2502028 AATGAATTGA
2502038 TATTT TA-TT TATTT TA-TT TATTT TATTAT TATTT TAT
1 TATTT TATTT TATTT TATTT TATTT TATT-T TATTT TAT
2502075 GAAAAGCACT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
4 8 0.28
5 16 0.55
6 5 0.17
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (5 bp):
TATTT
Found at i:2502560 original size:48 final size:48
Alignment explanation
Indices: 2502498--2502594 Score: 176
Period size: 48 Copynumber: 2.0 Consensus size: 48
2502488 CATATTTGTG
*
2502498 ATAAGGGTGAATAAAACTTTAAGGATAATAATACAAATGTACATCTTA
1 ATAAGGGTGAATAAAACTTTAAAGATAATAATACAAATGTACATCTTA
*
2502546 ATAAGGGTGAATAAAATTTTAAAGATAATAATACAAATGTACATCTTA
1 ATAAGGGTGAATAAAACTTTAAAGATAATAATACAAATGTACATCTTA
2502594 A
1 A
2502595 AGTCTATCTA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.49, C:0.07, G:0.13, T:0.30
Consensus pattern (48 bp):
ATAAGGGTGAATAAAACTTTAAAGATAATAATACAAATGTACATCTTA
Found at i:2504618 original size:36 final size:36
Alignment explanation
Indices: 2504577--2504649 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
2504567 ACTCACCCGA
2504577 AACTCCAATCCCTTGTGATGATGAAGAAGATGAGCC
1 AACTCCAATCCCTTGTGATGATGAAGAAGATGAGCC
* *
2504613 AACTCCAATCCCTTGTGGTGATGACGAAGATGAGCC
1 AACTCCAATCCCTTGTGATGATGAAGAAGATGAGCC
2504649 A
1 A
2504650 TATCCAGTGG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.22
Consensus pattern (36 bp):
AACTCCAATCCCTTGTGATGATGAAGAAGATGAGCC
Found at i:2505874 original size:29 final size:32
Alignment explanation
Indices: 2505806--2505882 Score: 81
Period size: 29 Copynumber: 2.5 Consensus size: 32
2505796 TAATATTAAA
*
2505806 ATATTAATTTTTATATGTTAATATAAATTTTG
1 ATATTAATTTTTATATGATAATATAAATTTTG
* *
2505838 TTAATAATTTTT-T-T-ATAATATTAAATTTT-
1 ATATTAATTTTTATATGATAATA-TAAATTTTG
*
2505867 ATATTAATTTGTATAT
1 ATATTAATTTTTATAT
2505883 TGAATAAGTT
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
29 14 0.39
30 10 0.28
31 2 0.06
32 10 0.28
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (32 bp):
ATATTAATTTTTATATGATAATATAAATTTTG
Found at i:2506403 original size:23 final size:22
Alignment explanation
Indices: 2506377--2506424 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
2506367 AAATTTATAA
2506377 AATAAAAAATAAAAATATTATTT
1 AATAAAAAATAAAAATATT-TTT
** *
2506400 AATATTAAATATAAATATTTTT
1 AATAAAAAATAAAAATATTTTT
2506422 AAT
1 AAT
2506425 TAATTTTACT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 6 0.27
23 16 0.73
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
AATAAAAAATAAAAATATTTTT
Found at i:2508224 original size:28 final size:29
Alignment explanation
Indices: 2508188--2508244 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 29
2508178 ACTTTAATTA
*
2508188 ATTATTTTATTATTTTA-TTATTGAATTTT
1 ATTATTTTATT-TTTAATTTATTGAATTTT
*
2508217 ATTA-TTTATTTTTAATTTATTGATTTTT
1 ATTATTTTATTTTTAATTTATTGAATTTT
2508245 GGATAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 4 0.16
28 17 0.68
29 4 0.16
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (29 bp):
ATTATTTTATTTTTAATTTATTGAATTTT
Found at i:2508242 original size:15 final size:13
Alignment explanation
Indices: 2508200--2508244 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
2508190 TATTTTATTA
*
2508200 TTTTATTATTGAA
1 TTTTATTATTGAT
*
2508213 TTTTATTATTTAT
1 TTTTATTATTGAT
2508226 TTTTAATTTATTGAT
1 TTTT-A-TTATTGAT
2508241 TTTT
1 TTTT
2508245 GGATAAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
13 15 0.56
14 1 0.04
15 11 0.41
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.71
Consensus pattern (13 bp):
TTTTATTATTGAT
Found at i:2509252 original size:28 final size:27
Alignment explanation
Indices: 2509220--2509333 Score: 70
Period size: 29 Copynumber: 3.9 Consensus size: 27
2509210 TTACTGTGAG
**
2509220 TTAATTTTTAATACATAAGT-AAAAGTTT
1 TTAATTTTTAATA-A-AAGTAAAAAAATT
*
2509248 TTAATTTTATAAATAAAATTAAAAAAATT
1 TTAATTTT-T-AATAAAAGTAAAAAAATT
*
2509277 TTAATTTTTAATATATTAA-TAATAAAATTTT
1 TTAATTTTTAATA-A--AAGTAA-AAAA-ATT
*
2509308 TTAATTTTATAAATAAAATTAAAAAA
1 TTAATTTT-T-AATAAAAGTAAAAAA
2509334 TTATTACATC
Statistics
Matches: 71, Mismatches: 4, Indels: 20
0.75 0.04 0.21
Matches are distributed among these distances:
27 4 0.06
28 13 0.18
29 19 0.27
30 16 0.23
31 13 0.18
32 2 0.03
33 4 0.06
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.46
Consensus pattern (27 bp):
TTAATTTTTAATAAAAGTAAAAAAATT
Found at i:2509282 original size:29 final size:30
Alignment explanation
Indices: 2509246--2509334 Score: 112
Period size: 29 Copynumber: 3.0 Consensus size: 30
2509236 AAGTAAAAGT
2509246 TTTTAATTTTATAAATAAAATTAAAAAA-A
1 TTTTAATTTTATAAATAAAATTAAAAAATA
* *
2509275 TTTTAATTTT-TAATATATTAA-TAATAAAATT
1 TTTTAATTTTATAA-ATA-AAATTAA-AAAATA
2509306 TTTTAATTTTATAAATAAAATTAAAAAAT
1 TTTTAATTTTATAAATAAAATTAAAAAAT
2509335 TATTACATCT
Statistics
Matches: 51, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
28 3 0.06
29 16 0.31
30 13 0.25
31 16 0.31
32 3 0.06
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (30 bp):
TTTTAATTTTATAAATAAAATTAAAAAATA
Found at i:2509313 original size:31 final size:29
Alignment explanation
Indices: 2509234--2509335 Score: 102
Period size: 29 Copynumber: 3.4 Consensus size: 29
2509224 TTTTTAATAC
2509234 ATAAGTAAAAGTTTTTAATTTTATAAATAAA
1 ATAA-TAAAA-TTTTTAATTTTATAAATAAA
* *
2509265 ATTAA-AAAAATTTTAATTTT-TAATATATTA
1 A-TAATAAAATTTTTAATTTTATAA-ATA-AA
2509295 ATAATAAAATTTTTTAATTTTATAAATAAA
1 ATAATAAAA-TTTTTAATTTTATAAATAAA
2509325 ATTAA-AAAATT
1 A-TAATAAAATT
2509336 ATTACATCTT
Statistics
Matches: 60, Mismatches: 4, Indels: 16
0.75 0.05 0.20
Matches are distributed among these distances:
28 3 0.05
29 18 0.30
30 16 0.27
31 17 0.28
32 6 0.10
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (29 bp):
ATAATAAAATTTTTAATTTTATAAATAAA
Found at i:2511081 original size:45 final size:45
Alignment explanation
Indices: 2511025--2511117 Score: 186
Period size: 45 Copynumber: 2.1 Consensus size: 45
2511015 CAATTTAAAG
2511025 AAGAAAGTATTTGGGCAAATAGTATATATACCATGGGATAAAGGA
1 AAGAAAGTATTTGGGCAAATAGTATATATACCATGGGATAAAGGA
2511070 AAGAAAGTATTTGGGCAAATAGTATATATACCATGGGATAAAGGA
1 AAGAAAGTATTTGGGCAAATAGTATATATACCATGGGATAAAGGA
2511115 AAG
1 AAG
2511118 CAATGAAATT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.45, C:0.06, G:0.25, T:0.24
Consensus pattern (45 bp):
AAGAAAGTATTTGGGCAAATAGTATATATACCATGGGATAAAGGA
Found at i:2515792 original size:31 final size:31
Alignment explanation
Indices: 2515757--2515830 Score: 112
Period size: 31 Copynumber: 2.4 Consensus size: 31
2515747 AAAATCATCC
* * * *
2515757 AAAATCAAAATTGAATGATAAAATTTAATTA
1 AAAATAAAAATTAAATGAAAAAATTTAATCA
2515788 AAAATAAAAATTAAATGAAAAAATTTAATCA
1 AAAATAAAAATTAAATGAAAAAATTTAATCA
2515819 AAAATAAAAATT
1 AAAATAAAAATT
2515831 TAATATACTC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.65, C:0.03, G:0.04, T:0.28
Consensus pattern (31 bp):
AAAATAAAAATTAAATGAAAAAATTTAATCA
Found at i:2515797 original size:18 final size:17
Alignment explanation
Indices: 2515776--2515835 Score: 56
Period size: 18 Copynumber: 3.6 Consensus size: 17
2515766 ATTGAATGAT
2515776 AAAATTTAATTAAAAATA
1 AAAATTTAA-TAAAAATA
**
2515794 AAAA-TT-A-AATGA-A
1 AAAATTTAATAAAAATA
2515807 AAAATTTAATCAAAAATA
1 AAAATTTAAT-AAAAATA
2515825 AAAATTTAATA
1 AAAATTTAATA
2515836 TACTCTTATT
Statistics
Matches: 33, Mismatches: 4, Indels: 11
0.69 0.08 0.23
Matches are distributed among these distances:
13 5 0.15
14 5 0.15
15 1 0.03
16 1 0.03
17 6 0.18
18 15 0.45
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (17 bp):
AAAATTTAATAAAAATA
Found at i:2516635 original size:27 final size:27
Alignment explanation
Indices: 2516602--2516661 Score: 120
Period size: 27 Copynumber: 2.2 Consensus size: 27
2516592 TTTTTGAACT
2516602 TAAAATTTTAAATACATCAAATAAATA
1 TAAAATTTTAAATACATCAAATAAATA
2516629 TAAAATTTTAAATACATCAAATAAATA
1 TAAAATTTTAAATACATCAAATAAATA
2516656 TAAAAT
1 TAAAAT
2516662 ATTGTATTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (27 bp):
TAAAATTTTAAATACATCAAATAAATA
Found at i:2516776 original size:25 final size:25
Alignment explanation
Indices: 2516748--2516796 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
2516738 AAACTTCAAA
2516748 GATAGAAGAGAAGGGGCAAAGGCAT
1 GATAGAAGAGAAGGGGCAAAGGCAT
2516773 GATAGAAGAGAAGGGGCAAAGGCA
1 GATAGAAGAGAAGGGGCAAAGGCA
2516797 AAGGCAAGGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.45, C:0.08, G:0.41, T:0.06
Consensus pattern (25 bp):
GATAGAAGAGAAGGGGCAAAGGCAT
Found at i:2517776 original size:5 final size:5
Alignment explanation
Indices: 2517755--2517794 Score: 64
Period size: 5 Copynumber: 8.0 Consensus size: 5
2517745 TTGCAAAATT
2517755 TAAAA TATAAA -AAAA TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TA-AAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
2517795 ATTTTGTACC
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 3 0.09
5 27 0.82
6 3 0.09
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:2519268 original size:2 final size:2
Alignment explanation
Indices: 2519261--2519288 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2519251 TTACTGGAAA
2519261 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2519289 TCAAACTTGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2520083 original size:29 final size:30
Alignment explanation
Indices: 2520050--2520106 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 30
2520040 ATTTTACTTT
2520050 ATACTAACTATAATAATTT-ATACAAAAAA
1 ATACTAACTATAATAATTTAATACAAAAAA
* *
2520079 ATACTAACTATAGTGATTTAATACAAAA
1 ATACTAACTATAATAATTTAATACAAAA
2520107 TTTGTAGTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 17 0.68
30 8 0.32
ACGTcount: A:0.54, C:0.11, G:0.04, T:0.32
Consensus pattern (30 bp):
ATACTAACTATAATAATTTAATACAAAAAA
Found at i:2525424 original size:52 final size:52
Alignment explanation
Indices: 2525339--2525463 Score: 223
Period size: 52 Copynumber: 2.4 Consensus size: 52
2525329 ATATGAAAAG
* *
2525339 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
*
2525391 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
2525443 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
2525464 AAGATCAGTG
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
Found at i:2525476 original size:52 final size:51
Alignment explanation
Indices: 2525339--2525483 Score: 211
Period size: 52 Copynumber: 2.8 Consensus size: 51
2525329 ATATGAAAAG
*
2525339 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
* *
2525391 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
*
2525443 TTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
2525484 ATGTATCGAT
Statistics
Matches: 85, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
51 2 0.02
52 83 0.98
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAAT
Found at i:2525490 original size:13 final size:13
Alignment explanation
Indices: 2525472--2525496 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2525462 CAAAGATCAG
2525472 TGTATCGATACAA
1 TGTATCGATACAA
2525485 TGTATCGATACA
1 TGTATCGATACA
2525497 TGTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2525579 original size:13 final size:13
Alignment explanation
Indices: 2525561--2525585 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2525551 CAAAAAAATA
2525561 TGTATCGATACAT
1 TGTATCGATACAT
2525574 TGTATCGATACA
1 TGTATCGATACA
2525586 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2525581 original size:33 final size:33
Alignment explanation
Indices: 2525539--2525605 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2525529 AGTAGCTTAA
2525539 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
2525572 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
2525605 A
1 A
2525606 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:2529598 original size:28 final size:25
Alignment explanation
Indices: 2529562--2529614 Score: 61
Period size: 28 Copynumber: 2.0 Consensus size: 25
2529552 TATCATATGG
*
2529562 TAAATTTGAGAATTAATTTATATTAAA
1 TAAATTTGAGAAATAA-TTA-ATTAAA
*
2529589 TAAATATTGATAAATAATTAATTAAA
1 TAAAT-TTGAGAAATAATTAATTAAA
2529615 ATATATAATC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 6 0.26
27 8 0.35
28 9 0.39
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.42
Consensus pattern (25 bp):
TAAATTTGAGAAATAATTAATTAAA
Found at i:2532193 original size:32 final size:33
Alignment explanation
Indices: 2532129--2532194 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2532119 GATACAAGCC
*
2532129 ATAAAGTATCGATACATATTGCTTTGTATCGAT
1 ATAAAGTATCGATACATATTGCATTGTATCGAT
* *
2532162 ATAATGTATCGATACATGTT-CATTGTATCGAT
1 ATAAAGTATCGATACATATTGCATTGTATCGAT
2532194 A
1 A
2532195 CATAAAGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 12 0.40
33 18 0.60
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.39
Consensus pattern (33 bp):
ATAAAGTATCGATACATATTGCATTGTATCGAT
Found at i:2532282 original size:13 final size:13
Alignment explanation
Indices: 2532264--2532290 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2532254 GATACATGAG
2532264 ACATTGTATCGAT
1 ACATTGTATCGAT
2532277 ACATTGTATCGAT
1 ACATTGTATCGAT
2532290 A
1 A
2532291 TATAGTAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (13 bp):
ACATTGTATCGAT
Found at i:2532289 original size:33 final size:33
Alignment explanation
Indices: 2532247--2532316 Score: 88
Period size: 33 Copynumber: 2.1 Consensus size: 33
2532237 TTACCACTGT
* **
2532247 TTGTATCGATACATGAG-ACATTGTATCGATACA
1 TTGTATCGATACAT-AGTAAAAAGTATCGATACA
*
2532280 TTGTATCGATATATAGTAAAAAGTATCGATACA
1 TTGTATCGATACATAGTAAAAAGTATCGATACA
2532313 TTGT
1 TTGT
2532317 GCCCAATGGC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 2 0.06
33 30 0.94
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.36
Consensus pattern (33 bp):
TTGTATCGATACATAGTAAAAAGTATCGATACA
Done.