Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 305 of 444
Found at i:87825449 original size:39 final size:40
Alignment explanation
Indices: 87825402--87825499 Score: 139
Period size: 39 Copynumber: 2.5 Consensus size: 40
87825392 GGACTAGGAT
*
87825402 CCGAAGGCATTCGTGCGAGTTAATAAATCC-GGTCTAAG-C
1 CCGAAGGCATTCGTGCGAGTTAATAAACCCGGGT-TAAGTC
* *
87825441 CCGAAGGCATT-GTGCAAGTTACTAAACCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTAATAAACCCGGGTTAAGTC
87825480 CCGAAGGCATTCGTGCGAGT
1 CCGAAGGCATTCGTGCGAGT
87825500 CGCTATAACC
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
38 19 0.37
39 26 0.50
40 7 0.13
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.22
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTAATAAACCCGGGTTAAGTC
Found at i:87825494 original size:78 final size:80
Alignment explanation
Indices: 87825349--87825530 Score: 201
Period size: 78 Copynumber: 2.3 Consensus size: 80
87825339 TCGAATGATG
* * * *
87825349 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
87825414 GTGCGAGTTAATAAA
66 GTGCGAGTTAATAAA
* * **
87825429 TCCGGTCTAAG-CCCGAAGGCATTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATT
***
87825491 CGTGCGAGTCGCTATAA
65 CGTGCGAGTTAATA-AA
**
87825508 -CCGGGCTTCGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
87825531 TGAGCGAGTC
Statistics
Matches: 85, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
77 1 0.01
78 45 0.53
79 29 0.34
80 10 0.12
ACGTcount: A:0.24, C:0.25, G:0.27, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
GTGCGAGTTAATAAA
Found at i:87833462 original size:39 final size:40
Alignment explanation
Indices: 87833362--87833543 Score: 176
Period size: 40 Copynumber: 4.6 Consensus size: 40
87833352 TCGAATGATG
* * *
87833362 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-AAGTTACTAAA
* * * *
87833402 TCCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTCGTGCAAGTTACTAAA
87833442 TCCGGGCTAAG-CCCGAAGGCATT-GTGCAAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAA
* * * **
87833480 CCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCGCTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTA-AA
**
87833521 -CCGGGCTTCGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
87833544 TGAGCGAGTC
Statistics
Matches: 117, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
38 22 0.19
39 23 0.20
40 63 0.54
41 9 0.08
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.23
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAA
Found at i:87833507 original size:78 final size:80
Alignment explanation
Indices: 87833362--87833543 Score: 210
Period size: 78 Copynumber: 2.3 Consensus size: 80
87833352 TCGAATGATG
* * * *
87833362 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
87833427 GTGCGAGTTAATAAA
66 GTGCGAGTTAATAAA
* **
87833442 TCCGGGCTAAG-CCCGAAGGCATTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATT
***
87833504 CGTGCGAGTCGCTATAA
65 CGTGCGAGTTAATA-AA
**
87833521 -CCGGGCTTCGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
87833544 TGAGCGAGTC
Statistics
Matches: 87, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
77 1 0.01
78 46 0.53
79 29 0.33
80 11 0.13
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.23
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
GTGCGAGTTAATAAA
Found at i:87835689 original size:28 final size:29
Alignment explanation
Indices: 87835655--87835717 Score: 101
Period size: 28 Copynumber: 2.2 Consensus size: 29
87835645 GATGTTTAAG
87835655 TACTTAAATCATAGTTGAATGGTAAG-TT
1 TACTTAAATCATAGTTGAATGGTAAGTTT
**
87835683 TACTTAAATTGTAGTTGAATGGTAAGTTT
1 TACTTAAATCATAGTTGAATGGTAAGTTT
87835712 TACTTA
1 TACTTA
87835718 TTAAGCATAC
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 24 0.75
29 8 0.25
ACGTcount: A:0.33, C:0.06, G:0.17, T:0.43
Consensus pattern (29 bp):
TACTTAAATCATAGTTGAATGGTAAGTTT
Found at i:87853716 original size:40 final size:39
Alignment explanation
Indices: 87853551--87853734 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
87853541 AAATTGAATG
* * *
87853551 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
87853591 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
87853631 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
87853671 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
87853710 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
87853735 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:87853759 original size:80 final size:81
Alignment explanation
Indices: 87853591--87853779 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
87853581 GCTGGAAATT
* * * *
87853591 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
87853656 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
87853672 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
87853735 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
87853751 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
87853780 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:87861835 original size:40 final size:39
Alignment explanation
Indices: 87861670--87861853 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
87861660 AAATTGAATG
* * *
87861670 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
87861710 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
87861750 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
87861790 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
87861829 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
87861854 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:87861878 original size:80 final size:81
Alignment explanation
Indices: 87861710--87861898 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
87861700 GCTGGAAATT
* * * *
87861710 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
87861775 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
87861791 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
87861854 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
87861870 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
87861899 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:87864299 original size:6 final size:6
Alignment explanation
Indices: 87864290--87864347 Score: 64
Period size: 6 Copynumber: 9.5 Consensus size: 6
87864280 AATTAGGTGA
* *
87864290 CAGAAT CAGAAT CAGAAT CAGTAT CAGGTAA- CAGAAT CAAAAT CAGAAT
1 CAGAAT CAGAAT CAGAAT CAGAAT CA-G-AAT CAGAAT CAGAAT CAGAAT
*
87864339 CAGTAT CAG
1 CAGAAT CAG
87864348 GTAACAGAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
5 2 0.05
6 38 0.86
7 3 0.07
8 1 0.02
ACGTcount: A:0.47, C:0.17, G:0.17, T:0.19
Consensus pattern (6 bp):
CAGAAT
Found at i:87864301 original size:31 final size:31
Alignment explanation
Indices: 87864268--87864370 Score: 134
Period size: 31 Copynumber: 3.3 Consensus size: 31
87864258 ATAGAATAAG
** * * *
87864268 AATCAAAATCAAAATTAGGTGACAGAATCAG
1 AATCAAAATCAGTATCAGGTAACAGAATCAA
*
87864299 AATCAGAATCAGTATCAGGTAACAGAATCAA
1 AATCAAAATCAGTATCAGGTAACAGAATCAA
*
87864330 AATCAGAATCAGTATCAGGTAACAGAATCAAA
1 AATCAAAATCAGTATCAGGTAACAGAATC-AA
87864362 AATCAAAAT
1 AATCAAAAT
87864371 GTGAATGCAA
Statistics
Matches: 64, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
31 54 0.84
32 10 0.16
ACGTcount: A:0.51, C:0.15, G:0.15, T:0.19
Consensus pattern (31 bp):
AATCAAAATCAGTATCAGGTAACAGAATCAA
Found at i:87864326 original size:19 final size:19
Alignment explanation
Indices: 87864302--87864359 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
87864292 GAATCAGAAT
87864302 CAGAATCAGTATCAGGTAA
1 CAGAATCAGTATCAGGTAA
*
87864321 CAGAATCA--A--A---AT
1 CAGAATCAGTATCAGGTAA
87864333 CAGAATCAGTATCAGGTAA
1 CAGAATCAGTATCAGGTAA
87864352 CAGAATCA
1 CAGAATCA
87864360 AAAATCAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 14
0.65 0.04 0.30
Matches are distributed among these distances:
12 9 0.30
14 1 0.03
15 1 0.03
16 1 0.03
17 1 0.03
19 17 0.57
ACGTcount: A:0.47, C:0.17, G:0.17, T:0.19
Consensus pattern (19 bp):
CAGAATCAGTATCAGGTAA
Found at i:87864549 original size:27 final size:26
Alignment explanation
Indices: 87864507--87864608 Score: 123
Period size: 27 Copynumber: 3.8 Consensus size: 26
87864497 GCTCAGTTAT
* *
87864507 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
87864534 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
*
87864560 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAG-AA
* * *
87864588 TAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
87864609 TTAATAGAAT
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
26 7 0.10
27 53 0.79
28 7 0.10
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.20
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:87864795 original size:22 final size:22
Alignment explanation
Indices: 87864767--87864831 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
87864757 GCAAATACGT
*
87864767 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
87864789 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
87864811 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
87864832 AAGGCTTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:87865313 original size:27 final size:27
Alignment explanation
Indices: 87865274--87865849 Score: 725
Period size: 27 Copynumber: 21.6 Consensus size: 27
87865264 TACCACACAA
* * *
87865274 GGTATCTCGGTAATTCCACCCTATAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
** *
87865301 GGTATTTTAGTAATTCTACGCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
87865328 GGTAATTCGTTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* * *
87865355 GGTATTGCGATAATTCTACCCTACAAG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
87865382 GGTATTTCGGTAATTCTACCCTACAAG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
87865409 GTTATTTCGGTAATTGTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
87865436 GTTATTTCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
87865463 GGTATTGCGATAATTCTACCCTACA-G
1 GGTATTTCGGTAATTCTACCCTACAGG
*
87865489 GGTATTTCGGTGATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
87865516 GGTATTCCGGTAATTCTACCCTACTGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* **
87865543 GGTA-TTCTGGTAATTCTACCTTATTGG
1 GGTATTTC-GGTAATTCTACCCTACAGG
*
87865570 GGTATTTCGGTAATTCTACTCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
87865597 GGTATTGCGATAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
87865624 GGTATTTCGGTAATTCTACCCTACAAG
1 GGTATTTCGGTAATTCTACCCTACAGG
* **
87865651 GGTATTGCAATAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
**
87865678 GGTATTTCGGTAATTCTACCCTACAAA
1 GGTATTTCGGTAATTCTACCCTACAGG
87865705 GGTATTTCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
87865732 GGTATTTCGATAA-T-T---CTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* * *
87865754 GGTATTCCGGTAATTCTATCCTACAAG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
87865781 GGTATTCCGGTAATTCTGCCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
87865808 GGTATTCCGGTAGTTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
87865835 GGTATTCCGGTAATT
1 GGTATTTCGGTAATT
87865850 TTATAAATAA
Statistics
Matches: 477, Mismatches: 64, Indels: 16
0.86 0.11 0.03
Matches are distributed among these distances:
22 18 0.04
23 1 0.00
24 1 0.00
25 1 0.00
26 26 0.05
27 427 0.90
28 3 0.01
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (27 bp):
GGTATTTCGGTAATTCTACCCTACAGG
Found at i:87866019 original size:54 final size:54
Alignment explanation
Indices: 87865832--87866012 Score: 281
Period size: 54 Copynumber: 3.4 Consensus size: 54
87865822 TCTACCCTAC
** *
87865832 AGGGGTATTCCGGTAATTTTATAAATAAAGGGTATTTTAGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACT
* * * *
87865886 AGGGGTATTTTGGTAATTTTGTAAACTAAGGGTATTTTGGTAATTTTACAAACC
1 AGGGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACT
* *
87865940 AGGGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACT
87865994 AGGGGTATTTTGGTAATTT
1 AGGGGTATTTTGGTAATTT
87866013 GGTAAACTAA
Statistics
Matches: 114, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 114 1.00
ACGTcount: A:0.31, C:0.07, G:0.22, T:0.41
Consensus pattern (54 bp):
AGGGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACT
Found at i:87866021 original size:27 final size:27
Alignment explanation
Indices: 87865832--87866012 Score: 220
Period size: 27 Copynumber: 6.7 Consensus size: 27
87865822 TCTACCCTAC
** *
87865832 AGGGGTATTCCGGTAATTTTATAAA-T
1 AGGGGTATTTTGGTAATTTTACAAACT
* *
87865858 AAAGGGTATTTTAGTAATTTTACAAACT
1 -AGGGGTATTTTGGTAATTTTACAAACT
**
87865886 AGGGGTATTTTGGTAATTTTGTAAACT
1 AGGGGTATTTTGGTAATTTTACAAACT
* *
87865913 AAGGGTATTTTGGTAATTTTACAAACC
1 AGGGGTATTTTGGTAATTTTACAAACT
* * *
87865940 AGGGGTATTTTGGTGATTTTATAAACC
1 AGGGGTATTTTGGTAATTTTACAAACT
* *
87865967 AAGGGTATTTTAGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACT
87865994 AGGGGTATTTTGGTAATTT
1 AGGGGTATTTTGGTAATTT
87866013 GGTAAACTAA
Statistics
Matches: 130, Mismatches: 23, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
27 129 0.99
28 1 0.01
ACGTcount: A:0.31, C:0.07, G:0.22, T:0.41
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTTTACAAACT
Found at i:87867961 original size:6 final size:6
Alignment explanation
Indices: 87867945--87868033 Score: 63
Period size: 6 Copynumber: 14.5 Consensus size: 6
87867935 TAACCCATTA
* * **
87867945 CAGAAT AAGAAT CAGAAT CAGAAT TAGGTT ACAGAAT CAGAAT CAGAAT
1 CAGAAT CAGAAT CAGAAT CAGAAT CAGAAT -CAGAAT CAGAAT CAGAAT
* * * * *
87867994 TAGTAT CAGGTAA- CAGAAT CAAAAT CAGAAC CAGTAT CAG
1 CAGAAT CA-G-AAT CAGAAT CAGAAT CAGAAT CAGAAT CAG
87868034 GTAACAAAAT
Statistics
Matches: 62, Mismatches: 17, Indels: 8
0.71 0.20 0.09
Matches are distributed among these distances:
5 2 0.03
6 53 0.85
7 6 0.10
8 1 0.02
ACGTcount: A:0.47, C:0.15, G:0.18, T:0.20
Consensus pattern (6 bp):
CAGAAT
Found at i:87868036 original size:31 final size:31
Alignment explanation
Indices: 87867944--87868056 Score: 138
Period size: 31 Copynumber: 3.6 Consensus size: 31
87867934 TTAACCCATT
* * *
87867944 ACAGAAT-AAGAATCAGAATCAGAATTAGGTT
1 ACAGAATCAA-AATCAGAATCAGTATCAGGTA
* *
87867975 ACAGAATCAGAATCAGAATTAGTATCAGGTA
1 ACAGAATCAAAATCAGAATCAGTATCAGGTA
*
87868006 ACAGAATCAAAATCAGAACCAGTATCAGGTA
1 ACAGAATCAAAATCAGAATCAGTATCAGGTA
*
87868037 ACAAAATCGAAAATCAGAAT
1 ACAGAATC-AAAATCAGAAT
87868057 GTGAATGCAA
Statistics
Matches: 70, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
31 59 0.84
32 11 0.16
ACGTcount: A:0.50, C:0.14, G:0.17, T:0.19
Consensus pattern (31 bp):
ACAGAATCAAAATCAGAATCAGTATCAGGTA
Found at i:87868235 original size:27 final size:26
Alignment explanation
Indices: 87868193--87868294 Score: 132
Period size: 27 Copynumber: 3.8 Consensus size: 26
87868183 GCTCAGTTAT
* *
87868193 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
87868220 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
*
87868246 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAG-AA
* *
87868274 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
87868295 TTAACAGAAT
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
26 7 0.10
27 53 0.78
28 8 0.12
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.19
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:87868481 original size:22 final size:22
Alignment explanation
Indices: 87868453--87868517 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
87868443 GCAAATACGT
*
87868453 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
87868475 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
87868497 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
87868518 AAGGCTTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:87868963 original size:27 final size:27
Alignment explanation
Indices: 87868901--87868963 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 27
87868891 TAGTCACTTG
*
87868901 CCCACAAGGGCAAAACAGTCATTTAAC
1 CCCACAAGGGCAAAACAGTAATTTAAC
* ** ** *
87868928 ACCTTAAGGGCAAAATGGTAATTTTAC
1 CCCACAAGGGCAAAACAGTAATTTAAC
87868955 CCCACAAGG
1 CCCACAAGG
87868964 CATCTCGGTA
Statistics
Matches: 26, Mismatches: 10, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.38, C:0.25, G:0.17, T:0.19
Consensus pattern (27 bp):
CCCACAAGGGCAAAACAGTAATTTAAC
Found at i:87869448 original size:27 final size:27
Alignment explanation
Indices: 87868969--87869454 Score: 603
Period size: 27 Copynumber: 18.0 Consensus size: 27
87868959 CAAGGCATCT
* * *
87868969 CGGTAATTCCACCCTACAGGGTTATTT
1 CGGTAATTCTACCCTACAGGGGTATTC
** *
87868996 TAGTAATTCTACCCTACAGGGGTATTT
1 CGGTAATTCTACCCTACAGGGGTATTC
* *
87869023 CAGTAATTCTACCCTACAGGGGTATTG
1 CGGTAATTCTACCCTACAGGGGTATTC
* *
87869050 CGATAATTCTACCCTACAGGGGTATTT
1 CGGTAATTCTACCCTACAGGGGTATTC
*
87869077 CGGTAATTCTACCCTACAGGGGTATTT
1 CGGTAATTCTACCCTACAGGGGTATTC
*
87869104 CGGTAATTCTACCCTACAGGGGTATTG
1 CGGTAATTCTACCCTACAGGGGTATTC
* *
87869131 CGATAATTCTACCCTACAGGGGTATTT
1 CGGTAATTCTACCCTACAGGGGTATTC
* *
87869158 CTGTAATTCTACCCTACAGGGGTATTT
1 CGGTAATTCTACCCTACAGGGGTATTC
** *
87869185 AAGTAATTCTACCCTACAAGGGTATTC
1 CGGTAATTCTACCCTACAGGGGTATTC
* * *
87869212 TGGTAATTCTACCCTACAGGGATATTT
1 CGGTAATTCTACCCTACAGGGGTATTC
* *
87869239 TGGTAATTCTACCCTACAGGGGTATTG
1 CGGTAATTCTACCCTACAGGGGTATTC
* *
87869266 CGATAATTCTACCCTACAGGGGTATTT
1 CGGTAATTCTACCCTACAGGGGTATTC
*
87869293 CGGTAATTCTACCCTACAGGGGTATTT
1 CGGTAATTCTACCCTACAGGGGTATTC
** * *
87869320 TAGTAATTCTACGCTATAGGGGTATTC
1 CGGTAATTCTACCCTACAGGGGTATTC
* * *
87869347 TGGTAATTCTACCCTACAAGGATATTC
1 CGGTAATTCTACCCTACAGGGGTATTC
* * *
87869374 CGATAATTCTATCCTACAAGGGTATTC
1 CGGTAATTCTACCCTACAGGGGTATTC
87869401 CGGTAATTCTACCCTACAGGGGTATTC
1 CGGTAATTCTACCCTACAGGGGTATTC
* * **
87869428 CGTTAATTCTACCTTTTAGGGGTATTC
1 CGGTAATTCTACCCTACAGGGGTATTC
87869455 TGATAATTTT
Statistics
Matches: 408, Mismatches: 51, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 408 1.00
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (27 bp):
CGGTAATTCTACCCTACAGGGGTATTC
Found at i:87869631 original size:27 final size:27
Alignment explanation
Indices: 87869447--87869624 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
87869437 TACCTTTTAG
* * *
87869447 GGGTATTCTGATAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTATAAACCAA
* * *
87869474 GGGTATTTTAGTAATTTTACAAA-CTA
1 GGGTATTTTGGTAATTTTATAAACCAA
*
87869500 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
* * * *
87869527 GGGTAGTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAA
*
87869554 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
* * *
87869581 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAA
87869608 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
87869625 GGTAAACTAA
Statistics
Matches: 125, Mismatches: 25, Indels: 2
0.82 0.16 0.01
Matches are distributed among these distances:
26 21 0.17
27 104 0.83
ACGTcount: A:0.31, C:0.07, G:0.21, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATAAACCAA
Found at i:87869631 original size:54 final size:54
Alignment explanation
Indices: 87869444--87869624 Score: 283
Period size: 54 Copynumber: 3.4 Consensus size: 54
87869434 TTCTACCTTT
* * *
87869444 TAGGGGTATTCTGATAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAAC
1 TAGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAAC
* * *
87869498 TA-GGGTATTTTGGTAATTTTGTAAACCAAGGGTAGTTTGGTAATTTTACAAAC
1 TAGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAAC
*
87869551 TAGGGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAAC
1 TAGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAAC
*
87869605 CAGGGGTATTTTGGTAATTT
1 TAGGGGTATTTTGGTAATTT
87869625 GGTAAACTAA
Statistics
Matches: 114, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
53 47 0.41
54 67 0.59
ACGTcount: A:0.31, C:0.07, G:0.21, T:0.40
Consensus pattern (54 bp):
TAGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAAC
Found at i:87874518 original size:40 final size:40
Alignment explanation
Indices: 87874472--87874625 Score: 240
Period size: 40 Copynumber: 3.9 Consensus size: 40
87874462 ACTAAGATCT
* *
87874472 GAAGGCATTTGTGCTAGTGATTATATCCAGGCTAAGTCCC
1 GAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCC
87874512 GAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCC
1 GAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCC
*
87874552 GAAGGCATTTGTGCTAGTGACTATGTCCGGGCTAAGTCCC
1 GAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCC
* *
87874592 GAAGGCATTCGTGCGAGTTG-CTATATCC-GGCTAA
1 GAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAA
87874626 ATTTCGAAGG
Statistics
Matches: 107, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
39 6 0.06
40 99 0.93
41 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (40 bp):
GAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCC
Found at i:87878444 original size:37 final size:37
Alignment explanation
Indices: 87878402--87878510 Score: 110
Period size: 37 Copynumber: 3.2 Consensus size: 37
87878392 AGTATTTATG
87878402 GATTTGATGAATCTGATCTTCAGACCGTATTTGGATC
1 GATTTGATGAATCTGATCTTCAGACCGTATTTGGATC
* * * *
87878439 GATTTG-T-AGTCGTG-T-TT-ATA--GTAATT--ATG
1 GATTTGATGAATC-TGATCTTCAGACCGTATTTGGATC
87878468 GATTTGATGAATCTGATCTTCAGACCGTATTTGGATC
1 GATTTGATGAATCTGATCTTCAGACCGTATTTGGATC
87878505 GATTTG
1 GATTTG
87878511 TAGTCGTGTT
Statistics
Matches: 54, Mismatches: 8, Indels: 20
0.66 0.10 0.24
Matches are distributed among these distances:
29 8 0.15
30 3 0.06
31 9 0.17
32 2 0.04
33 4 0.07
34 2 0.04
35 9 0.17
36 3 0.06
37 14 0.26
ACGTcount: A:0.24, C:0.12, G:0.23, T:0.41
Consensus pattern (37 bp):
GATTTGATGAATCTGATCTTCAGACCGTATTTGGATC
Found at i:87878474 original size:66 final size:66
Alignment explanation
Indices: 87878391--87878523 Score: 257
Period size: 66 Copynumber: 2.0 Consensus size: 66
87878381 AATGCCCCGG
*
87878391 TAGTATTTATGGATTTGATGAATCTGATCTTCAGACCGTATTTGGATCGATTTGTAGTCGTGTTT
1 TAGTAATTATGGATTTGATGAATCTGATCTTCAGACCGTATTTGGATCGATTTGTAGTCGTGTTT
87878456 A
66 A
87878457 TAGTAATTATGGATTTGATGAATCTGATCTTCAGACCGTATTTGGATCGATTTGTAGTCGTGTTT
1 TAGTAATTATGGATTTGATGAATCTGATCTTCAGACCGTATTTGGATCGATTTGTAGTCGTGTTT
87878522 A
66 A
87878523 T
1 T
87878524 CGATGATATC
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
66 66 1.00
ACGTcount: A:0.23, C:0.11, G:0.23, T:0.44
Consensus pattern (66 bp):
TAGTAATTATGGATTTGATGAATCTGATCTTCAGACCGTATTTGGATCGATTTGTAGTCGTGTTT
A
Found at i:87885333 original size:40 final size:39
Alignment explanation
Indices: 87885168--87885351 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
87885158 AAATTGAATG
* * *
87885168 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
87885208 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
87885248 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
87885288 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
87885327 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
87885352 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:87885376 original size:80 final size:81
Alignment explanation
Indices: 87885208--87885396 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
87885198 GCTGGAAATT
* * * *
87885208 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
87885273 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
87885289 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
87885352 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
87885368 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
87885397 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:87894211 original size:29 final size:28
Alignment explanation
Indices: 87894109--87894212 Score: 136
Period size: 29 Copynumber: 3.6 Consensus size: 28
87894099 GTGACAAGAT
*
87894109 TGGCACTAAGTGTGCAAGCTTGAAATATA
1 TGGCACTAAGTGTGCGAGCTT-AAATATA
* *
87894138 TGGCACTAAGTGTGCGAACTTAAATTGTA
1 TGGCACTAAGTGTGCGAGCTTAAA-TATA
* *
87894167 TGGCACTATGTGTGCGAGCTTAAATCACA
1 TGGCACTAAGTGTGCGAGCTTAAAT-ATA
87894196 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
87894213 AATCGATTAT
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
28 4 0.06
29 61 0.94
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTAAATATA
Found at i:87897558 original size:21 final size:21
Alignment explanation
Indices: 87897534--87897579 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
87897524 AAATGAAAGG
87897534 TTGTTGATA-GATAAACAACTT
1 TTGTTGATATG-TAAACAACTT
87897555 TTGTTGATATGTAAACAACTT
1 TTGTTGATATGTAAACAACTT
87897576 TTGT
1 TTGT
87897580 AAAGTGAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 23 0.96
22 1 0.04
ACGTcount: A:0.33, C:0.09, G:0.15, T:0.43
Consensus pattern (21 bp):
TTGTTGATATGTAAACAACTT
Found at i:87897851 original size:20 final size:20
Alignment explanation
Indices: 87897806--87897843 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
87897796 TCCTAGGGTG
*
87897806 TGAACTGGATTAAATTGAGT
1 TGAAATGGATTAAATTGAGT
87897826 TGAAATGGATTAAATTGA
1 TGAAATGGATTAAATTGA
87897844 TGTTAAATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.03, G:0.24, T:0.34
Consensus pattern (20 bp):
TGAAATGGATTAAATTGAGT
Found at i:87898373 original size:25 final size:24
Alignment explanation
Indices: 87898326--87898377 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 24
87898316 CACAAACGTA
87898326 GCTCTTTATGAGCGTCCAGATATAG
1 GCTCTTTATGAGCGTCCAGATAT-G
* *
87898351 GCTCTTTTTGAGCTTCCTA-ATATG
1 GCTCTTTATGAGCGTCC-AGATATG
87898375 GCT
1 GCT
87898378 AACTTGAACT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 4 0.17
25 19 0.79
26 1 0.04
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.38
Consensus pattern (24 bp):
GCTCTTTATGAGCGTCCAGATATG
Found at i:87901116 original size:30 final size:29
Alignment explanation
Indices: 87901082--87901138 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
87901072 GATGAAAAAT
*
87901082 TAAATACTGAATTTTTAGTATAGAAATTTA
1 TAAATACTGAATTTATAGTATA-AAATTTA
* *
87901112 TAAATATTGAATTTATATTATAAAATT
1 TAAATACTGAATTTATAGTATAAAATT
87901139 GTTTGGTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.46, C:0.02, G:0.07, T:0.46
Consensus pattern (29 bp):
TAAATACTGAATTTATAGTATAAAATTTA
Found at i:87906975 original size:46 final size:45
Alignment explanation
Indices: 87906925--87907099 Score: 176
Period size: 45 Copynumber: 3.8 Consensus size: 45
87906915 TGGTTGAGCA
87906925 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAA-G
* * *
87906971 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A-G
* * * *
87907016 CATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAAC
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAG
* * * *
87907063 ACCCAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
87907100 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 16, Indels: 15
0.77 0.12 0.11
Matches are distributed among these distances:
43 6 0.06
45 35 0.33
46 29 0.27
47 28 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAG
Found at i:87909233 original size:52 final size:52
Alignment explanation
Indices: 87909156--87909254 Score: 180
Period size: 52 Copynumber: 1.9 Consensus size: 52
87909146 TGTTGCTATG
* *
87909156 ATGATGGGAGTTATGTCATATGTGTATGTATAAGAAAGTCGAGTCAGGGGTT
1 ATGATGGGAGTTATGTCATACGTGTATGTATAAAAAAGTCGAGTCAGGGGTT
87909208 ATGATGGGAGTTATGTCATACGTGTATGTATAAAAAAGTCGAGTCAG
1 ATGATGGGAGTTATGTCATACGTGTATGTATAAAAAAGTCGAGTCAG
87909255 AGGTCCTACA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 45 1.00
ACGTcount: A:0.31, C:0.07, G:0.30, T:0.31
Consensus pattern (52 bp):
ATGATGGGAGTTATGTCATACGTGTATGTATAAAAAAGTCGAGTCAGGGGTT
Found at i:87910130 original size:14 final size:15
Alignment explanation
Indices: 87910081--87910130 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
87910071 GTATCTTGGG
*
87910081 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
87910096 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
87910111 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
87910125 TTTCTT
1 TTTCTT
87910131 GTTATCTTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 8 0.26
15 23 0.74
ACGTcount: A:0.10, C:0.18, G:0.12, T:0.60
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:87912558 original size:46 final size:46
Alignment explanation
Indices: 87912508--87912682 Score: 196
Period size: 45 Copynumber: 3.8 Consensus size: 46
87912498 TGGTTGAGCA
*
87912508 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
87912554 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
87912601 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
87912647 -CCCAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
87912683 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 14, Indels: 15
0.79 0.10 0.11
Matches are distributed among these distances:
43 6 0.06
45 35 0.32
46 30 0.28
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:87912623 original size:47 final size:47
Alignment explanation
Indices: 87912505--87912674 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 47
87912495 GGATGGTTGA
* *
87912505 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCAAAG
* *
87912553 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCAA--AG
* * *
87912598 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAAC
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCAAAG
*
87912646 GC--CC-AGCTCGTTGAGTTGAGTCCGAGTTC
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
87912675 GCTTATGGGC
Statistics
Matches: 105, Mismatches: 10, Indels: 17
0.80 0.08 0.13
Matches are distributed among these distances:
43 6 0.06
45 28 0.27
46 31 0.30
47 29 0.28
48 6 0.06
50 5 0.05
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (47 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCAAAG
Found at i:87916525 original size:47 final size:45
Alignment explanation
Indices: 87916413--87916539 Score: 134
Period size: 47 Copynumber: 2.7 Consensus size: 45
87916403 GGTTATGTGT
87916413 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGG-CACATTATGA
* * *
87916459 GAGCCATTGTAAGACCATGTCTGGGACATGGCAT-TG-ACATTGA-GA
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCACATT-ATGA
*
87916504 CGAGTACTAGTGTAAGACATGTCTGGGATATGCATC
1 -GAG--CTAGTGTAAGACATGTCTGGGACATGCATC
87916540 AGCCTCGGGA
Statistics
Matches: 68, Mismatches: 6, Indels: 13
0.78 0.07 0.15
Matches are distributed among these distances:
45 7 0.10
46 20 0.29
47 28 0.41
48 13 0.19
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.25
Consensus pattern (45 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCACATTATGA
Found at i:87930764 original size:17 final size:17
Alignment explanation
Indices: 87930742--87930776 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
87930732 GCCAGGGAAG
87930742 ATAAGACATATTACATT
1 ATAAGACATATTACATT
87930759 ATAAGACATATTACATT
1 ATAAGACATATTACATT
87930776 A
1 A
87930777 CCATCTTCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.11, G:0.06, T:0.34
Consensus pattern (17 bp):
ATAAGACATATTACATT
Found at i:87935825 original size:21 final size:21
Alignment explanation
Indices: 87935783--87935878 Score: 111
Period size: 21 Copynumber: 4.5 Consensus size: 21
87935773 CTTGATCAGT
** * *
87935783 ATACGACACATAAAGTGTCTG
1 ATACGACACACGAGGTGCCTG
* *
87935804 ATACAACACACGAGATGCCTG
1 ATACGACACACGAGGTGCCTG
87935825 ATACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
*
87935846 ATATGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
87935867 AAATACGACACA
1 --ATACGACACA
87935879 TAAAGTGTTT
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
21 54 0.86
23 9 0.14
ACGTcount: A:0.36, C:0.25, G:0.22, T:0.17
Consensus pattern (21 bp):
ATACGACACACGAGGTGCCTG
Found at i:87935830 original size:42 final size:43
Alignment explanation
Indices: 87935783--87935891 Score: 130
Period size: 42 Copynumber: 2.5 Consensus size: 43
87935773 CTTGATCAGT
87935783 ATACGACACATAAAGTGTCTGATACAACACACGAGATGCCTG-
1 ATACGACACATAAAGTGTCTGATACAACACACGAGATGCCTGA
** * * ** *
87935825 ATACGACACACGAGGTGCCTGATATGACACACGAGGTGCCTGAA
1 ATACGACACATAAAGTGTCTGATACAACACACGAGATGCCTG-A
*
87935869 ATACGACACATAAAGTGTTTGAT
1 ATACGACACATAAAGTGTCTGAT
87935892 CAGTAAAGCC
Statistics
Matches: 53, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
42 35 0.66
44 18 0.34
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (43 bp):
ATACGACACATAAAGTGTCTGATACAACACACGAGATGCCTGA
Found at i:87936286 original size:15 final size:15
Alignment explanation
Indices: 87936261--87936318 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
87936251 TCATATATAT
87936261 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
87936277 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
87936292 AATAATTTCAATCAA
1 TATAAATTCAATCAA
87936307 TATAAATTCAAT
1 TATAAATTCAAT
87936319 AAATTCATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:87937600 original size:5 final size:5
Alignment explanation
Indices: 87937585--87937621 Score: 56
Period size: 5 Copynumber: 7.2 Consensus size: 5
87937575 TTTCTTTAGT
*
87937585 TATATA TATAA TATAA TTTAA TATAA TATAA TATAA T
1 TATA-A TATAA TATAA TATAA TATAA TATAA TATAA T
87937622 TAAAACATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
5 25 0.86
6 4 0.14
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (5 bp):
TATAA
Found at i:87939365 original size:31 final size:31
Alignment explanation
Indices: 87939298--87939365 Score: 109
Period size: 31 Copynumber: 2.2 Consensus size: 31
87939288 TTTTAACGGC
* *
87939298 AGTGACTATTTTAATCAATTATCTTAATAAG
1 AGTGATTAGTTTAATCAATTATCTTAATAAG
*
87939329 AGTGATTAGTTTAATCAATTATCTTAATTAG
1 AGTGATTAGTTTAATCAATTATCTTAATAAG
87939360 AGTGAT
1 AGTGAT
87939366 CAAATTGGGA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.37, C:0.07, G:0.13, T:0.43
Consensus pattern (31 bp):
AGTGATTAGTTTAATCAATTATCTTAATAAG
Found at i:87948089 original size:22 final size:25
Alignment explanation
Indices: 87948055--87948109 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 25
87948045 ATATTATTTT
87948055 TATT-TTTTAAATATTT-AT-ATTA
1 TATTATTTTAAATATTTAATAATTA
87948077 TATTATTTT-AATATTTAATAATTA
1 TATTATTTTAAATATTTAATAATTA
87948101 TATATATTT
1 TAT-TATTT
87948110 AAAGTTTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
22 11 0.38
23 6 0.21
24 7 0.24
25 5 0.17
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (25 bp):
TATTATTTTAAATATTTAATAATTA
Found at i:87948105 original size:31 final size:31
Alignment explanation
Indices: 87948045--87948108 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 31
87948035 AGGTTGATTC
* *
87948045 ATATTATTTTTATTTTTTAAATATTTATATT
1 ATATTATTTTTAATATTTAAATATTTATATT
*
87948076 ATATTA-TTTTAATATTT-AATAATTATA-T
1 ATATTATTTTTAATATTTAAATATTTATATT
87948104 ATATT
1 ATATT
87948109 TAAAGTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
28 6 0.20
29 9 0.30
30 9 0.30
31 6 0.20
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (31 bp):
ATATTATTTTTAATATTTAAATATTTATATT
Found at i:87948107 original size:33 final size:31
Alignment explanation
Indices: 87948045--87948108 Score: 74
Period size: 33 Copynumber: 2.0 Consensus size: 31
87948035 AGGTTGATTC
** *
87948045 ATATTATTTTTATTTTTTAAATATTTATATT
1 ATATTATTTTTATTTAATAAATATATATATT
*
87948076 ATATTATTTTAATATTTAATAATTATATATATT
1 ATATTATTTT--TATTTAATAAATATATATATT
87948109 TAAAGTTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
31 10 0.37
33 17 0.63
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (31 bp):
ATATTATTTTTATTTAATAAATATATATATT
Found at i:87949095 original size:22 final size:19
Alignment explanation
Indices: 87949051--87949096 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
87949041 TTTGCTTTGG
*
87949051 TTGTTATTTTTTGTTAAAT
1 TTGTTATTTTTTGTTAAAA
87949070 TTGTTATTTTTTTGTTATAGAA
1 TTGTTA-TTTTTTGTTA-A-AA
87949092 TTGTT
1 TTGTT
87949097 TAAGTGAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 6 0.26
20 10 0.43
21 1 0.04
22 6 0.26
ACGTcount: A:0.20, C:0.00, G:0.13, T:0.67
Consensus pattern (19 bp):
TTGTTATTTTTTGTTAAAA
Found at i:87957757 original size:21 final size:21
Alignment explanation
Indices: 87957733--87957804 Score: 58
Period size: 21 Copynumber: 3.3 Consensus size: 21
87957723 GGATCTGTAC
87957733 TCATTGAATTGTGGTCTGAGT
1 TCATTGAATTGTGGTCTGAGT
* **
87957754 TCA-TGATATTTGTGACATCTGAAC
1 TCATTGA-A-TTGTG--GTCTGAGT
*
87957778 TCATTGAGTTGTGGTCTGAGT
1 TCATTGAATTGTGGTCTGAGT
87957799 TC-TTGA
1 TCATTGA
87957805 TGTATGTGAC
Statistics
Matches: 39, Mismatches: 7, Indels: 11
0.68 0.12 0.19
Matches are distributed among these distances:
20 7 0.18
21 11 0.28
22 5 0.13
23 5 0.13
24 8 0.21
25 3 0.08
ACGTcount: A:0.21, C:0.12, G:0.25, T:0.42
Consensus pattern (21 bp):
TCATTGAATTGTGGTCTGAGT
Found at i:87957790 original size:45 final size:45
Alignment explanation
Indices: 87957725--87957815 Score: 137
Period size: 45 Copynumber: 2.0 Consensus size: 45
87957715 AATTATTGGG
* *
87957725 ATCTGTACTCATTGAATTGTGGTCTGAGTTCATGATATTTGTGAC
1 ATCTGAACTCATTGAATTGTGGTCTGAGTTCATGATATATGTGAC
* * *
87957770 ATCTGAACTCATTGAGTTGTGGTCTGAGTTCTTGATGTATGTGAC
1 ATCTGAACTCATTGAATTGTGGTCTGAGTTCATGATATATGTGAC
87957815 A
1 A
87957816 CATGTTTTGG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.22, C:0.13, G:0.24, T:0.41
Consensus pattern (45 bp):
ATCTGAACTCATTGAATTGTGGTCTGAGTTCATGATATATGTGAC
Found at i:87958845 original size:17 final size:17
Alignment explanation
Indices: 87958820--87958879 Score: 50
Period size: 17 Copynumber: 3.5 Consensus size: 17
87958810 GAAAAAAGAA
*
87958820 TTTATTTTATGAGATAT
1 TTTAATTTATGAGATAT
* * *
87958837 TTTAATTTA-GAAAAAGAA
1 TTTAATTTATG--AGATAT
*
87958855 TTTATTTTATGAGATAT
1 TTTAATTTATGAGATAT
87958872 TTTAATTT
1 TTTAATTT
87958880 TTGTGAGACA
Statistics
Matches: 31, Mismatches: 9, Indels: 6
0.67 0.20 0.13
Matches are distributed among these distances:
16 1 0.03
17 18 0.58
18 11 0.35
19 1 0.03
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (17 bp):
TTTAATTTATGAGATAT
Found at i:87958854 original size:35 final size:35
Alignment explanation
Indices: 87958812--87958879 Score: 136
Period size: 35 Copynumber: 1.9 Consensus size: 35
87958802 CAACGTAAGA
87958812 AAAAAGAATTTATTTTATGAGATATTTTAATTTAG
1 AAAAAGAATTTATTTTATGAGATATTTTAATTTAG
87958847 AAAAAGAATTTATTTTATGAGATATTTTAATTT
1 AAAAAGAATTTATTTTATGAGATATTTTAATTT
87958880 TTGTGAGACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.43, C:0.00, G:0.10, T:0.47
Consensus pattern (35 bp):
AAAAAGAATTTATTTTATGAGATATTTTAATTTAG
Found at i:87958879 original size:18 final size:18
Alignment explanation
Indices: 87958823--87958880 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
87958813 AAAAGAATTT
87958823 ATTTTATGAGATATTTTA
1 ATTTTATGAGATATTTTA
* * *
87958841 A-TTTA-GAAAAAGAATTT-
1 ATTTTATG--AGATATTTTA
87958858 ATTTTATGAGATATTTTA
1 ATTTTATGAGATATTTTA
87958876 ATTTT
1 ATTTT
87958881 TGTGAGACAA
Statistics
Matches: 29, Mismatches: 6, Indels: 10
0.64 0.13 0.22
Matches are distributed among these distances:
16 1 0.03
17 11 0.38
18 16 0.55
19 1 0.03
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.52
Consensus pattern (18 bp):
ATTTTATGAGATATTTTA
Found at i:87960845 original size:29 final size:29
Alignment explanation
Indices: 87960803--87960860 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
87960793 AGATGTCTGT
87960803 GTGTGACAGTTACAGTTGAAATGAATATG
1 GTGTGACAGTTACAGTTGAAATGAATATG
87960832 GTGTGACAGTTACAGTTGAAATGAATATG
1 GTGTGACAGTTACAGTTGAAATGAATATG
87960861 ATGATATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.34, C:0.07, G:0.28, T:0.31
Consensus pattern (29 bp):
GTGTGACAGTTACAGTTGAAATGAATATG
Found at i:87963798 original size:16 final size:16
Alignment explanation
Indices: 87963777--87963825 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
87963767 TTAAACTTTA
*
87963777 TATTTTATGAATTATT
1 TATTTTATGATTTATT
*
87963793 TATTTTTAT-TTTTATT
1 TA-TTTTATGATTTATT
87963809 TATTTTATGATTTATT
1 TATTTTATGATTTATT
87963825 T
1 T
87963826 CAAATTTTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
15 6 0.21
16 16 0.57
17 6 0.21
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.71
Consensus pattern (16 bp):
TATTTTATGATTTATT
Found at i:87964954 original size:24 final size:25
Alignment explanation
Indices: 87964927--87964975 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
87964917 TTTTTTTTAT
*
87964927 TAAATAAAAAAC-TTTAAAATATAA
1 TAAATAAAAAACATTTAAAACATAA
* *
87964951 TAAATCAAATACATTTAAAACATAA
1 TAAATAAAAAACATTTAAAACATAA
87964976 AAACAAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (25 bp):
TAAATAAAAAACATTTAAAACATAA
Found at i:87964968 original size:25 final size:23
Alignment explanation
Indices: 87964939--87965003 Score: 75
Period size: 25 Copynumber: 2.9 Consensus size: 23
87964929 AATAAAAAAC
*
87964939 TTTAAAATATAATAAATCAAATACA
1 TTTAAAACATAA-AAA-CAAATACA
87964964 TTTAAAACATAAAAACAAAT--A
1 TTTAAAACATAAAAACAAATACA
87964985 -TTAAAACA-AAAAACAAATA
1 TTTAAAACATAAAAACAAATA
87965004 AAAAATAAGA
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
19 10 0.26
20 8 0.21
21 1 0.03
23 5 0.13
24 3 0.08
25 11 0.29
ACGTcount: A:0.66, C:0.09, G:0.00, T:0.25
Consensus pattern (23 bp):
TTTAAAACATAAAAACAAATACA
Found at i:87964998 original size:19 final size:20
Alignment explanation
Indices: 87964965--87965003 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
87964955 TCAAATACAT
87964965 TTAAAACATAAAAACAAATA
1 TTAAAACATAAAAACAAATA
87964985 TTAAAACA-AAAAACAAATA
1 TTAAAACATAAAAACAAATA
87965004 AAAAATAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.72, C:0.10, G:0.00, T:0.18
Consensus pattern (20 bp):
TTAAAACATAAAAACAAATA
Found at i:87968339 original size:45 final size:45
Alignment explanation
Indices: 87968254--87968339 Score: 136
Period size: 45 Copynumber: 1.9 Consensus size: 45
87968244 TATTGTGATC
* *
87968254 TGAACTCATTGAGTTGTGGTTTGAGTTCATGATATTTGTGACATT
1 TGAACTCATTGAGTTGTGGTATGAGTTCATGATATATGTGACATT
* *
87968299 TGAACTCATTTAGTTGTGGTATGAGTTCATGATGTATGTGA
1 TGAACTCATTGAGTTGTGGTATGAGTTCATGATATATGTGA
87968340 AACATGTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.23, C:0.08, G:0.26, T:0.43
Consensus pattern (45 bp):
TGAACTCATTGAGTTGTGGTATGAGTTCATGATATATGTGACATT
Found at i:87968703 original size:2 final size:2
Alignment explanation
Indices: 87968696--87968727 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
87968686 TGTGGTAAGA
87968696 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
87968728 GAAGAATAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:87990582 original size:24 final size:24
Alignment explanation
Indices: 87990532--87990585 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
87990522 AATCGAATTT
*
87990532 GCACACATAGTGCTCGTCACACTC
1 GCACACATAGTGCTAGTCACACTC
87990556 GCACACATAGTGCCATAGT-ACAC-C
1 GCACACATAGTG-C-TAGTCACACTC
87990580 GCACAC
1 GCACAC
87990586 TCAGTGCATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 19 0.70
25 5 0.19
26 3 0.11
ACGTcount: A:0.30, C:0.37, G:0.17, T:0.17
Consensus pattern (24 bp):
GCACACATAGTGCTAGTCACACTC
Found at i:87998359 original size:24 final size:24
Alignment explanation
Indices: 87998306--87998359 Score: 58
Period size: 24 Copynumber: 2.2 Consensus size: 24
87998296 AATCAAATTT
*
87998306 GCACACATAGTGCTCGTCACACTC
1 GCACACATAGTGCTAGTCACACTC
*
87998330 GTACACATAGTGCCATAGT-ACAC-C
1 GCACACATAGTG-C-TAGTCACACTC
87998354 GCACAC
1 GCACAC
87998360 TCAGTGCATT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
24 17 0.68
25 5 0.20
26 3 0.12
ACGTcount: A:0.30, C:0.35, G:0.17, T:0.19
Consensus pattern (24 bp):
GCACACATAGTGCTAGTCACACTC
Found at i:88000895 original size:26 final size:26
Alignment explanation
Indices: 88000859--88000968 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
88000849 TGATACAAAT
88000859 TGATAATAGGTTAGGTAAATG-TTCAA
1 TGATAATAGGTTAGGTAAATGTTTC-A
*
88000885 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
88000911 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
88000937 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
88000963 TGATAA
1 TGATAA
88000969 GAATTTCATG
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
26 78 0.98
27 2 0.03
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:88002476 original size:26 final size:26
Alignment explanation
Indices: 88002410--88002485 Score: 98
Period size: 26 Copynumber: 2.8 Consensus size: 26
88002400 AAAAGTAGCT
* * *
88002410 AAATTACTATAATACCCCTATGTATGGA
1 AAATTACTATTATACCCCTA-G-GTGCA
88002438 AAATTACTATTATACCCCTAGGTGCA
1 AAATTACTATTATACCCCTAGGTGCA
*
88002464 AAATTACTGTTATACCCCTAGG
1 AAATTACTATTATACCCCTAGG
88002486 GTTAATTTTG
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 24 0.55
27 1 0.02
28 19 0.43
ACGTcount: A:0.36, C:0.21, G:0.12, T:0.32
Consensus pattern (26 bp):
AAATTACTATTATACCCCTAGGTGCA
Found at i:88002629 original size:27 final size:27
Alignment explanation
Indices: 88002588--88002727 Score: 165
Period size: 27 Copynumber: 5.2 Consensus size: 27
88002578 GAGGAAGCGT
*
88002588 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
88002615 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* * *
88002642 TCTGGTGGCTCTACCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* * *
88002669 TCTGGTGGCTTTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
88002697 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
88002723 TCTGG
1 TCTGG
88002728 CAGCCATGCT
Statistics
Matches: 98, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
26 5 0.05
27 79 0.81
28 14 0.14
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:88002673 original size:54 final size:55
Alignment explanation
Indices: 88002588--88002727 Score: 185
Period size: 54 Copynumber: 2.6 Consensus size: 55
88002578 GAGGAAGCGT
* * *
88002588 TCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* * * *
88002642 TCTGGTGGCTCTACCACATATATCTGTTCTGGTGGCTTTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* *
88002697 TCTGGTGACTCTGTCACAT-TATCTGTTCTGG
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGG
88002728 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
54 58 0.77
55 17 0.23
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.36
Consensus pattern (55 bp):
TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
Found at i:88004708 original size:43 final size:42
Alignment explanation
Indices: 88004626--88004790 Score: 125
Period size: 43 Copynumber: 3.9 Consensus size: 42
88004616 AGCTCGTACA
* * * ***
88004626 ATGCCAACGTCCCAGACGTGGTTTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACAAAATCAAATA-CG
* * *
88004669 ATGTCACTGTCCCAGACATGGTCTTACACAAAATGAAATACG
1 ATGCCAATGTCCCAGACATGGTCTTACACAAAATCAAATACG
* * * *
88004711 ATGCCAATATCCTAGACATGGTCTTACACGTAAATCTCAAAT-CC
1 ATGCCAATGTCCCAGACATGGTCTTACAC--AAA-ATCAAATACG
* * ** *
88004755 ATGCTAATGTCCTAGATGTGGTCTTACACGAAATCA
1 ATGCCAATGTCCCAGACATGGTCTTACACAAAATCA
88004791 CATATCGGAA
Statistics
Matches: 97, Mismatches: 22, Indels: 8
0.76 0.17 0.06
Matches are distributed among these distances:
41 3 0.03
42 29 0.30
43 31 0.32
44 29 0.30
45 5 0.05
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACATGGTCTTACACAAAATCAAATACG
Found at i:88013149 original size:25 final size:25
Alignment explanation
Indices: 88013115--88013184 Score: 122
Period size: 25 Copynumber: 2.8 Consensus size: 25
88013105 AGAAAGTGCT
*
88013115 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
88013140 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
88013165 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
88013185 ATTAAAAGAG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:88013197 original size:24 final size:24
Alignment explanation
Indices: 88013114--88013197 Score: 107
Period size: 25 Copynumber: 3.4 Consensus size: 24
88013104 GAGAAAGTGC
*
88013114 TAAAAGGGCTTTGCCCCAGTTTACC
1 TAAAAGGGCTTTGCCCCAGTTTA-T
*
88013139 GAAAAGGGCTTTGCCCCAGTTTAT
1 TAAAAGGGCTTTGCCCCAGTTTAT
*
88013163 CAAAAAGGGCTTTGCCCCAG-TTAT
1 -TAAAAGGGCTTTGCCCCAGTTTAT
88013187 TAAAAGAGGCT
1 TAAAAG-GGCT
88013198 AGGCCTCCAG
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
23 5 0.09
24 8 0.15
25 40 0.75
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.26
Consensus pattern (24 bp):
TAAAAGGGCTTTGCCCCAGTTTAT
Found at i:88013208 original size:50 final size:50
Alignment explanation
Indices: 88013115--88013209 Score: 122
Period size: 50 Copynumber: 1.9 Consensus size: 50
88013105 AGAAAGTGCT
**
88013115 AAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
**
88013165 AAAAGGGCTTTGCCCCAG-TTA-TTAAAAGAGGCTAGGCCTCCAGTT
1 AAAAGGGCTTTGCCCCAGTTTACCGAAAAG-GGCTAGGCC-CCAGTT
88013210 ATATGATAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
48 5 0.13
49 10 0.26
50 24 0.62
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.25
Consensus pattern (50 bp):
AAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
Found at i:88019890 original size:68 final size:67
Alignment explanation
Indices: 88019818--88019967 Score: 162
Period size: 67 Copynumber: 2.2 Consensus size: 67
88019808 CATCATGTGT
* * * *
88019818 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
88019880 ATGTAG
62 ATGTAG
* ** * *
88019886 ACAAGGGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
88019951 AG
66 AG
88019953 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
88019968 GATAAACTGG
Statistics
Matches: 68, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 25 0.37
68 12 0.18
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:88019922 original size:64 final size:64
Alignment explanation
Indices: 88019842--88020025 Score: 185
Period size: 67 Copynumber: 2.8 Consensus size: 64
88019832 AGACATTATG
* * *
88019842 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGGGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
88019906 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
88019971 AA
63 AA
* * * *
88019973 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
88020026 CGAACTATAT
Statistics
Matches: 97, Mismatches: 18, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.20
64 21 0.22
65 8 0.08
66 16 0.16
67 30 0.31
68 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:88021661 original size:29 final size:29
Alignment explanation
Indices: 88021625--88021757 Score: 144
Period size: 29 Copynumber: 4.6 Consensus size: 29
88021615 AATAAACGAT
* *
88021625 CTCGCACACTTAGTGCCATGCGATTTAAG
1 CTCGCACACTTAGTGCCATACAATTTAAG
** *
88021654 CTCGCACAAATAGTGCCATATAATTTAAG
1 CTCGCACACTTAGTGCCATACAATTTAAG
* *
88021683 -TTGCACACTTAGTGCCATATAATTTAAG
1 CTCGCACACTTAGTGCCATACAATTTAAG
* * *
88021711 TTCGCACACTTAGTGCCATAC-CTTCCAAG
1 CTCGCACACTTAGTGCCATACAATT-TAAG
*
88021740 CCCGCACACTTAGTGCCA
1 CTCGCACACTTAGTGCCA
88021758 ATCTTGTCAC
Statistics
Matches: 88, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
28 27 0.31
29 61 0.69
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (29 bp):
CTCGCACACTTAGTGCCATACAATTTAAG
Found at i:88025407 original size:20 final size:21
Alignment explanation
Indices: 88025368--88025407 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
88025358 AAGGGCTATT
*
88025368 TTGTAAAGTTTGTAAAATAAG
1 TTGTAAAGTGTGTAAAATAAG
*
88025389 TTGTAAA-TGTGTGAAATAA
1 TTGTAAAGTGTGTAAAATAA
88025408 TTGAAATTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.42, C:0.00, G:0.20, T:0.38
Consensus pattern (21 bp):
TTGTAAAGTGTGTAAAATAAG
Found at i:88028036 original size:28 final size:28
Alignment explanation
Indices: 88027972--88028048 Score: 93
Period size: 28 Copynumber: 2.8 Consensus size: 28
88027962 CTTTTCGATG
88027972 TCTCGCACACTAAGTGCCATACTCAATA
1 TCTCGCACACTAAGTGCCATACTCAATA
* * *
88028000 TCTCGCACACCAAGTGCCATTCTTAATA
1 TCTCGCACACTAAGTGCCATACTCAATA
* *
88028028 TTTTC-CACACTAAGTGTCATA
1 -TCTCGCACACTAAGTGCCATA
88028049 TACATATATA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
28 38 0.93
29 3 0.07
ACGTcount: A:0.30, C:0.30, G:0.10, T:0.30
Consensus pattern (28 bp):
TCTCGCACACTAAGTGCCATACTCAATA
Found at i:88031543 original size:41 final size:41
Alignment explanation
Indices: 88031498--88031576 Score: 149
Period size: 41 Copynumber: 1.9 Consensus size: 41
88031488 TTTACAAATT
*
88031498 TTTCTGTCATCCACAATTTCAAACAGTAAATTTACTTAATG
1 TTTCTGTCATCCACAATTTCAAACAGAAAATTTACTTAATG
88031539 TTTCTGTCATCCACAATTTCAAACAGAAAATTTACTTA
1 TTTCTGTCATCCACAATTTCAAACAGAAAATTTACTTA
88031577 CTCGAGCCCA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.35, C:0.20, G:0.06, T:0.38
Consensus pattern (41 bp):
TTTCTGTCATCCACAATTTCAAACAGAAAATTTACTTAATG
Found at i:88031983 original size:37 final size:36
Alignment explanation
Indices: 88031903--88032115 Score: 225
Period size: 37 Copynumber: 5.8 Consensus size: 36
88031893 GATCTCATAT
*
88031903 CGATGCCAT-GTCCCAGAC-ATGGCCTTACACGT-ATCA
1 CGATGCCATAG-CCCAG-CTATGGTCTTACA-GTCATCA
* *
88031939 CAATGCCATAGCCCGGCTATGGTCTTACATGTCATCA
1 CGATGCCATAGCCCAGCTATGGTCTTACA-GTCATCA
** *
88031976 CGATGCCATAGCCCAGCTATGGTCTTACACACTATTA
1 CGATGCCATAGCCCAGCTATGGTCTTACAGTC-ATCA
* *
88032013 TGATGCCATAGCCCGGCTATGGTCTTACATGTCATCA
1 CGATGCCATAGCCCAGCTATGGTCTTACA-GTCATCA
* ** *
88032050 CGATGCCATAGCCCAGCTATGGTCTAACACACTATTA
1 CGATGCCATAGCCCAGCTATGGTCTTACAGTC-ATCA
*
88032087 TGATGCCATAGCCCAGCTATGGTCTTACA
1 CGATGCCATAGCCCAGCTATGGTCTTACA
88032116 CGTACCACAT
Statistics
Matches: 149, Mismatches: 22, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
35 1 0.01
36 26 0.17
37 121 0.81
38 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (36 bp):
CGATGCCATAGCCCAGCTATGGTCTTACAGTCATCA
Found at i:88032035 original size:74 final size:74
Alignment explanation
Indices: 88031941--88032115 Score: 332
Period size: 74 Copynumber: 2.4 Consensus size: 74
88031931 ACGTATCACA
*
88031941 ATGCCATAGCCCGGCTATGGTCTTACATGTCATCACGATGCCATAGCCCAGCTATGGTCTTACAC
1 ATGCCATAGCCCGGCTATGGTCTTACATGTCATCACGATGCCATAGCCCAGCTATGGTCTAACAC
88032006 ACTATTATG
66 ACTATTATG
88032015 ATGCCATAGCCCGGCTATGGTCTTACATGTCATCACGATGCCATAGCCCAGCTATGGTCTAACAC
1 ATGCCATAGCCCGGCTATGGTCTTACATGTCATCACGATGCCATAGCCCAGCTATGGTCTAACAC
88032080 ACTATTATG
66 ACTATTATG
*
88032089 ATGCCATAGCCCAGCTATGGTCTTACA
1 ATGCCATAGCCCGGCTATGGTCTTACA
88032116 CGTACCACAT
Statistics
Matches: 99, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
74 99 1.00
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (74 bp):
ATGCCATAGCCCGGCTATGGTCTTACATGTCATCACGATGCCATAGCCCAGCTATGGTCTAACAC
ACTATTATG
Found at i:88036216 original size:48 final size:46
Alignment explanation
Indices: 88036096--88036216 Score: 154
Period size: 46 Copynumber: 2.6 Consensus size: 46
88036086 TGGGATGTGT
*
88036096 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGAGA
* * *
88036142 GCAAGTGTAAGACATGTATGGGACATGCATCTGCCTCGAGAT-ATGCAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGA-G--A
* *
88036190 GCTAGTGTGAGACCTGTCTGGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
88036217 GCATTAGCTT
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
45 1 0.02
46 39 0.61
48 24 0.38
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.24
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGAGA
Found at i:88043427 original size:29 final size:29
Alignment explanation
Indices: 88043392--88043455 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
88043382 ATTCGAGAGG
* ** *
88043392 ATTTGGTGATCTTATTGCATTTATTCGTT
1 ATTTGGTAATCTTATCACATTTATTAGTT
* *
88043421 ATTTGGTAATTTTGTCACATTTATTAGTT
1 ATTTGGTAATCTTATCACATTTATTAGTT
88043450 ATTTGG
1 ATTTGG
88043456 CAGAATTTCT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.20, C:0.08, G:0.17, T:0.55
Consensus pattern (29 bp):
ATTTGGTAATCTTATCACATTTATTAGTT
Found at i:88044535 original size:11 final size:11
Alignment explanation
Indices: 88044519--88044552 Score: 59
Period size: 11 Copynumber: 3.0 Consensus size: 11
88044509 TAATATATAA
88044519 CTTAATAAAAT
1 CTTAATAAAAT
88044530 CTTAATAAAATT
1 CTTAATAAAA-T
88044542 CTTAATAAAAT
1 CTTAATAAAAT
88044553 ATGAATTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 11 0.50
12 11 0.50
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (11 bp):
CTTAATAAAAT
Found at i:88044544 original size:12 final size:12
Alignment explanation
Indices: 88044519--88044552 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
88044509 TAATATATAA
88044519 CTTAATAAAA-T
1 CTTAATAAAATT
88044530 CTTAATAAAATT
1 CTTAATAAAATT
88044542 CTTAATAAAAT
1 CTTAATAAAAT
88044553 ATGAATTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 10 0.45
12 12 0.55
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (12 bp):
CTTAATAAAATT
Found at i:88052467 original size:27 final size:27
Alignment explanation
Indices: 88052437--88052499 Score: 99
Period size: 28 Copynumber: 2.3 Consensus size: 27
88052427 TTTAAAACCC
88052437 TAGGGGTATATCGGTAATTTTGCTCTT
1 TAGGGGTATATCGGTAATTTTGCTCTT
* *
88052464 TAGGGGTAATTTTGGTAATTTTGCTCTT
1 TAGGGGT-ATATCGGTAATTTTGCTCTT
88052492 TAGGGGTA
1 TAGGGGTA
88052500 ATTTCGTGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
27 8 0.24
28 25 0.76
ACGTcount: A:0.19, C:0.08, G:0.29, T:0.44
Consensus pattern (27 bp):
TAGGGGTATATCGGTAATTTTGCTCTT
Found at i:88052484 original size:28 final size:28
Alignment explanation
Indices: 88052449--88052503 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
88052439 GGGGTATATC
88052449 GGTAATTTTGCTCTTTAGGGGTAATTTT
1 GGTAATTTTGCTCTTTAGGGGTAATTTT
88052477 GGTAATTTTGCTCTTTAGGGGTAATTT
1 GGTAATTTTGCTCTTTAGGGGTAATTT
88052504 CGTGATCTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.18, C:0.07, G:0.25, T:0.49
Consensus pattern (28 bp):
GGTAATTTTGCTCTTTAGGGGTAATTTT
Found at i:88053171 original size:27 final size:27
Alignment explanation
Indices: 88053140--88053327 Score: 259
Period size: 27 Copynumber: 7.0 Consensus size: 27
88053130 TTCTACCCTA
*
88053140 CAAGGGTATTTCGGTAATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * *
88053167 AAAGGGTATTTTAGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
88053194 CAGGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
88053221 CAAGGGTATTTTAGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * *
88053248 TAGGGGTATTTTGGTGATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
*
88053275 CAAGGGTATTTTGGTGATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
*
88053302 CAAGGGTATTTTGGTAATTCTATAAA
1 CAAGGGTATTTTGGTAATTTTATAAA
88053328 TTGAAGGTAA
Statistics
Matches: 139, Mismatches: 22, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 139 1.00
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTATAAAC
Found at i:88053336 original size:27 final size:26
Alignment explanation
Indices: 88053144--88053390 Score: 116
Period size: 27 Copynumber: 9.2 Consensus size: 26
88053134 ACCCTACAAG
* * *
88053144 GGTATTTCGGTAATTTTATAAACAAA
1 GGTATTTTGGTAATTCTATAAACGAA
* * * * *
88053170 GGGTATTTTAGTAATTTTACAAACCAGG
1 -GGTATTTTGGTAATTCTATAAACGA-A
* * *
88053198 GGTATTTTGGTAATTTTGTAAACCAA
1 GGTATTTTGGTAATTCTATAAACGAA
* * * * *
88053224 GGGTATTTTAGTAATTTTACAAACTAGG
1 -GGTATTTTGGTAATTCTATAAACGA-A
* * *
88053252 GGTATTTTGGTGATTTTATAAACCAA
1 GGTATTTTGGTAATTCTATAAACGAA
* * *
88053278 GGGTATTTTGGTGATTTTATAAACCAA
1 -GGTATTTTGGTAATTCTATAAACGAA
*
88053305 GGGTATTTTGGTAATTCTATAAATTGAA
1 -GGTATTTTGGTAATTCTATAAA-CGAA
**** * *
88053333 GGTAAAACGGTAATTCTGTAAACTGAG
1 GGTATTTTGGTAATTCTATAAAC-GAA
****
88053360 GGTAAAACGGTAATTCTATAAATCGAA
1 GGTATTTTGGTAATTCTATAAA-CGAA
88053387 GGTA
1 GGTA
88053391 AAATAGTAAT
Statistics
Matches: 181, Mismatches: 32, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
27 178 0.98
28 3 0.02
ACGTcount: A:0.34, C:0.08, G:0.21, T:0.37
Consensus pattern (26 bp):
GGTATTTTGGTAATTCTATAAACGAA
Found at i:88053363 original size:81 final size:81
Alignment explanation
Indices: 88053180--88053355 Score: 183
Period size: 81 Copynumber: 2.2 Consensus size: 81
88053170 GGGTATTTTA
* * * * *
88053180 GTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTACA
1 GTAATTCTATAAACCAAGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTCTACA
* ****
88053245 AACTAGGGGTATTTTG
66 AACTAGAGGTAAAACG
* * * * *
88053261 GTGATTTTATAAACCAAGGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTGGTAATTCTATA
1 GTAATTCTATAAACCAAGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTCTACA
*
88053326 AA-TTGAAGGTAAAACG
66 AACTAG-AGGTAAAACG
*
88053342 GTAATTCTGTAAAC
1 GTAATTCTATAAAC
88053356 TGAGGGTAAA
Statistics
Matches: 77, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
80 2 0.03
81 75 0.97
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.38
Consensus pattern (81 bp):
GTAATTCTATAAACCAAGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTCTACA
AACTAGAGGTAAAACG
Found at i:88053523 original size:27 final size:27
Alignment explanation
Indices: 88053313--88053509 Score: 256
Period size: 27 Copynumber: 7.3 Consensus size: 27
88053303 AAGGGTATTT
* * *
88053313 TGGTAATTCTATAAATTGAAGGTAAAA
1 TGGTAATTCTGTAAATCGAGGGTAAAA
*
88053340 CGGTAATTCTGTAAA-CTGAGGGTAAAA
1 TGGTAATTCTGTAAATC-GAGGGTAAAA
* * *
88053367 CGGTAATTCTATAAATCGAAGGTAAAA
1 TGGTAATTCTGTAAATCGAGGGTAAAA
*
88053394 TAGTAATTCTGTAAA-CTGAGGGTAAAA
1 TGGTAATTCTGTAAATC-GAGGGTAAAA
*
88053421 TGGTAATTCTGTAAATCGAGGATAAAA
1 TGGTAATTCTGTAAATCGAGGGTAAAA
*
88053448 TAGTAATTCTGTAAA-CTGAGGGTAAAA
1 TGGTAATTCTGTAAATC-GAGGGTAAAA
88053475 TGGTAATTCTGTAAATCGAGGGTAAAA
1 TGGTAATTCTGTAAATCGAGGGTAAAA
88053502 TGGTAATT
1 TGGTAATT
88053510 TTACAAGTCG
Statistics
Matches: 149, Mismatches: 15, Indels: 12
0.85 0.09 0.07
Matches are distributed among these distances:
26 2 0.01
27 144 0.97
28 3 0.02
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.30
Consensus pattern (27 bp):
TGGTAATTCTGTAAATCGAGGGTAAAA
Found at i:88053523 original size:54 final size:54
Alignment explanation
Indices: 88053313--88053509 Score: 306
Period size: 54 Copynumber: 3.6 Consensus size: 54
88053303 AAGGGTATTT
* **
88053313 TGGTAATTCTATAAATTGAAGGTAAAACGGTAATTCTGTAAACTGAGGGTAAAA
1 TGGTAATTCTATAAATCGAAGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAA
*
88053367 CGGTAATTCTATAAATCGAAGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAA
1 TGGTAATTCTATAAATCGAAGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAA
*
88053421 TGGTAATTCTGTAAATCG-AGGATAAAATAGTAATTCTGTAAACTGAGGGTAAAA
1 TGGTAATTCTATAAATCGAAGG-TAAAATAGTAATTCTGTAAACTGAGGGTAAAA
* * *
88053475 TGGTAATTCTGTAAATCGAGGGTAAAATGGTAATT
1 TGGTAATTCTATAAATCGAAGGTAAAATAGTAATT
88053510 TTACAAGTCG
Statistics
Matches: 133, Mismatches: 8, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
53 3 0.02
54 128 0.96
55 2 0.02
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.30
Consensus pattern (54 bp):
TGGTAATTCTATAAATCGAAGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAA
Found at i:88056419 original size:27 final size:27
Alignment explanation
Indices: 88056389--88056450 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
88056379 TTTAAAACCC
88056389 TAGGGGTATATCGGTAATTTTGCTCTT
1 TAGGGGTATATCGGTAATTTTGCTCTT
*
88056416 TA-GGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGT-ATATCGGTAATTTTGCTCTT
88056443 TAGGGGTA
1 TAGGGGTA
88056451 ATTTCGTGAT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 4 0.12
27 24 0.75
28 4 0.12
ACGTcount: A:0.19, C:0.10, G:0.27, T:0.44
Consensus pattern (27 bp):
TAGGGGTATATCGGTAATTTTGCTCTT
Found at i:88057122 original size:27 final size:27
Alignment explanation
Indices: 88057091--88057251 Score: 205
Period size: 27 Copynumber: 6.0 Consensus size: 27
88057081 TTCTACCCTA
*
88057091 CAAGGGTATTTCGGTAATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * *
88057118 AAAGGGTATTTTAGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
88057145 CAGGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
88057172 CAAGGGTATTTTAGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * * *
88057199 TAGGGGTACTTTGGTGATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
*
88057226 CAAGGGTATTTTGGTAATTCTATAAA
1 CAAGGGTATTTTGGTAATTTTATAAA
88057252 TTGAAGGTAA
Statistics
Matches: 110, Mismatches: 24, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 110 1.00
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTATAAAC
Found at i:88057161 original size:54 final size:54
Alignment explanation
Indices: 88057094--88057244 Score: 239
Period size: 54 Copynumber: 2.8 Consensus size: 54
88057084 TACCCTACAA
* *
88057094 GGGTATTTCGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
* *
88057148 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
* * *
88057202 GGGTACTTTGGTGATTTTATAAACCAAGGGTATTTTGGTAATT
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATT
88057245 CTATAAATTG
Statistics
Matches: 89, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 89 1.00
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
Found at i:88057268 original size:27 final size:27
Alignment explanation
Indices: 88057237--88057433 Score: 263
Period size: 27 Copynumber: 7.3 Consensus size: 27
88057227 AAGGGTATTT
* * *
88057237 TGGTAATTCTATAAATTGAAGGTAAAA
1 TGGTAATTCTGTAAACTGAGGGTAAAA
*
88057264 CGGTAATTCTGTAAACTGAGGGTAAAA
1 TGGTAATTCTGTAAACTGAGGGTAAAA
* *
88057291 CGGTAATTCTATAAA-TCGAGGGTAAAA
1 TGGTAATTCTGTAAACT-GAGGGTAAAA
*
88057318 TAGTAATTCTGTAAACTGAGGGTAAAA
1 TGGTAATTCTGTAAACTGAGGGTAAAA
*
88057345 TGGTAATTCTGTAAA-TCGAGGATAAAA
1 TGGTAATTCTGTAAACT-GAGGGTAAAA
*
88057372 TAGTAATTCTGTAAACTGAGGGTAAAA
1 TGGTAATTCTGTAAACTGAGGGTAAAA
* *
88057399 TAGTAATTCTGTAAAATGAGGGTAAAA
1 TGGTAATTCTGTAAACTGAGGGTAAAA
88057426 TGGTAATT
1 TGGTAATT
88057434 TTACAAGTCG
Statistics
Matches: 152, Mismatches: 14, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
26 2 0.01
27 148 0.97
28 2 0.01
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.30
Consensus pattern (27 bp):
TGGTAATTCTGTAAACTGAGGGTAAAA
Found at i:88068057 original size:46 final size:46
Alignment explanation
Indices: 88068004--88068097 Score: 179
Period size: 46 Copynumber: 2.0 Consensus size: 46
88067994 TTCAAAACAA
88068004 GTCTAAATCATGTCTTAAACATGACATATTATAACATACAACCAAT
1 GTCTAAATCATGTCTTAAACATGACATATTATAACATACAACCAAT
*
88068050 GTCTAAATCATGTCTTGAACATGACATATTATAACATACAACCAAT
1 GTCTAAATCATGTCTTAAACATGACATATTATAACATACAACCAAT
88068096 GT
1 GT
88068098 ACCCTTAGGT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (46 bp):
GTCTAAATCATGTCTTAAACATGACATATTATAACATACAACCAAT
Found at i:88069120 original size:40 final size:41
Alignment explanation
Indices: 88069067--88069145 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 41
88069057 TTTTTAATAT
88069067 TTTCCCTCAAAACTTTTATTCCCAAAAACTTTTTATTTTAC
1 TTTCCCTCAAAACTTTTATTCCCAAAAACTTTTTATTTTAC
*
88069108 TTTCCCTC-AAACTTTTATTCCCCAAAACTTTTTATTTT
1 TTTCCCTCAAAACTTTTATTCCCAAAAACTTTTTATTTT
88069146 CCCCCTAAAC
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
40 29 0.78
41 8 0.22
ACGTcount: A:0.27, C:0.25, G:0.00, T:0.48
Consensus pattern (41 bp):
TTTCCCTCAAAACTTTTATTCCCAAAAACTTTTTATTTTAC
Found at i:88069286 original size:17 final size:17
Alignment explanation
Indices: 88069266--88069312 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
88069256 CACATTTTAT
88069266 ATTATTTATATTATTGA
1 ATTATTTATATTATTGA
88069283 ATTATTTAGTCA-TATTGA
1 ATTATTTA-T-ATTATTGA
88069301 A-TATTTATATTA
1 ATTATTTATATTA
88069313 AAATTGAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
15 1 0.04
16 3 0.11
17 14 0.52
18 8 0.30
19 1 0.04
ACGTcount: A:0.36, C:0.02, G:0.06, T:0.55
Consensus pattern (17 bp):
ATTATTTATATTATTGA
Found at i:88070924 original size:17 final size:17
Alignment explanation
Indices: 88070886--88070925 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
88070876 ATTTTTATCA
88070886 TTTATCATTTATCGGGC
1 TTTATCATTTATCGGGC
* * *
88070903 ATTATCTTTTATCGGGT
1 TTTATCATTTATCGGGC
88070920 TTTATC
1 TTTATC
88070926 GGATATGTTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.17, C:0.15, G:0.15, T:0.53
Consensus pattern (17 bp):
TTTATCATTTATCGGGC
Found at i:88071663 original size:14 final size:14
Alignment explanation
Indices: 88071644--88071673 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
88071634 TTATATCGAG
88071644 ACCAATCCAAATCA
1 ACCAATCCAAATCA
*
88071658 ACCAATCCAATTCA
1 ACCAATCCAAATCA
88071672 AC
1 AC
88071674 ATATTTTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (14 bp):
ACCAATCCAAATCA
Found at i:88071717 original size:23 final size:23
Alignment explanation
Indices: 88071673--88071717 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
88071663 TCCAATTCAA
* * *
88071673 CATATTTTTAAGATAAATTCATG
1 CATATTTATAAAATAAAGTCATG
*
88071696 CATATTTATAAAATAACGTCAT
1 CATATTTATAAAATAAAGTCAT
88071718 CACATAGCCA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.42, C:0.11, G:0.07, T:0.40
Consensus pattern (23 bp):
CATATTTATAAAATAAAGTCATG
Found at i:88079341 original size:13 final size:14
Alignment explanation
Indices: 88079323--88079351 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
88079313 TTATATCGAG
88079323 ACCAATCCAA-TCA
1 ACCAATCCAATTCA
88079336 ACCAATCCAATTCA
1 ACCAATCCAATTCA
88079350 AC
1 AC
88079352 ATATTTTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.45, C:0.38, G:0.00, T:0.17
Consensus pattern (14 bp):
ACCAATCCAATTCA
Found at i:88085642 original size:14 final size:14
Alignment explanation
Indices: 88085599--88085655 Score: 57
Period size: 14 Copynumber: 4.1 Consensus size: 14
88085589 AATAACTAAT
88085599 TTATTTAATTAT-A
1 TTATTTAATTATAA
88085612 TT-TTTGAACTT-TAA
1 TTATTT-AA-TTATAA
88085626 TTATTTAATTATAA
1 TTATTTAATTATAA
* *
88085640 TTAATTAATAATAA
1 TTATTTAATTATAA
88085654 TT
1 TT
88085656 CAAAAATCTT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
12 3 0.08
13 7 0.19
14 24 0.65
15 3 0.08
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (14 bp):
TTATTTAATTATAA
Found at i:88088860 original size:45 final size:45
Alignment explanation
Indices: 88088811--88088919 Score: 155
Period size: 45 Copynumber: 2.4 Consensus size: 45
88088801 GTATTTTTGA
* * * *
88088811 GTAAGACCACGTCTAGGATGTTGGCATCGATATATGTGTTTTCTT
1 GTAAGACCACGTCTAGGACGTTGGCATCGATATATGTGGTTACAT
*
88088856 GTAAGACCACGTCTGGGACGTTGGCATCGATATATGTGGTTACAT
1 GTAAGACCACGTCTAGGACGTTGGCATCGATATATGTGGTTACAT
* *
88088901 GTAAGACCATGTCTGGGAC
1 GTAAGACCACGTCTAGGAC
88088920 ATCGGTATCG
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 58 1.00
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (45 bp):
GTAAGACCACGTCTAGGACGTTGGCATCGATATATGTGGTTACAT
Found at i:88089942 original size:2 final size:2
Alignment explanation
Indices: 88089905--88089933 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
88089895 GAGTGATGTT
88089905 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
88089934 TTGATATATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:88101729 original size:29 final size:29
Alignment explanation
Indices: 88101696--88101753 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
88101686 TGAGGATCTG
88101696 ACTGTGGAGACCATCAGAACTGTTAGGGA
1 ACTGTGGAGACCATCAGAACTGTTAGGGA
88101725 ACTGTGGAGACCATCAGAACTGTTAGGGA
1 ACTGTGGAGACCATCAGAACTGTTAGGGA
88101754 TTCCGGATGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.17, G:0.31, T:0.21
Consensus pattern (29 bp):
ACTGTGGAGACCATCAGAACTGTTAGGGA
Found at i:88107483 original size:38 final size:40
Alignment explanation
Indices: 88107411--88107490 Score: 128
Period size: 38 Copynumber: 2.0 Consensus size: 40
88107401 TCCATGTGAC
88107411 ATACTAAATTCGTCCGTTTGAAACGTCTGGGCCGGGTTTGGG
1 ATACTAAATTCGTCCG-TT-AAACGTCTGGGCCGGGTTTGGG
88107453 ATACTAAATTCGTCCG-T-AACGTCTGGGCCGGGTTTGGG
1 ATACTAAATTCGTCCGTTAAACGTCTGGGCCGGGTTTGGG
88107491 GTGTTACAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
38 21 0.55
40 1 0.03
42 16 0.42
ACGTcount: A:0.19, C:0.20, G:0.31, T:0.30
Consensus pattern (40 bp):
ATACTAAATTCGTCCGTTAAACGTCTGGGCCGGGTTTGGG
Found at i:88110342 original size:27 final size:27
Alignment explanation
Indices: 88110312--88110652 Score: 242
Period size: 27 Copynumber: 12.6 Consensus size: 27
88110302 TATAAGGTAG
* *
88110312 AATTACCAAAATACCCTCAATTAGCAA
1 AATTACCAAAATACCCTCAATTTGTAA
*
88110339 AATTACCAAAATACCC-CTAGTTTGTAA
1 AATTACCAAAATACCCTC-AATTTGTAA
* *
88110366 AATTACCAAAATACCC-CTGATTTGTGA
1 AATTACCAAAATACCCTC-AATTTGTAA
**
88110393 AATTACCAAAATACCCTCAACCTGTAA
1 AATTACCAAAATACCCTCAATTTGTAA
* ** *
88110420 AATTACCGAAATACCCTTGACTTGTAA
1 AATTACCAAAATACCCTCAATTTGTAA
* *
88110447 AATTATCAAAATACCCTCGATTTGTAA
1 AATTACCAAAATACCCTCAATTTGTAA
*
88110474 AATTACCAAAATACCC-CTAATTTGGAA
1 AATTACCAAAATACCCTC-AATTTGTAA
*** ** *
88110501 AATTAATGAAATACCCTTGATTTGAAA
1 AATTACCAAAATACCCTCAATTTGTAA
** **
88110528 AATTAGAAAAATACCCT-AATTTACAA
1 AATTACCAAAATACCCTCAATTTGTAA
* * * **
88110554 AATTACAAAAATACCCTTGACTTTCAAA
1 AATTACCAAAATACCC-TCAATTTGTAA
* * * *** *
88110582 AATTACAAAAATGCCTTTGGTTTGCAA
1 AATTACCAAAATACCCTCAATTTGTAA
* *
88110609 AATTACCAAAATACCCT-AGGTTTGTAG
1 AATTACCAAAATACCCTCA-ATTTGTAA
* *
88110636 ATTTACCAAAACACCCT
1 AATTACCAAAATACCCT
88110653 TGTTGGGTGA
Statistics
Matches: 255, Mismatches: 52, Indels: 14
0.79 0.16 0.04
Matches are distributed among these distances:
26 23 0.09
27 211 0.83
28 21 0.08
ACGTcount: A:0.43, C:0.21, G:0.08, T:0.28
Consensus pattern (27 bp):
AATTACCAAAATACCCTCAATTTGTAA
Found at i:88110944 original size:41 final size:41
Alignment explanation
Indices: 88110899--88111012 Score: 165
Period size: 41 Copynumber: 2.8 Consensus size: 41
88110889 GAAATTGAGG
*
88110899 ATCGCATGGTTGCTTGACGACCGTGGATCCACCGGTTAAGA
1 ATCGCATGGTTGCTTGACGACCGTGGATCCACCGATTAAGA
* *
88110940 ATCGCATGATTGCTTGACGACCGTGGATCCACCGATTAAGG
1 ATCGCATGGTTGCTTGACGACCGTGGATCCACCGATTAAGA
* * * *
88110981 ATTGCATGGTTGTTTGATGACTGTGGATCCAC
1 ATCGCATGGTTGCTTGACGACCGTGGATCCAC
88111013 AGGTGGTTTT
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 65 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (41 bp):
ATCGCATGGTTGCTTGACGACCGTGGATCCACCGATTAAGA
Found at i:88114406 original size:81 final size:81
Alignment explanation
Indices: 88114188--88114528 Score: 285
Period size: 81 Copynumber: 4.2 Consensus size: 81
88114178 TATAGAGTAG
* * * *
88114188 AATTACTGAAATACACTTAGTTTACAAAATTACCAAAATACCCTCGATTAGCAAAATTACC-AAG
1 AATTACCGAAATACCCTTAATTTACAAAATTACCAAAATACCCTCGATTTGCAAAATTACCGAA-
* *
88114252 ATACCCCTAGTTTGTAA
65 ATACCCTTAATTTGTAA
* * * *** * ** *
88114269 AATTACCAAAATACCCCTGATTTGTGAAATTACCGAAATACCCTCGACCTGTAAAATTACCGAAA
1 AATTACCGAAATACCCTTAATTTACAAAATTACCAAAATACCCTCGATTTGCAAAATTACCGAAA
*
88114334 TACCCTTAACTTGTAA
66 TACCCTTAATTTGTAA
** * * **
88114350 AATTACCGAAATACCCTTAATTTGTAAAATTACCAAAATA-CCTCTAATTTGGAAAATTAATGAA
1 AATTACCGAAATACCCTTAATTTACAAAATTACCAAAATACCCTC-GATTTGCAAAATTACCGAA
* *
88114414 ATACCCTTGATTTGAAA
65 ATACCCTTAATTTGTAA
* ** * **
88114431 AATTACAGAAATACCC-TAATTTACAAAATTAAAAAAATACCCTTGACTTT-CAAAAATTACAAA
1 AATTACCGAAATACCCTTAATTTACAAAATTACCAAAATACCCTCGA-TTTGC-AAAATTACCGA
** ** *
88114494 AATACTATTGGTTTGCAA
64 AATACCCTTAATTTGTAA
*
88114512 AATTACCAAAATACCCT
1 AATTACCGAAATACCCT
88114529 AGGTTTGTAA
Statistics
Matches: 206, Mismatches: 48, Indels: 11
0.78 0.18 0.04
Matches are distributed among these distances:
80 24 0.12
81 180 0.87
82 2 0.01
ACGTcount: A:0.43, C:0.20, G:0.08, T:0.29
Consensus pattern (81 bp):
AATTACCGAAATACCCTTAATTTACAAAATTACCAAAATACCCTCGATTTGCAAAATTACCGAAA
TACCCTTAATTTGTAA
Found at i:88114533 original size:27 final size:27
Alignment explanation
Indices: 88114212--88114535 Score: 232
Period size: 27 Copynumber: 12.0 Consensus size: 27
88114202 ACTTAGTTTA
* *
88114212 CAAAATTACCAAAATACCCTCGATTAG
1 CAAAATTACCAAAATACCCTAGATTTG
*
88114239 CAAAATTACCAAGATACCCCTAG-TTTG
1 CAAAATTACCAAAATA-CCCTAGATTTG
*
88114266 TAAAATTACCAAAATACCCCT-GATTTG
1 CAAAATTACCAAAATA-CCCTAGATTTG
** * * **
88114293 TGAAATTACCGAAATACCCTCGACCTG
1 CAAAATTACCAAAATACCCTAGATTTG
* * *
88114320 TAAAATTACCGAAATACCCTTA-ACTTG
1 CAAAATTACCAAAATACCC-TAGATTTG
* *
88114347 TAAAATTACCGAAATACCCTTA-ATTTG
1 CAAAATTACCAAAATACCC-TAGATTTG
*
88114374 TAAAATTACCAAAATACCTCTA-ATTTG
1 CAAAATTACCAAAATACC-CTAGATTTG
* *** *
88114401 GAAAATTAATGAAATACCCTTGATTTG
1 CAAAATTACCAAAATACCCTAGATTTG
* *
88114428 AAAAATTA-CAGAAATACCCTA-ATTTA
1 CAAAATTACCA-AAATACCCTAGATTTG
** *
88114454 CAAAATTAAAAAAATACCCTTGACTTT-
1 CAAAATTACCAAAATACCCTAGA-TTTG
* ** * *
88114481 CAAAAATTACAAAAATACTATTGGTTTG
1 C-AAAATTACCAAAATACCCTAGATTTG
*
88114509 CAAAATTACCAAAATACCCTAGGTTTG
1 CAAAATTACCAAAATACCCTAGATTTG
88114536 TAAATGTAAC
Statistics
Matches: 250, Mismatches: 35, Indels: 24
0.81 0.11 0.08
Matches are distributed among these distances:
26 27 0.11
27 194 0.78
28 29 0.12
ACGTcount: A:0.43, C:0.20, G:0.09, T:0.29
Consensus pattern (27 bp):
CAAAATTACCAAAATACCCTAGATTTG
Found at i:88115599 original size:11 final size:11
Alignment explanation
Indices: 88115585--88115637 Score: 74
Period size: 11 Copynumber: 5.0 Consensus size: 11
88115575 ATATATCATA
88115585 GCATATCATGT
1 GCATATCATGT
*
88115596 GCATATCAT-A
1 GCATATCATGT
*
88115606 ACATATCATGT
1 GCATATCATGT
88115617 GCATATCATGT
1 GCATATCATGT
88115628 -CATATCATGT
1 GCATATCATGT
88115638 ATATCAATGT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
10 18 0.49
11 19 0.51
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36
Consensus pattern (11 bp):
GCATATCATGT
Found at i:88115601 original size:21 final size:21
Alignment explanation
Indices: 88115577--88115637 Score: 97
Period size: 21 Copynumber: 2.9 Consensus size: 21
88115567 TATAGTGAAT
88115577 ATATCATAGCATATCATGTGC
1 ATATCATAGCATATCATGTGC
*
88115598 ATATCATAACATATCATGTGC
1 ATATCATAGCATATCATGTGC
88115619 ATATCAT-GTCATATCATGT
1 ATATCATAG-CATATCATGT
88115638 ATATCAATGT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.36
Consensus pattern (21 bp):
ATATCATAGCATATCATGTGC
Found at i:88115605 original size:5 final size:5
Alignment explanation
Indices: 88115577--88115635 Score: 55
Period size: 5 Copynumber: 11.4 Consensus size: 5
88115567 TATAGTGAAT
* * * * *
88115577 ATATC ATAGC ATATC ATGTGC ATATC ATAAC ATATC ATGTGC ATATC ATGTC
1 ATATC ATATC ATATC ATAT-C ATATC ATATC ATATC ATAT-C ATATC ATATC
88115629 ATATC AT
1 ATATC AT
88115636 GTATATCAAT
Statistics
Matches: 42, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
5 34 0.81
6 8 0.19
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.36
Consensus pattern (5 bp):
ATATC
Found at i:88115647 original size:10 final size:10
Alignment explanation
Indices: 88115577--88115643 Score: 75
Period size: 10 Copynumber: 6.6 Consensus size: 10
88115567 TATAGTGAAT
88115577 ATATCATAG-C
1 ATATCAT-GTC
88115587 ATATCATGTGC
1 ATATCATGT-C
**
88115598 ATATCATAAC
1 ATATCATGTC
88115608 ATATCATGTGC
1 ATATCATGT-C
88115619 ATATCATGTC
1 ATATCATGTC
88115629 ATATCATGT-
1 ATATCATGTC
88115638 ATATCA
1 ATATCA
88115644 ATGTTTCATG
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
9 7 0.14
10 25 0.50
11 18 0.36
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.36
Consensus pattern (10 bp):
ATATCATGTC
Found at i:88115702 original size:25 final size:25
Alignment explanation
Indices: 88115674--88115722 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
88115664 ATAATCAAAC
* * *
88115674 CCTAGGGGTATAATAGTCATTTTTA
1 CCTAGGGGCAAAACAGTCATTTTTA
88115699 CCTAGGGGCAAAACAGTCATTTTT
1 CCTAGGGGCAAAACAGTCATTTTT
88115723 CATATTTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAACAGTCATTTTTA
Found at i:88117558 original size:41 final size:41
Alignment explanation
Indices: 88117506--88117628 Score: 183
Period size: 41 Copynumber: 3.0 Consensus size: 41
88117496 CGGAGGAAGA
* * *
88117506 AATTGAGGATCGCATGGTTGCTTGAAGACCGTGGATCCACC
1 AATTAAGGATCGCATGGTTGTTTGACGACCGTGGATCCACC
* *
88117547 AATTAATGATCGCATGGTTGTTTGACGACCGTGGATCCACT
1 AATTAAGGATCGCATGGTTGTTTGACGACCGTGGATCCACC
* *
88117588 GATTAAGGATCGCATAGTTGTTTGACGACCGTGGATCCACC
1 AATTAAGGATCGCATGGTTGTTTGACGACCGTGGATCCACC
88117629 GGTGGTTTTT
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 73 1.00
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (41 bp):
AATTAAGGATCGCATGGTTGTTTGACGACCGTGGATCCACC
Found at i:88121930 original size:2 final size:2
Alignment explanation
Indices: 88121923--88121954 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
88121913 TGATAAGGCC
88121923 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
88121955 CAAATACAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:88122632 original size:25 final size:24
Alignment explanation
Indices: 88122604--88122676 Score: 67
Period size: 25 Copynumber: 2.9 Consensus size: 24
88122594 ACCATTTATT
88122604 GAGAAGCT-TAAGAAAGCCAAATATC
1 GAGAAGCTATAAG--AGCCAAATATC
*
88122629 GAGAAGCTCATAAGAGCCAAATATT
1 GAGAAGCT-ATAAGAGCCAAATATC
* * *
88122654 GGGATGCTCATAAGAGCTAAATA
1 GAGAAGCT-ATAAGAGCCAAATA
88122677 ATGGGAAGCT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
25 38 0.90
27 4 0.10
ACGTcount: A:0.44, C:0.15, G:0.22, T:0.19
Consensus pattern (24 bp):
GAGAAGCTATAAGAGCCAAATATC
Done.