Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007923.1 Hibiscus syriacus cultivar Beakdansim tig00110328_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 8415618
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 20 of 40
Found at i:4062470 original size:21 final size:21
Alignment explanation
Indices: 4062446--4062494 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
4062436 GGCATATGAT
4062446 ATGGCTGCGGTA-CCATCTGAA
1 ATGGCTGCGG-AGCCATCTGAA
* *
4062467 ATGGTTGTGGAGCCATCTGAA
1 ATGGCTGCGGAGCCATCTGAA
*
4062488 ACGGCTG
1 ATGGCTG
4062495 TGGAATGTAC
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 1 0.04
21 22 0.96
ACGTcount: A:0.22, C:0.20, G:0.33, T:0.24
Consensus pattern (21 bp):
ATGGCTGCGGAGCCATCTGAA
Found at i:4062496 original size:21 final size:21
Alignment explanation
Indices: 4062458--4062498 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
4062448 GGCTGCGGTA
* *
4062458 CCATCTGAAATGGTTGTGGAG
1 CCATCTGAAACGGCTGTGGAG
4062479 CCATCTGAAACGGCTGTGGA
1 CCATCTGAAACGGCTGTGGA
4062499 ATGTACAACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.24
Consensus pattern (21 bp):
CCATCTGAAACGGCTGTGGAG
Found at i:4062615 original size:21 final size:21
Alignment explanation
Indices: 4062590--4062659 Score: 95
Period size: 21 Copynumber: 3.3 Consensus size: 21
4062580 CCATGAGTCA
* **
4062590 GGGGACGATGATGTTGTGTTG
1 GGGGACGATGATGTTATGACG
4062611 GGGGACGATGATGTTATGACG
1 GGGGACGATGATGTTATGACG
*
4062632 GGGGACGATGATATTATGACG
1 GGGGACGATGATGTTATGACG
*
4062653 GTGGACG
1 GGGGACG
4062660 TCTTTGTCGA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.21, C:0.09, G:0.44, T:0.26
Consensus pattern (21 bp):
GGGGACGATGATGTTATGACG
Found at i:4063305 original size:20 final size:22
Alignment explanation
Indices: 4063270--4063323 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
4063260 CCTATTTAAT
*
4063270 TAAATAAATTTTATT-ATATAC
1 TAAATAAATATTATTAATATAC
4063291 TAAATAAA-ATTATTAATATAC
1 TAAATAAATATTATTAATATAC
* *
4063312 GAAATCAATATT
1 TAAATAAATATT
4063324 GTAATTACCT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.18
21 20 0.71
22 3 0.11
ACGTcount: A:0.52, C:0.06, G:0.02, T:0.41
Consensus pattern (22 bp):
TAAATAAATATTATTAATATAC
Found at i:4064116 original size:18 final size:18
Alignment explanation
Indices: 4064057--4064118 Score: 56
Period size: 18 Copynumber: 3.5 Consensus size: 18
4064047 ATAATATAGA
*
4064057 AATTAAAATATAAACTAAT
1 AATTAAAATATTAAC-AAT
* * *
4064076 -ACTAAAAAATTTA-AAT
1 AATTAAAATATTAACAAT
*
4064092 AAATAAAATATTAACAAT
1 AATTAAAATATTAACAAT
4064110 AATTAAAAT
1 AATTAAAAT
4064119 TAAAATTAAA
Statistics
Matches: 33, Mismatches: 8, Indels: 5
0.72 0.17 0.11
Matches are distributed among these distances:
16 3 0.09
17 10 0.30
18 20 0.61
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.31
Consensus pattern (18 bp):
AATTAAAATATTAACAAT
Found at i:4065183 original size:20 final size:20
Alignment explanation
Indices: 4065160--4065208 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
4065150 GCGAACTTGT
* *
4065160 AATTGGCAACACAGAAGTCA
1 AATTCGCAACACAAAAGTCA
*
4065180 AATTCACAACACAAAAGTCA
1 AATTCGCAACACAAAAGTCA
4065200 AATTCGCAA
1 AATTCGCAA
4065209 AGCGCGTTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.49, C:0.22, G:0.12, T:0.16
Consensus pattern (20 bp):
AATTCGCAACACAAAAGTCA
Found at i:4065794 original size:20 final size:20
Alignment explanation
Indices: 4065741--4065841 Score: 143
Period size: 20 Copynumber: 5.0 Consensus size: 20
4065731 AAATCGCAAC
4065741 GCGATTTT-ATTTTCGCGTT
1 GCGATTTTCATTTTCGCGTT
*
4065760 ACGATTTTTCATTTTCGCGTT
1 GCGA-TTTTCATTTTCGCGTT
*
4065781 GCGATTTTCGTTTTCGCGTT
1 GCGATTTTCATTTTCGCGTT
4065801 GCGATTTTCATTTTCGCGTT
1 GCGATTTTCATTTTCGCGTT
*
4065821 GCGAATTTT-ATTTTCGTGTT
1 GCG-ATTTTCATTTTCGCGTT
4065841 G
1 G
4065842 TGAATTTATG
Statistics
Matches: 74, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
19 3 0.04
20 52 0.70
21 19 0.26
ACGTcount: A:0.11, C:0.17, G:0.21, T:0.51
Consensus pattern (20 bp):
GCGATTTTCATTTTCGCGTT
Found at i:4066673 original size:45 final size:43
Alignment explanation
Indices: 4066575--4066674 Score: 112
Period size: 45 Copynumber: 2.3 Consensus size: 43
4066565 GCACATTCAA
* *
4066575 TGTGCATCGATACACTCTTTAAAAAAGAAACATCGAATGCAAT
1 TGTGCATCGATACACCCTTTAAAAAAGAAACATCGAAGGCAAT
* *
4066618 TGGTGCATCGATACATCCCTTT-AAAATGAAAACATCGAAGGTAAGT
1 T-GTGCATCGATACA-CCCTTTAAAAAAG-AAACATCGAAGGCAA-T
*
4066664 TGTGTATCGAT
1 TGTGCATCGAT
4066675 GCATGGGTAG
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
43 1 0.02
44 18 0.38
45 27 0.56
46 2 0.04
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.28
Consensus pattern (43 bp):
TGTGCATCGATACACCCTTTAAAAAAGAAACATCGAAGGCAAT
Found at i:4066712 original size:24 final size:21
Alignment explanation
Indices: 4066685--4066741 Score: 71
Period size: 20 Copynumber: 2.6 Consensus size: 21
4066675 GCATGGGTAG
4066685 TGCATCGATGCACATGTTAAAGAA
1 TGCATCGATGCACATG-T--AGAA
*
4066709 TGCATCGATGCA-TTGTAGAA
1 TGCATCGATGCACATGTAGAA
4066729 TGCATCGATGCAC
1 TGCATCGATGCAC
4066742 TTCAAGGGGA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
20 16 0.52
22 1 0.03
23 2 0.06
24 12 0.39
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (21 bp):
TGCATCGATGCACATGTAGAA
Found at i:4068429 original size:23 final size:23
Alignment explanation
Indices: 4068396--4068455 Score: 77
Period size: 23 Copynumber: 2.6 Consensus size: 23
4068386 AACCTTATAT
*
4068396 GGCACTTCGGT-TAATTTCTACGC
1 GGCACTTCGGTGCAA-TTCTACGC
* *
4068419 GGCACTACGGTGCAATTCTACGT
1 GGCACTTCGGTGCAATTCTACGC
4068442 GGCACTTCGGTGCA
1 GGCACTTCGGTGCA
4068456 TTTATATGAG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
23 30 0.94
24 2 0.06
ACGTcount: A:0.18, C:0.27, G:0.27, T:0.28
Consensus pattern (23 bp):
GGCACTTCGGTGCAATTCTACGC
Found at i:4072046 original size:20 final size:22
Alignment explanation
Indices: 4071995--4072054 Score: 79
Period size: 20 Copynumber: 2.7 Consensus size: 22
4071985 ATGTATGGGT
4071995 AATGCATCGATGCACATGTTAAAG
1 AATGCATCGATGCAC-TGTT-AAG
*
4072019 AATACATCGATGCACTG-T-AG
1 AATGCATCGATGCACTGTTAAG
4072039 AATGCATCGATGCACT
1 AATGCATCGATGCACT
4072055 TCAAGGGGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 17 0.50
22 1 0.03
23 2 0.06
24 14 0.41
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (22 bp):
AATGCATCGATGCACTGTTAAG
Found at i:4077517 original size:22 final size:22
Alignment explanation
Indices: 4077491--4077618 Score: 129
Period size: 23 Copynumber: 5.9 Consensus size: 22
4077481 ATAGGGCAGA
4077491 GGGAATCGATACCCCCTTGAAG
1 GGGAATCGATACCCCCTTGAAG
* *
4077513 GGGAACCGATTCCCCCTTTGAAG
1 GGGAATCGATACCCCC-TTGAAG
* * *
4077536 GAGAACCGATACCCCATTGAAG
1 GGGAATCGATACCCCCTTGAAG
* *
4077558 AGGAATCGATTCCCCCTTTGAAG
1 GGGAATCGATACCCCC-TTGAAG
*
4077581 GGGAA-CTGATTCCCCC-T--AG
1 GGGAATC-GATACCCCCTTGAAG
4077600 GGGAATCGATACCCCCTTG
1 GGGAATCGATACCCCCTTG
4077619 GGGTTCTATT
Statistics
Matches: 88, Mismatches: 12, Indels: 13
0.78 0.11 0.12
Matches are distributed among these distances:
19 15 0.17
20 2 0.02
21 1 0.01
22 32 0.36
23 38 0.43
ACGTcount: A:0.26, C:0.29, G:0.25, T:0.20
Consensus pattern (22 bp):
GGGAATCGATACCCCCTTGAAG
Found at i:4077568 original size:45 final size:45
Alignment explanation
Indices: 4077497--4077595 Score: 144
Period size: 45 Copynumber: 2.2 Consensus size: 45
4077487 CAGAGGGAAT
* *
4077497 CGATACCCCCTTGAAGGGGAACCGATTCCCCCTTTGAAGGAGAAC
1 CGATACCCCATTGAAGAGGAACCGATTCCCCCTTTGAAGGAGAAC
* *
4077542 CGATACCCCATTGAAGAGGAATCGATTCCCCCTTTGAAGGGGAAC
1 CGATACCCCATTGAAGAGGAACCGATTCCCCCTTTGAAGGAGAAC
* *
4077587 TGATTCCCC
1 CGATACCCC
4077596 CTAGGGGAAT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.26, C:0.30, G:0.23, T:0.20
Consensus pattern (45 bp):
CGATACCCCATTGAAGAGGAACCGATTCCCCCTTTGAAGGAGAAC
Found at i:4077614 original size:19 final size:19
Alignment explanation
Indices: 4077579--4077621 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
4077569 CCCCCTTTGA
*
4077579 AGGGGAACTGATTCCCCCT
1 AGGGGAACTGATACCCCCT
4077598 AGGGGAA-TCGATACCCCCT
1 AGGGGAACT-GATACCCCCT
*
4077617 TGGGG
1 AGGGG
4077622 TTCTATTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 1 0.05
19 20 0.95
ACGTcount: A:0.21, C:0.28, G:0.33, T:0.19
Consensus pattern (19 bp):
AGGGGAACTGATACCCCCT
Found at i:4079023 original size:20 final size:20
Alignment explanation
Indices: 4078998--4079039 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
4078988 CTAGTATGCT
4078998 CAGAGGGAACCGATTCCCCC
1 CAGAGGGAACCGATTCCCCC
* *
4079018 CAGAGGGTACCGATTCTCCC
1 CAGAGGGAACCGATTCCCCC
4079038 CA
1 CA
4079040 CTGTTCAATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.24, C:0.38, G:0.24, T:0.14
Consensus pattern (20 bp):
CAGAGGGAACCGATTCCCCC
Found at i:4080346 original size:23 final size:23
Alignment explanation
Indices: 4080313--4080380 Score: 100
Period size: 23 Copynumber: 3.0 Consensus size: 23
4080303 AACCTTATAT
4080313 GGCACTTCGGTGCATTTCTACGC
1 GGCACTTCGGTGCATTTCTACGC
* * *
4080336 GGCACTACGGTGCAATTCTACGT
1 GGCACTTCGGTGCATTTCTACGC
*
4080359 GGCACTTCGGTGCATTTATACG
1 GGCACTTCGGTGCATTTCTACG
4080381 AGCTGTGGTG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.18, C:0.26, G:0.26, T:0.29
Consensus pattern (23 bp):
GGCACTTCGGTGCATTTCTACGC
Found at i:4082678 original size:42 final size:42
Alignment explanation
Indices: 4082619--4082715 Score: 131
Period size: 42 Copynumber: 2.3 Consensus size: 42
4082609 CCCCACTTCA
* * * *
4082619 AGAGCCATCACCTGATCGAGCCGATTCTACAGCTCGACACCC
1 AGAGCCATCACCTGATCGAGCCGATTATACACCTCCACAACC
* **
4082661 AGAGCCATCACCTGATCGAGTCGATTATACACCTCCACAATG
1 AGAGCCATCACCTGATCGAGCCGATTATACACCTCCACAACC
4082703 AGAGCCATCACCT
1 AGAGCCATCACCT
4082716 ATTCCATCAT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.29, C:0.35, G:0.18, T:0.19
Consensus pattern (42 bp):
AGAGCCATCACCTGATCGAGCCGATTATACACCTCCACAACC
Found at i:4084724 original size:16 final size:16
Alignment explanation
Indices: 4084695--4084730 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
4084685 TGTAAATAAG
* *
4084695 AATTGTTTTTTTGTTT
1 AATTGATTTGTTGTTT
4084711 AATTGATTTGTTGTTT
1 AATTGATTTGTTGTTT
4084727 AATT
1 AATT
4084731 TCAATCTGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.19, C:0.00, G:0.14, T:0.67
Consensus pattern (16 bp):
AATTGATTTGTTGTTT
Found at i:4084865 original size:29 final size:29
Alignment explanation
Indices: 4084787--4084924 Score: 136
Period size: 29 Copynumber: 5.1 Consensus size: 29
4084777 AATTCGCAAC
*
4084787 GCGAAAGTCAAA-TTCGCATTGCGATTGTT
1 GCGAAAGTCAAATTTC-CGTTGCGATTGTT
*
4084816 GCGAAAGTCAAA-TTCGTGTTGCGATTGTT
1 GCGAAAGTCAAATTTC-CGTTGCGATTGTT
4084845 GCGAAAGTCAAATTT-C----C----GTT
1 GCGAAAGTCAAATTTCCGTTGCGATTGTT
4084865 GCGAAAGTCAAATTTCCGTTGCGATTGTT
1 GCGAAAGTCAAATTTCCGTTGCGATTGTT
* * *
4084894 GCGAAAGTTAAATTTCCGTTACGATTTTT
1 GCGAAAGTCAAATTTCCGTTGCGATTGTT
4084923 GC
1 GC
4084925 ATTACGAATT
Statistics
Matches: 93, Mismatches: 6, Indels: 20
0.78 0.05 0.17
Matches are distributed among these distances:
20 18 0.19
21 1 0.01
24 1 0.01
25 1 0.01
29 70 0.75
30 2 0.02
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (29 bp):
GCGAAAGTCAAATTTCCGTTGCGATTGTT
Found at i:4084867 original size:20 final size:20
Alignment explanation
Indices: 4084842--4084888 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
4084832 TGTTGCGATT
4084842 GTTGCGAAAGTCAAATTTCC
1 GTTGCGAAAGTCAAATTTCC
4084862 GTTGCGAAAGTCAAATTTCC
1 GTTGCGAAAGTCAAATTTCC
4084882 GTTGCGA
1 GTTGCGA
4084889 TTGTTGCGAA
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:0.19, G:0.23, T:0.30
Consensus pattern (20 bp):
GTTGCGAAAGTCAAATTTCC
Found at i:4084867 original size:49 final size:49
Alignment explanation
Indices: 4084813--4084913 Score: 168
Period size: 49 Copynumber: 2.1 Consensus size: 49
4084803 CATTGCGATT
*
4084813 GTTGCGAAAGTCAAA-TTCGTGTTGCGATTGTTGCGAAAGTCAAATTTCC
1 GTTGCGAAAGTCAAATTTC-CGTTGCGATTGTTGCGAAAGTCAAATTTCC
*
4084862 GTTGCGAAAGTCAAATTTCCGTTGCGATTGTTGCGAAAGTTAAATTTCC
1 GTTGCGAAAGTCAAATTTCCGTTGCGATTGTTGCGAAAGTCAAATTTCC
4084911 GTT
1 GTT
4084914 ACGATTTTTG
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
49 46 0.94
50 3 0.06
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.35
Consensus pattern (49 bp):
GTTGCGAAAGTCAAATTTCCGTTGCGATTGTTGCGAAAGTCAAATTTCC
Found at i:4085181 original size:18 final size:18
Alignment explanation
Indices: 4085158--4085193 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
4085148 AAGCCGGTTG
*
4085158 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
4085176 TGATTGCGATTTTGATTT
1 TGATTGCGATTTTGATTT
4085194 CCTTTTGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.03, G:0.25, T:0.56
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:4087265 original size:3 final size:3
Alignment explanation
Indices: 4087257--4087287 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
4087247 TCTTCGGGCA
*
4087257 CTT CTT CTT CTT CTT CTT CTT TTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
4087288 AGGGTTATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
CTT
Found at i:4087496 original size:24 final size:24
Alignment explanation
Indices: 4087462--4087515 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
4087452 CTAAAACATC
4087462 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* * *
4087486 ATCAAAGTCCGGGTATTGGCCAAG
1 ATCAAAATCCGAGTATTGACCAAG
4087510 ATCAAA
1 ATCAAA
4087516 TTTTGAATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:4087662 original size:12 final size:12
Alignment explanation
Indices: 4087641--4087674 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
4087631 TGTTTTGGGT
*
4087641 TTTGAGATTGTG
1 TTTGATATTGTG
4087653 TTTGATATTGTG
1 TTTGATATTGTG
*
4087665 TTTGGTATTG
1 TTTGATATTG
4087675 GAAATGTGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.29, T:0.56
Consensus pattern (12 bp):
TTTGATATTGTG
Found at i:4089212 original size:56 final size:56
Alignment explanation
Indices: 4089100--4089223 Score: 169
Period size: 56 Copynumber: 2.2 Consensus size: 56
4089090 CTTAAACCTG
* * * * *
4089100 AACCCGACCCAAAGATCACACTTAAAAAAACTCGACCCGAATATCACACTTAAAAA
1 AACCCGACCCGAAGATCACACTTAAAAAAACCCGACCCGAATATAAAAATTAAAAA
* *
4089156 AACCCGACCCGAATATCACACTTAAAAAAACCCGACCCGAATATAAAAATTTAAAA
1 AACCCGACCCGAAGATCACACTTAAAAAAACCCGACCCGAATATAAAAATTAAAAA
*
4089212 AA-CCTACCCGAA
1 AACCCGACCCGAA
4089224 CTCGAATTTT
Statistics
Matches: 60, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
55 9 0.15
56 51 0.85
ACGTcount: A:0.48, C:0.30, G:0.07, T:0.15
Consensus pattern (56 bp):
AACCCGACCCGAAGATCACACTTAAAAAAACCCGACCCGAATATAAAAATTAAAAA
Found at i:4089215 original size:28 final size:28
Alignment explanation
Indices: 4089100--4089199 Score: 173
Period size: 28 Copynumber: 3.6 Consensus size: 28
4089090 CTTAAACCTG
* *
4089100 AACCCGACCCAAAGATCACACTTAAAAA
1 AACCCGACCCGAATATCACACTTAAAAA
*
4089128 AACTCGACCCGAATATCACACTTAAAAA
1 AACCCGACCCGAATATCACACTTAAAAA
4089156 AACCCGACCCGAATATCACACTTAAAAA
1 AACCCGACCCGAATATCACACTTAAAAA
4089184 AACCCGACCCGAATAT
1 AACCCGACCCGAATAT
4089200 AAAAATTTAA
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 68 1.00
ACGTcount: A:0.46, C:0.32, G:0.08, T:0.14
Consensus pattern (28 bp):
AACCCGACCCGAATATCACACTTAAAAA
Found at i:4089239 original size:30 final size:30
Alignment explanation
Indices: 4089205--4089265 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
4089195 AATATAAAAA
* *
4089205 TTTAAAAAA-CCTACCCGAACTCGAATTTTT
1 TTTAAAAAATCCGAACCGAACTCG-ATTTTT
*
4089235 TTTAAAAAATCCGAACCGATCTCGATTTTT
1 TTTAAAAAATCCGAACCGAACTCGATTTTT
4089265 T
1 T
4089266 AAAAAAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 16 0.59
31 11 0.41
ACGTcount: A:0.34, C:0.21, G:0.08, T:0.36
Consensus pattern (30 bp):
TTTAAAAAATCCGAACCGAACTCGATTTTT
Found at i:4089364 original size:31 final size:33
Alignment explanation
Indices: 4089284--4089349 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
4089274 AACTAACCAG
* *
4089284 ACCCGATCCCGACCAGAATATCACACTTTAAAAA
1 ACCCGA-CCCGACCCGAATATCAAACTTTAAAAA
4089318 ACCCGACCCGACCCGAATATCAAAC-TTAAAAA
1 ACCCGACCCGACCCGAATATCAAACTTTAAAAA
4089350 TCTGACTCGA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 7 0.23
33 17 0.57
34 6 0.20
ACGTcount: A:0.42, C:0.33, G:0.09, T:0.15
Consensus pattern (33 bp):
ACCCGACCCGACCCGAATATCAAACTTTAAAAA
Found at i:4092719 original size:34 final size:34
Alignment explanation
Indices: 4092676--4092745 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
4092666 AGAAAACGAC
4092676 TAGGATTTTGTTTGGGATTTAAATATATAATGTT
1 TAGGATTTTGTTTGGGATTTAAATATATAATGTT
*
4092710 TAGGATTTTGTTTGTGATTTAAATATATAATGTT
1 TAGGATTTTGTTTGGGATTTAAATATATAATGTT
4092744 TA
1 TA
4092746 ATTTAAAGAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.30, C:0.00, G:0.19, T:0.51
Consensus pattern (34 bp):
TAGGATTTTGTTTGGGATTTAAATATATAATGTT
Found at i:4093512 original size:19 final size:19
Alignment explanation
Indices: 4093490--4093528 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
4093480 GTAAAGAGGA
4093490 AAAAGTAAAGTTAAGATAG
1 AAAAGTAAAGTTAAGATAG
4093509 AAAAGTAAAGTTAAGATAG
1 AAAAGTAAAGTTAAGATAG
4093528 A
1 A
4093529 GAAGCAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.21, T:0.21
Consensus pattern (19 bp):
AAAAGTAAAGTTAAGATAG
Found at i:4093543 original size:4 final size:4
Alignment explanation
Indices: 4093534--4093623 Score: 65
Period size: 4 Copynumber: 20.5 Consensus size: 4
4093524 ATAGAGAAGC
* * *
4093534 AAAT AAAT AAAAT AAAGAT AAAG AAAG AAAT GAAAT -AAG AAAT AAAAT
1 AAAT AAAT -AAAT -AA-AT AAAT AAAT AAAT -AAAT AAAT AAAT -AAAT
4093582 AAAT AAAT AAAT AACAT ATACCAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AA-AT A-A--AT AAAT AAAT AAAT AAAT AA
4093624 GAACAAGAAT
Statistics
Matches: 74, Mismatches: 4, Indels: 16
0.79 0.04 0.17
Matches are distributed among these distances:
3 2 0.03
4 44 0.59
5 20 0.27
6 4 0.05
7 4 0.05
ACGTcount: A:0.71, C:0.03, G:0.06, T:0.20
Consensus pattern (4 bp):
AAAT
Found at i:4093593 original size:24 final size:24
Alignment explanation
Indices: 4093534--4093620 Score: 72
Period size: 24 Copynumber: 3.7 Consensus size: 24
4093524 ATAGAGAAGC
* *
4093534 AAATAAATAAAATAAAGAT-AAAG
1 AAATAAATAAAATAAAAATAAAAT
* *
4093557 AAAGAAATGAAATAAGAAATAAAAT
1 AAATAAATAAAATAA-AAATAAAAT
* **
4093582 AAATAAAT-AAATAACATATACCAT
1 AAATAAATAAAATAA-AAATAAAAT
4093606 AAATAAAT-AAATAAA
1 AAATAAATAAAATAAA
4093621 TAAGAACAAG
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
23 14 0.26
24 29 0.55
25 10 0.19
ACGTcount: A:0.71, C:0.03, G:0.06, T:0.20
Consensus pattern (24 bp):
AAATAAATAAAATAAAAATAAAAT
Found at i:4094164 original size:20 final size:20
Alignment explanation
Indices: 4094136--4094206 Score: 115
Period size: 20 Copynumber: 3.5 Consensus size: 20
4094126 TTCCTAATTT
*
4094136 GCAATGCGAATACGTAAATC
1 GCAACGCGAATACGTAAATC
*
4094156 GCAACGCGAATATGTAAATC
1 GCAACGCGAATACGTAAATC
*
4094176 GCAATGCGAATACGTAAATC
1 GCAACGCGAATACGTAAATC
4094196 GCAACGCGAAT
1 GCAACGCGAAT
4094207 CTGACTATCG
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.18
Consensus pattern (20 bp):
GCAACGCGAATACGTAAATC
Found at i:4094216 original size:20 final size:20
Alignment explanation
Indices: 4094193--4094239 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
4094183 GAATACGTAA
*
4094193 ATCGCAACGCGAATCTGACT
1 ATCGCAACGAGAATCTGACT
*
4094213 ATCGCAACGAGATTCTGACT
1 ATCGCAACGAGAATCTGACT
4094233 ATCGCAA
1 ATCGCAA
4094240 TACTGAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.21
Consensus pattern (20 bp):
ATCGCAACGAGAATCTGACT
Found at i:4095340 original size:23 final size:23
Alignment explanation
Indices: 4095314--4095358 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
4095304 CACCACAGCT
*
4095314 CGTATAATTGCACCGAAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCG
*
4095337 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAATTGCACCGAAGTGCC
4095359 ATATAACAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.24, C:0.27, G:0.27, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCG
Found at i:4095579 original size:149 final size:149
Alignment explanation
Indices: 4095326--4095640 Score: 542
Period size: 149 Copynumber: 2.1 Consensus size: 149
4095316 TATAATTGCA
*
4095326 CCGAAGTG-CCGCGTAGAATTGCACCGTAGTGCCATATAACAATGTCCATAAGGACCACATATTA
1 CCGAAG-GACCGCGTAGAATTGCACCGTAGTGCCATATAACAATGTCCATAAAGACCACATATTA
4095390 TTCCTTAAGAATCATATACATATACTAGGGATCAAATATGTGTCTTTCAAGACTTCACACATGTT
65 TTCCTTAAGAATCATATACATATACTAGGGATCAAATATGTGTCTTTCAAGACTTCACACATGTT
* * *
4095455 CCACAGAATATATATCTATC
130 CCAAAGAATATACATATATC
*
4095475 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAAGACCACATATTAT
1 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAACAATGTCCATAAAGACCACATATTAT
*
4095540 TCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTC
66 TCCTTAAGAATCATATACATATACTAGGGATCAAATATGTGTCTTTCAAGACTTCACACATGTTC
*
4095605 CAAAGAATATACATATGTC
131 CAAAGAATATACATATATC
*
4095624 TCGAAGGACCGCGTAGA
1 CCGAAGGACCGCGTAGA
4095641 CCCTCGACTC
Statistics
Matches: 157, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
148 1 0.01
149 156 0.99
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.28
Consensus pattern (149 bp):
CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAACAATGTCCATAAAGACCACATATTAT
TCCTTAAGAATCATATACATATACTAGGGATCAAATATGTGTCTTTCAAGACTTCACACATGTTC
CAAAGAATATACATATATC
Found at i:4097123 original size:21 final size:21
Alignment explanation
Indices: 4097099--4097143 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
4097089 TGTTGTTCGT
* *
4097099 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
4097120 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
4097141 TTG
1 TTG
4097144 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:4098317 original size:24 final size:24
Alignment explanation
Indices: 4098290--4098343 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
4098280 GTATTCGAAA
4098290 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
4098314 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
4098338 TTTGAT
1 TTTGAT
4098344 GATTTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:4100798 original size:20 final size:19
Alignment explanation
Indices: 4100773--4100824 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 19
4100763 CAATGCGGAA
4100773 ATCGCAACGCGAATATGACT
1 ATCGCAACGCGAA-ATGACT
*
4100793 ATCGCAACACGGAAATGACT
1 ATCGCAACGC-GAAATGACT
*
4100813 ATCGCAAGGCGA
1 ATCGCAACGCGA
4100825 TTTTCATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 2 0.07
20 23 0.82
21 3 0.11
ACGTcount: A:0.37, C:0.25, G:0.23, T:0.15
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:4100864 original size:34 final size:34
Alignment explanation
Indices: 4100821--4100912 Score: 114
Period size: 33 Copynumber: 2.7 Consensus size: 34
4100811 CTATCGCAAG
*
4100821 GCGATTTTCATTTTCGCATTGCGTTTCACTCGTT
1 GCGATTTTCATTTTCGCATTGCGATTCACTCGTT
* *
4100855 GCGATTTTCA-TTTCGCATTGTGATTCTCTCGTT
1 GCGATTTTCATTTTCGCATTGCGATTCACTCGTT
** * *
4100888 GCGATAGTCATTTCCGCGTTGCGAT
1 GCGATTTTCATTTTCGCATTGCGAT
4100913 AGTCTGTTTT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
33 28 0.57
34 21 0.43
ACGTcount: A:0.13, C:0.23, G:0.21, T:0.43
Consensus pattern (34 bp):
GCGATTTTCATTTTCGCATTGCGATTCACTCGTT
Found at i:4101037 original size:14 final size:15
Alignment explanation
Indices: 4101018--4101055 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
4101008 CATCAATTAA
4101018 ACAAATCAAT-ATTT
1 ACAAATCAATCATTT
*
4101032 ACAAATC-ATCTTTT
1 ACAAATCAATCATTT
4101046 ACAAATCAAT
1 ACAAATCAAT
4101056 TAAACAATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 2 0.10
14 17 0.81
15 2 0.10
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.34
Consensus pattern (15 bp):
ACAAATCAATCATTT
Found at i:4103052 original size:20 final size:20
Alignment explanation
Indices: 4103029--4103073 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
4103019 CTTAAAATCG
4103029 CAACGCGAAAATGACTATCA
1 CAACGCGAAAATGACTATCA
*
4103049 CAACGCGAAAATGACTATCG
1 CAACGCGAAAATGACTATCA
4103069 CAACG
1 CAACG
4103074 AGAGAATCGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.42, C:0.27, G:0.18, T:0.13
Consensus pattern (20 bp):
CAACGCGAAAATGACTATCA
Found at i:4103137 original size:20 final size:20
Alignment explanation
Indices: 4103112--4103179 Score: 100
Period size: 20 Copynumber: 3.4 Consensus size: 20
4103102 CAACAACAAA
*
4103112 ATCGCAACGCAAAAATGACT
1 ATCGCAACACAAAAATGACT
* *
4103132 ATCGCAATACGAAAATGACT
1 ATCGCAACACAAAAATGACT
*
4103152 ATCGCAATACAAAAATGACT
1 ATCGCAACACAAAAATGACT
4103172 ATCGCAAC
1 ATCGCAAC
4103180 GAGAGAATCG
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.46, C:0.24, G:0.13, T:0.18
Consensus pattern (20 bp):
ATCGCAACACAAAAATGACT
Found at i:4103302 original size:19 final size:20
Alignment explanation
Indices: 4103223--4103381 Score: 155
Period size: 20 Copynumber: 8.6 Consensus size: 20
4103213 GAGATTCTTT
* **
4103223 CATTGCGCTAGTCAAATTCG
1 CATTGCGATAGTCATTTTCG
4103243 CATTGCGATAGTCATTTTCG
1 CATTGCGATAGTCATTTTCG
4103263 CATTGCGATAGTCATTTTCG
1 CATTGCGATAGTCATTTTCG
**
4103283 CATTGCGATTTTCA-TTTCG
1 CATTGCGATAGTCATTTTCG
*
4103302 CATTGCGAT--TC--TCTCG
1 CATTGCGATAGTCATTTTCG
*
4103318 --TTGCGAT--TC--TCTCG
1 CATTGCGATAGTCATTTTCG
4103332 --TTGCGATAGTCATTTTCG
1 CATTGCGATAGTCATTTTCG
*
4103350 CGTTGCGATAGTCATTTTCG
1 CATTGCGATAGTCATTTTCG
4103370 CATTGCGATAGT
1 CATTGCGATAGT
4103382 AAACTATTCT
Statistics
Matches: 125, Mismatches: 8, Indels: 12
0.86 0.06 0.08
Matches are distributed among these distances:
14 21 0.17
16 6 0.05
17 2 0.02
18 4 0.03
19 14 0.11
20 78 0.62
ACGTcount: A:0.18, C:0.22, G:0.21, T:0.40
Consensus pattern (20 bp):
CATTGCGATAGTCATTTTCG
Found at i:4103323 original size:14 final size:14
Alignment explanation
Indices: 4103304--4103338 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
4103294 TCATTTCGCA
4103304 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
4103318 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
4103332 TTGCGAT
1 TTGCGAT
4103339 AGTCATTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.09, C:0.26, G:0.23, T:0.43
Consensus pattern (14 bp):
TTGCGATTCTCTCG
Found at i:4105408 original size:22 final size:22
Alignment explanation
Indices: 4105346--4105411 Score: 87
Period size: 22 Copynumber: 3.0 Consensus size: 22
4105336 TAACCGTGAA
* *
4105346 TGATTTCGCCGGAGATGGAGAC
1 TGATTTCGTCGGAGATGGGGAC
* *
4105368 TGATATCGTCGGTGATGGGGAC
1 TGATTTCGTCGGAGATGGGGAC
*
4105390 TGATTTTGTCGGAGATGGGGAC
1 TGATTTCGTCGGAGATGGGGAC
4105412 GGATGTCGCC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.20, C:0.14, G:0.39, T:0.27
Consensus pattern (22 bp):
TGATTTCGTCGGAGATGGGGAC
Found at i:4105632 original size:20 final size:20
Alignment explanation
Indices: 4105609--4105742 Score: 178
Period size: 20 Copynumber: 6.7 Consensus size: 20
4105599 CGATAGTCAG
* *
4105609 ATTCACATTGCGATTTACAT
1 ATTCGCATTGCGATTTACGT
4105629 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
4105649 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
4105669 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
* * * * **
4105689 AATCGGATTGTGATTTTCCAA
1 ATTCGCATTGCGA-TTTACGT
*
4105710 ATTCGCGTTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
4105730 ATTCGCATTGCGA
1 ATTCGCATTGCGA
4105743 ATTAGGAAAA
Statistics
Matches: 97, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
20 84 0.87
21 13 0.13
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.39
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:4106978 original size:24 final size:26
Alignment explanation
Indices: 4106935--4106984 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 26
4106925 AAATTGAAAT
4106935 AAATTAAATGAATAAAATGAAATAAA
1 AAATTAAATGAATAAAATGAAATAAA
* *
4106961 AAATT-AAT-AATAATATGATATAAA
1 AAATTAAATGAATAAAATGAAATAAA
4106985 CTATATAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 14 0.64
25 3 0.14
26 5 0.23
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (26 bp):
AAATTAAATGAATAAAATGAAATAAA
Found at i:4107228 original size:38 final size:37
Alignment explanation
Indices: 4107152--4107281 Score: 165
Period size: 37 Copynumber: 3.5 Consensus size: 37
4107142 AAATTTTTAT
*
4107152 TATATAATTTTTCAAAAATGTTTTTAAAACTATATAC
1 TATATAATTTTTCAAAAATGTTTTAAAAACTATATAC
4107189 TATATAATTTTTCAAAAATGTTTTAAAAAACTATATAC
1 TATATAATTTTTCAAAAATGTTTT-AAAAACTATATAC
* * * *
4107227 TATATAAGATTTT--AAAATGTTTTAGAAGCTATATAA
1 TATATAA-TTTTTCAAAAATGTTTTAAAAACTATATAC
4107263 TATATAAATGTTTTCAAAA
1 TATAT-AAT-TTTTCAAAA
4107282 CTATATATTA
Statistics
Matches: 81, Mismatches: 6, Indels: 10
0.84 0.06 0.10
Matches are distributed among these distances:
36 15 0.19
37 40 0.49
38 19 0.23
39 7 0.09
ACGTcount: A:0.45, C:0.06, G:0.05, T:0.43
Consensus pattern (37 bp):
TATATAATTTTTCAAAAATGTTTTAAAAACTATATAC
Found at i:4107267 original size:36 final size:35
Alignment explanation
Indices: 4107152--4107338 Score: 151
Period size: 37 Copynumber: 5.3 Consensus size: 35
4107142 AAATTTTTAT
*
4107152 TATATAATTTTTCAAAAATGTTTTTAAAACTATATAC
1 TATATAAATTTT-AAAAATG-TTTTAAAACTATATAC
*
4107189 TATATAATTTTTCAAAAATGTTTTAAAAAACTATATAC
1 TATATAAATTTT-AAAAATGTTTT--AAAACTATATAC
*
4107227 TATATAAGATTTT-AAAATGTTTTAGAAGCTATATA-
1 TATATAA-ATTTTAAAAATGTTTTA-AAACTATATAC
*
4107262 -ATAT--A---T--AAATGTTTTCAAAACTATATAT
1 TATATAAATTTTAAAAATGTTTT-AAAACTATATAC
* * *
4107290 TATATATATTTTAAAAATATTTTACAAAACTATATAA
1 TATATAAATTTTAAAAATGTTTT--AAAACTATATAC
4107327 TATATAAATTTT
1 TATATAAATTTT
4107339 TGAAAATCGT
Statistics
Matches: 129, Mismatches: 6, Indels: 30
0.78 0.04 0.18
Matches are distributed among these distances:
27 18 0.14
28 2 0.02
29 4 0.03
31 2 0.02
34 5 0.04
35 1 0.01
36 21 0.16
37 53 0.41
38 19 0.15
39 4 0.03
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (35 bp):
TATATAAATTTTAAAAATGTTTTAAAACTATATAC
Found at i:4107271 original size:27 final size:27
Alignment explanation
Indices: 4107241--4107295 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
4107231 TAAGATTTTA
*
4107241 AAATGTTTT-AGAAGCTATATAATATAT
1 AAATGTTTTCA-AAACTATATAATATAT
*
4107268 AAATGTTTTCAAAACTATATATTATAT
1 AAATGTTTTCAAAACTATATAATATAT
4107295 A
1 A
4107296 TATTTTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 24 0.96
28 1 0.04
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.42
Consensus pattern (27 bp):
AAATGTTTTCAAAACTATATAATATAT
Found at i:4107276 original size:64 final size:64
Alignment explanation
Indices: 4107204--4107344 Score: 180
Period size: 63 Copynumber: 2.2 Consensus size: 64
4107194 AATTTTTCAA
* * *
4107204 AAATGTTTTAAAAAACTATATACTATATAAGATTTT-AAAATGTTTTA-GAAGCTATATAATATA
1 AAATGTTTT-AAAAACTATATACTATAT-AGATTTTAAAAATATTTTACAAAACTATATAATATA
4107267 T
64 T
* * *
4107268 AAATGTTTTCAAAACTATATATTATATATATTTTAAAAATATTTTACAAAACTATATAATATAT
1 AAATGTTTTAAAAACTATATACTATATAGATTTTAAAAATATTTTACAAAACTATATAATATAT
*
4107332 AAAT-TTTTGAAAA
1 AAATGTTTTAAAAA
4107345 TCGTTTAATG
Statistics
Matches: 68, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
62 6 0.09
63 34 0.50
64 28 0.41
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.42
Consensus pattern (64 bp):
AAATGTTTTAAAAACTATATACTATATAGATTTTAAAAATATTTTACAAAACTATATAATATAT
Found at i:4107301 original size:25 final size:27
Alignment explanation
Indices: 4107241--4107306 Score: 64
Period size: 27 Copynumber: 2.5 Consensus size: 27
4107231 TAAGATTTTA
* * *
4107241 AAATGTTTTAGAAGCTATATAATATAT
1 AAATATTTTAAAAACTATATAATATAT
* *
4107268 AAATGTTTTCAAAACTATAT-AT-TAT
1 AAATATTTTAAAAACTATATAATATAT
*
4107293 ATATATTTTAAAAA
1 AAATATTTTAAAAA
4107307 TATTTTACAA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
25 14 0.42
26 2 0.06
27 17 0.52
ACGTcount: A:0.47, C:0.05, G:0.06, T:0.42
Consensus pattern (27 bp):
AAATATTTTAAAAACTATATAATATAT
Found at i:4107416 original size:2 final size:2
Alignment explanation
Indices: 4107404--4107452 Score: 59
Period size: 2 Copynumber: 26.0 Consensus size: 2
4107394 ACTATATTAC
* *
4107404 TA TA TA CA TA TA TA TA TA TA TA -A TA -A AA T- TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4107443 TA TA TA TA TA
1 TA TA TA TA TA
4107453 ACAAAATAAC
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
1 3 0.07
2 38 0.93
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (2 bp):
TA
Found at i:4107436 original size:27 final size:27
Alignment explanation
Indices: 4107406--4107459 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
4107396 TATATTACTA
*
4107406 TATACATATATATATATATAATAAAAT
1 TATACATATATATATATATAACAAAAT
*
4107433 TATATATATATATATATATAACAAAAT
1 TATACATATATATATATATAACAAAAT
4107460 AACTCCGAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.41
Consensus pattern (27 bp):
TATACATATATATATATATAACAAAAT
Found at i:4108381 original size:84 final size:84
Alignment explanation
Indices: 4108014--4109214 Score: 948
Period size: 84 Copynumber: 14.5 Consensus size: 84
4108004 ACAATTTTAT
* * * * *
4108014 TGACAGATAGCCCTTTCTA-CCTTGAGCTATTCTGTAAATAATGTGCCTTGGAGCTGAGCGTAGT
1 TGACAGATAACCC-TTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGT
4108078 CGAACTCGAAGGT-TTTT-G
65 CGAACTCGAAGGTCTTTTGG
* * * * * * * * *
4108096 -G-CAGACAACCCTTCTAGCCTTGAGCTATACCGCAAATAATATGACGTT-GAGCTGAGTGTAAT
1 TGACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGT
* *
4108158 CGAACTCAAAGGTC-TTTGT
65 CGAACTCGAAGGTCTTTTGG
* * ** * * * * *
4108177 TGGCAGATAACCCTTTTAGCCTTGAGTTATATTGCAAATGATGTACCCTCGAAGCTGAGTGTAAT
1 TGACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGT-GCCTTGGAGCTGAGCGTAGT
*
4108242 CGAACTCGAGGGTC-TTT-G
65 CGAACTCGAAGGTCTTTTGG
* * * * * *
4108260 -G-CAGATAACCCTTCTCGACTTAAGCTATGTTGCAAATGATGTGTCTTGGAGCTGAGCGTAGTC
1 TGACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTC
4108323 GAACTCGAAGGTCTTTTGG
66 GAACTCGAAGGTCTTTTGG
* * * * * *
4108342 TGACAGATAACCCTTCTAGCCTTGTGTTATGATGTAAATGATGTGTCC-TCGATGCTGAGTGTAA
1 TGACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTG-CCTTGGA-GCTGAGCGTAG
*
4108406 TCGAACTC-TAGGT-TATTTGG
64 TCGAACTCGAAGGTCT-TTTGG
*** * * * *
4108426 T---AGATAACCCTTCTCTACTTAAGTTATGCTACAAATGATGTGTCTTGGAGCTGAGCGTAGTG
1 TGACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTC
*
4108488 GAAATCGAAGGTC-TTTGG
66 GAACTCGAAGGTCTTTTGG
* * * * ** * * ** * * *
4108506 TTGTCAGATTACCCTTATCGAATTAAATTATGCTATAAATGATATGACTTGGAGCTAAGCGTAGT
1 -TGACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGT
** *
4108571 CGAACTTAAAAGTCTTTTGG
65 CGAACTCGAAGGTCTTTTGG
* * ** * * * * * *
4108591 TCACAGATAACCCTTTTAGCCTTGAGTTATATTGTAAATGATGTCCCCTCGAAGCTGAGTGTAAT
1 TGACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGT-GCCTTGGAGCTGAGCGTAGT
*
4108656 CGAACTCGAGGGT-TTTT-G
65 CGAACTCGAAGGTCTTTTGG
* * * * * * * *
4108674 -G-CAAATAGCACTTCTCGACTTAAGCTATGATGCAAATGATGTGCCTTGGAGCTGAGCGTAGTC
1 TGACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTC
* *
4108737 GAACTCGAAGGTCTTTAGT
66 GAACTCGAAGGTCTTTTGG
* * * * * *
4108756 TGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCATAGTC
1 TGACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTC
4108821 GAACTCGAAGGTCTTTTGG
66 GAACTCGAAGGTCTTTTGG
* * * * * * *
4108840 TGACAAATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATGTGCCCTCGAAGCTGAGTGTAAT
1 TGACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGT
4108905 CGAACTC-AAGAGTC--TT--
65 CGAACTCGAAG-GTCTTTTGG
* * * * * * *
4108921 TGATAGATATCCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTAGAGCTGAGCATAGTC
1 TGACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTC
*
4108986 AAACTCGAAGGTC-TTTGG
66 GAACTCGAAGGTCTTTTGG
** * * * * * *
4109004 TTGGTATATAACCCTTCTCGACTT-ATGTTATGTTGCAAATGATATGCCTTAGAGCTGAGCGTAG
1 -TGACAGATAACCCTTCTAGCCTTGA-GTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAG
4109068 TCGAACTCGAAGGTCTTTTGG
64 TCGAACTCGAAGGTCTTTTGG
* * * * * *
4109089 TGACAGATAACTCTTCTAGCCCTGAGTTATTCTGCAAATGATGTGTCTTTGAGCTGAGCGTAATC
1 TGACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTC
*
4109154 GAACTCGAAGGTCTTTTGT
66 GAACTCGAAGGTCTTTTGG
* * * * * * *
4109173 TGGCAAATAGCCCTTCTTGCCTTGAGCTATGTTGCAACTGAT
1 TGACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGAT
4109215 TTCTTTAAAA
Statistics
Matches: 890, Mismatches: 191, Indels: 74
0.77 0.17 0.06
Matches are distributed among these distances:
79 5 0.01
80 154 0.17
81 158 0.18
82 3 0.00
83 43 0.05
84 452 0.51
85 75 0.08
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (84 bp):
TGACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTC
GAACTCGAAGGTCTTTTGG
Found at i:4108433 original size:165 final size:162
Alignment explanation
Indices: 4108014--4109203 Score: 926
Period size: 165 Copynumber: 7.2 Consensus size: 162
4108004 ACAATTTTAT
* * ** * *
4108014 TGACAGATAGCCCTTTCTA-CCTTGAGCTATTCTGTAAATAATGTGCCTTGGAGCTGAGCGTAGT
1 TGACAGATAACCC-TTCTAGCCTTGAGTTATGATGTAAATGATGTGCC-TCGAGCTGAGCGTAGT
* * * * * * * * * * *
4108078 CGAACTCGAAGGTTTTTGGCAGACAACCCTTCTAGCCTTGAGCTATACCGCAAATAATATGACGT
64 CGAACTC-AAGGTTTTTGGTAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG-CCT
* * * *
4108143 T-GAGCTGAGTGTAATCGAACTCAAAGGTC-TTTGT
127 TGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGG
* * * * * *
4108177 TGGCAGATAACCCTTTTAGCCTTGAGTTAT-ATTGCAAATGATGTACCCTCGAAGCTGAGTGTAA
1 TGACAGATAACCCTTCTAGCCTTGAGTTATGA-TGTAAATGATGT-GCCTCG-AGCTGAGCGTAG
* * * * * *
4108241 TCGAACTCGAGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATGTTGCAAATGATGTGTCT
63 TCGAACTC-AAGGTTTTTGGTAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCT
4108306 TGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGG
127 TGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGG
* * *
4108342 TGACAGATAACCCTTCTAGCCTTGTGTTATGATGTAAATGATGTGTCCTCGATGCTGAGTGTAAT
1 TGACAGATAACCCTTCTAGCCTTGAGTTATGATGTAAATGATGTG-CCTCGA-GCTGAGCGTAGT
* * * *
4108407 CGAACTCTAGGTTATTTGGTAGATAACCCTTCTCTACTTAAGTTATGCTACAAATGATGTGTCTT
64 CGAACTCAAGGTT-TTTGGTAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTT
* *
4108472 GGAGCTGAGCGTAGTGGAAATCGAAGGTC-TTTGG
128 GGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGG
* * * * ** * * * * * * * *
4108506 TTGTCAGATTACCCTTATCGAATTAAATTATGCTATAAATGATATGACTTGGAGCTAAGCGTAGT
1 -TGACAGATAACCCTTCTAGCCTTGAGTTATGATGTAAATGATGTG-CCTCGAGCTGAGCGTAGT
* * * * * * ** *
4108571 CGAACTTAAAAGTCTTTTGGTCACAGATAACCCTTTTAGCCTTGAGTTATATTGTAAATGATGTC
64 CGAAC-TCAAGGT-TTTTGGT---AGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT-
* * * * * *
4108636 CCCTCGAAGCTGAGTGTAATCGAACTCGAGGGT-TTTT-G
123 GCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGG
* * * * * * * * *
4108674 -G-CAAATAGCACTTCTCGACTTAAGCTATGATGCAAATGATGTGCCTTGGAGCTGAGCGTAGTC
1 TGACAGATAACCCTTCTAGCCTTGAGTTATGATGTAAATGATGTGCC-TCGAGCTGAGCGTAGTC
* *
4108737 GAACTCGAAGGTCTTTAGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGC
65 GAACTC-AAGG--TTT--TTGGTAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGC
*
4108802 CTTGGAGCTGAGCATAGTCGAACTCGAAGGTCTTTTGG
125 CTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGG
* * * *
4108840 TGACAAATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATGTGCCCTCGAAGCTGAGTGTAAT
1 TGACAGATAACCCTTCTAGCCTTGAGTTATGATGTAAATGATGTG-CCTCG-AGCTGAGCGTAGT
* * *
4108905 CGAACTCAAGAGTCTTTGATAGATATCCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTT
64 CGAACTCAAG-GTTTTTGGTAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTT
* * *
4108970 AGAGCTGAGCATAGTCAAACTCGAAGGTC-TTTGG
128 GGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGG
** * * * * * * *
4109004 TTGGTATATAACCCTTCTCGACTT-ATGTTATGTTGCAAATGATATGCCTTAGAGCTGAGCGTAG
1 -TGACAGATAACCCTTCTAGCCTTGA-GTTATGATGTAAATGATGTGCC-TCGAGCTGAGCGTAG
* * * * * *
4109068 TCGAACTCGAAGGTCTTTTGGTGACAGATAACTCTTCTAGCCCTGAGTTATTCTGCAAATGATGT
63 TCGAACTC-AAGGT-TTTTGGT---AGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
* * * *
4109133 GTCTTTGAGCTGAGCGTAATCGAACTCGAAGGTCTTTTGT
123 GCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGG
* * * * *
4109173 TGGCAAATAGCCCTTCTTGCCTTGAGCTATG
1 TGACAGATAACCCTTCTAGCCTTGAGTTATG
4109204 TTGCAACTGA
Statistics
Matches: 823, Mismatches: 163, Indels: 77
0.77 0.15 0.07
Matches are distributed among these distances:
162 4 0.00
163 35 0.04
164 167 0.20
165 394 0.48
166 6 0.01
167 4 0.00
168 160 0.19
169 53 0.06
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (162 bp):
TGACAGATAACCCTTCTAGCCTTGAGTTATGATGTAAATGATGTGCCTCGAGCTGAGCGTAGTCG
AACTCAAGGTTTTTGGTAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGA
GCTGAGCGTAGTCGAACTCGAAGGTCTTTTGG
Found at i:4108559 original size:249 final size:246
Alignment explanation
Indices: 4108057--4109171 Score: 1278
Period size: 249 Copynumber: 4.5 Consensus size: 246
4108047 GTAAATAATG
*
4108057 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGT-TTTT-G-G-CAGACAACCCTTCTAGCCTTG
1 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTG
* * * * * * * *
4108118 AGCTATACCGCAAATAATATGACGTTGAGCTGAGTGTAATCGAACTCAAAGGTCTTTGTTGGCAG
66 AGTTATA-TGTAAATGATGTGCCCTCGAGCTGAGTGTAATCGAACTC-AAGG--TTT-TTGGCAG
* * * * ** * * * * * *
4108183 ATAACCCTTTTAGCCTTGAGTTATATTGCAAATGATGTACCCTCGAAGCTGAGTGTAATCGAACT
126 ATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT-GCCTTGGAGCTGAGCGTAGTCGAAAT
* * * *
4108248 CGAGGGTCTTT-G--G-CAGATAACCCTTCTCGACTTAAGCTATGTTGCAAATGATG
190 CGAAGGTCTTTGGTTGTCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATA
*
4108301 TGTCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTG
1 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTG
* * * *
4108366 TGTTATGATGTAAATGATGTGTCCTCGATGCTGAGTGTAATCGAACTCTAGGTTATTTGGTAGAT
66 AGTTAT-ATGTAAATGATGTGCCCTCGA-GCTGAGTGTAATCGAACTCAAGGTT-TTTGGCAGAT
* * * *
4108431 AACCCTTCTCTACTTAAGTTATGCTACAAATGATGTGTCTTGGAGCTGAGCGTAGTGGAAATCGA
128 AACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAATCGA
* * * * **
4108496 AGGTCTTTGGTTGTCAGATTACCCTTATCGAATTAAATTATGCTATAAATGATA
193 AGGTCTTTGGTTGTCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATA
* * ** * * *
4108550 TGACTTGGAGCTAAGCGTAGTCGAACTTAAAAGTCTTTTGGTCACAGATAACCCTTTTAGCCTTG
1 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTG
* * *
4108615 AGTTATATTGTAAATGATGTCCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTTTTTGGCAAAT
66 AGTTATA-TGTAAATGATGTGCCCTCG-AGCTGAGTGTAATCGAACTC-AAGGTTTTTGGCAGAT
* * * * *
4108680 AGCACTTCTCGACTTAAGCTATGATGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGA
128 AACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAATCGA
* *
4108745 AGGTCTTTAGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATA
193 AGGTCTTTGGTTGTCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATA
* *
4108799 TGCCTTGGAGCTGAGCATAGTCGAACTCGAAGGTCTTTTGGTGACAAATAACCCTTCTAGCCTTG
1 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTG
* * **
4108864 AGTTATGTTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCAAGAGTCTTTGATAGAT
66 AGTTAT-ATGTAAATGATGTGCCCTCG-AGCTGAGTGTAATCGAACTCAAG-GTTTTTGGCAGAT
* * *
4108929 ATCCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTAGAGCTGAGCATAGTC-AAACTCG
128 AACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAA-TCG
* * *
4108993 AAGGTCTTTGGTTGGT-ATATAACCCTTCTCGACTTATGTTATGTTGCAAATGATA
192 AAGGTCTTTGGTT-GTCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATA
* * *
4109048 TGCCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGACAGATAACTCTTCTAGCCCTG
1 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTG
* * * * * *
4109113 AGTTATTCTGCAAATGATGTGTCTTTGAGCTGAGCGTAATCGAACTCGAAGGTCTTTTG
66 AGTTA-TATGTAAATGATGTGCCCTCGAGCTGAGTGTAATCGAACTC-AAGGT-TTTTG
4109172 TTGGCAAATA
Statistics
Matches: 740, Mismatches: 110, Indels: 37
0.83 0.12 0.04
Matches are distributed among these distances:
244 33 0.04
245 32 0.04
246 40 0.05
247 2 0.00
248 67 0.09
249 559 0.76
250 7 0.01
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.32
Consensus pattern (246 bp):
TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTG
AGTTATATGTAAATGATGTGCCCTCGAGCTGAGTGTAATCGAACTCAAGGTTTTTGGCAGATAAC
CCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAAATCGAAGG
TCTTTGGTTGTCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATA
Found at i:4108771 original size:333 final size:332
Alignment explanation
Indices: 4108057--4109187 Score: 890
Period size: 333 Copynumber: 3.4 Consensus size: 332
4108047 GTAAATAATG
* * * * *
4108057 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGG--TTT--TTGGCAGACAACCCTTCTAGCCTTG
1 TGCCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTAGTTGGCAGATAACCCTTCTCGACTTA
* * * * * * * * * *
4108118 AGCTATACCGCAAATAATATGACGTT-GAGCTGAGTGTAATCGAACTCAAAGGTCTTT-GTTGGC
66 AGTTATGCTGCAAATGATGTGTC-TTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGAC
* * ** * * ** ** * * * * *
4108181 AGATAACCCTTTTAGCCTTGAGTTATATTGCAAATGATGTACCCTCGAAGCTGAGTGTAATCGAA
130 AAATAACCCTTATAGAATTAAATTATGCTATAAATGATATGCACTCGAAGCTAAGCGTAATCGAA
* ** * * * ** ** * *
4108246 CTCGAGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATGTTGCAAATGATGTGTCTTGGAG
195 CTCAAAAGTCTTTGACAGATAACCCTTCTAGACTTAAGTTATACTGCAAATGATGTCCCCTAGAG
* * * * * * * * * ** *
4108311 CTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGTGTTATGATG
260 CTGAGCATAATCAAACTCGAAGGTC-TTTGTTGGCAAATAACACTTCTCGACTTAAGCTATGATG
* *
4108376 TAAATGATG
324 CAAATGATA
* * * * * * *
4108385 TGTCC-TCGATGCTGAGTGTAATCGAACTC-TAGG---TTATTTGGTAGATAACCCTTCTCTACT
1 TG-CCTTAGA-GCTGAGCGTAGTCGAACTCGAAGGTCTTTAGTTGGCAGATAACCCTTCTCGACT
* * * *
4108445 TAAGTTATGCTACAAATGATGTGTCTTGGAGCTGAGCGTAGTGGAAATCGAAGGTCTTTGGTTGT
64 TAAGTTATGCTGCAAATGATGTGTCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGA
* * * * * *
4108510 CAGATTACCCTTATCGAATTAAATTATGCTATAAATGATATG-ACTTGGAGCTAAGCGTAGTCGA
129 CAAATAACCCTTATAGAATTAAATTATGCTATAAATGATATGCACTCGAAGCTAAGCGTAATCGA
* * * * * *
4108574 ACTTAAAAGTCTTTTGGTCACAGATAACCCTTTTAGCCTTGAGTTATATTGTAAATGATGTCCCC
194 ACTCAAAAGTC-TTT-G--ACAGATAACCCTTCTAGACTTAAGTTATACTGCAAATGATGTCCCC
* ** * * *
4108639 TCGAAGCTGAGTGTAATCGAACTCG-AGG-GTTT-TTGGCAAATAGCACTTCTCGACTTAAGCTA
255 TAG-AGCTGAGCATAATCAAACTCGAAGGTCTTTGTTGGCAAATAACACTTCTCGACTTAAGCTA
*
4108701 TGATGCAAATGATG
319 TGATGCAAATGATA
*
4108715 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTAGTTGGCAGATAACCCTTCTCGACTTA
1 TGCCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTAGTTGGCAGATAACCCTTCTCGACTTA
* * *
4108780 AGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCATAGTCGAACTCGAAGGTCTTTTGG-TGAC
66 AGTTATGCTGCAAATGATGTGTCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTTGAC
* ** * * * * * * * *
4108844 AAATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAA
130 AAATAACCCTTATAGAATTAAATTATGCTATAAATGATATGCACTCGAAGCTAAGCGTAATCGAA
* * * * * * *
4108909 CTCAAGAGTCTTTGATAGATATCCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTAGAG
195 CTCAAAAGTCTTTGACAGATAACCCTTCTAGACTTAAGTTATACTGCAAATGATGTCCCCTAGAG
* * * * * * *
4108974 CTGAGCATAGTCAAACTCGAAGGTCTTTGGTTGGTATATAACCCTTCTCGACTTATGTTATGTTG
260 CTGAGCATAATCAAACTCGAAGGTCTTT-GTTGGCAAATAACACTTCTCGACTTAAGCTATGATG
4109039 CAAATGATA
324 CAAATGATA
* * * * * * * *
4109048 TGCCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGACAGATAACTCTTCTAGCCCTG
1 TGCCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTAGTTGGCAGATAACCCTTCTCGACTTA
* * * * *
4109113 AGTTATTCTGCAAATGATGTGTCTTTGAGCTGAGCGTAATCGAACTCGAAGGTCTTTTGTTGGCA
66 AGTTATGCTGCAAATGATGTGTCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGACA
*
4109178 AATAGCCCTT
131 AATAACCCTT
4109188 CTTGCCTTGA
Statistics
Matches: 632, Mismatches: 148, Indels: 41
0.77 0.18 0.05
Matches are distributed among these distances:
327 2 0.00
328 10 0.02
329 139 0.22
330 117 0.19
331 7 0.01
332 5 0.01
333 303 0.48
334 49 0.08
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.32
Consensus pattern (332 bp):
TGCCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTAGTTGGCAGATAACCCTTCTCGACTTA
AGTTATGCTGCAAATGATGTGTCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGACA
AATAACCCTTATAGAATTAAATTATGCTATAAATGATATGCACTCGAAGCTAAGCGTAATCGAAC
TCAAAAGTCTTTGACAGATAACCCTTCTAGACTTAAGTTATACTGCAAATGATGTCCCCTAGAGC
TGAGCATAATCAAACTCGAAGGTCTTTGTTGGCAAATAACACTTCTCGACTTAAGCTATGATGCA
AATGATA
Found at i:4110556 original size:95 final size:94
Alignment explanation
Indices: 4110389--4110586 Score: 308
Period size: 95 Copynumber: 2.1 Consensus size: 94
4110379 GGACAGCTTA
** * **
4110389 ATATATAAACACCTTTATCAAGTTAACTGAATCTTATCCATAAAGCTAGGGCTTTTAACCAATTG
1 ATATATAATTACCTTTATCAAGTTAACTGAATCTTATCCATAAAGCCAGGGAATTTAACCAATTG
4110454 CCTTAGAGGGACAACTCAAGCTTTATTGT
66 CCTTAGAGGGACAACTCAAGCTTTATTGT
* *
4110483 ATAGTATAATTACCTTTATCAAGTTAGCTGAATCTTATCCATAAAGCCGGGGAATTTAACCAATT
1 ATA-TATAATTACCTTTATCAAGTTAACTGAATCTTATCCATAAAGCCAGGGAATTTAACCAATT
4110548 G-CTCTAGAGGGACAACTCAAGCTTTATTGT
65 GCCT-TAGAGGGACAACTCAAGCTTTATTGT
4110578 ATATATAAT
1 ATATATAAT
4110587 ATTATAATCT
Statistics
Matches: 95, Mismatches: 7, Indels: 4
0.90 0.07 0.04
Matches are distributed among these distances:
94 11 0.12
95 84 0.88
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33
Consensus pattern (94 bp):
ATATATAATTACCTTTATCAAGTTAACTGAATCTTATCCATAAAGCCAGGGAATTTAACCAATTG
CCTTAGAGGGACAACTCAAGCTTTATTGT
Found at i:4114057 original size:4 final size:4
Alignment explanation
Indices: 4114050--4114140 Score: 58
Period size: 4 Copynumber: 20.8 Consensus size: 4
4114040 ATAGATAAGC
* * *
4114050 AAAT AAAT AAAAT AAAGAT AAAG AAAG AAAT AAA- ATAAG AAAT AAAAT
1 AAAT AAAT -AAAT -AA-AT AAAT AAAT AAAT AAAT A-AAT AAAT -AAAT
*
4114098 AAAT AAAT AAAT AACATGT ACCAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AA-A--T A-AAT AAAT AAAT AAAT AAAT AAA
4114141 AACAAGAATA
Statistics
Matches: 73, Mismatches: 5, Indels: 18
0.76 0.05 0.19
Matches are distributed among these distances:
3 1 0.01
4 50 0.68
5 17 0.23
6 2 0.03
7 3 0.04
ACGTcount: A:0.71, C:0.03, G:0.05, T:0.20
Consensus pattern (4 bp):
AAAT
Found at i:4114111 original size:24 final size:24
Alignment explanation
Indices: 4114050--4114108 Score: 75
Period size: 23 Copynumber: 2.5 Consensus size: 24
4114040 ATAGATAAGC
* *
4114050 AAATAAATAAAATAAAGAT-AAAG
1 AAATAAATAAAATAAAAATAAAAT
*
4114073 AAAGAAATAAAATAAGAAATAAAAT
1 AAATAAATAAAATAA-AAATAAAAT
4114098 AAATAAATAAA
1 AAATAAATAAA
4114109 TAACATGTAC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 14 0.47
24 3 0.10
25 13 0.43
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.17
Consensus pattern (24 bp):
AAATAAATAAAATAAAAATAAAAT
Found at i:4114188 original size:22 final size:22
Alignment explanation
Indices: 4114127--4114193 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
4114117 ACCATAAATA
*
4114127 AATAAATAAATAAAAACAAGAAT
1 AATATATAAATAAAAA-AAGAAT
* *
4114150 AGAGATAAAAATAAAAAAAGAAT
1 A-ATATATAAATAAAAAAAGAAT
* *
4114173 AATATATATATAAAAATAGAA
1 AATATATAAATAAAAAAAGAA
4114194 ATAAAGGGAA
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
22 16 0.44
23 8 0.22
24 12 0.33
ACGTcount: A:0.72, C:0.01, G:0.07, T:0.19
Consensus pattern (22 bp):
AATATATAAATAAAAAAAGAAT
Found at i:4114221 original size:18 final size:18
Alignment explanation
Indices: 4114184--4114222 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
4114174 ATATATATAT
*
4114184 AAAAATAGAAATAAAGGG
1 AAAAATAGAAATAAAAGG
4114202 AAAAATA-AAATAAAAAGG
1 AAAAATAGAAAT-AAAAGG
4114220 AAA
1 AAA
4114223 GAACATAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.74, C:0.00, G:0.15, T:0.10
Consensus pattern (18 bp):
AAAAATAGAAATAAAAGG
Found at i:4115446 original size:24 final size:26
Alignment explanation
Indices: 4115403--4115452 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 26
4115393 AAATTGAAAT
4115403 AAATTAAATAAATAAAATGAAATAAA
1 AAATTAAATAAATAAAATGAAATAAA
* *
4115429 AAATT-AAT-AATAATATGATATAAA
1 AAATTAAATAAATAAAATGAAATAAA
4115453 CTATATAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 14 0.64
25 3 0.14
26 5 0.23
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (26 bp):
AAATTAAATAAATAAAATGAAATAAA
Found at i:4115507 original size:29 final size:30
Alignment explanation
Indices: 4115475--4115599 Score: 92
Period size: 33 Copynumber: 3.9 Consensus size: 30
4115465 TATATTTCAA
4115475 AAAAAAATTTT-AAACTATATATTATATTT
1 AAAAAAATTTTAAAACTATATATTATATTT
*
4115504 AAAAAAGTTTTCAAAACTATATATTATATAGTTTT
1 AAAAAAATTTT-AAAACTATATA-T-TATA--TTT
* ** * *
4115539 CAAAATGTTTTAAAAATATTATATAAGT-TTT
1 AAAAAAATTTTAAAACTA-TATATTA-TATTT
*
4115570 CAAAAAAAATTTAAAAACTATATATTATAT
1 --AAAAAAATTTTAAAACTATATATTATAT
4115600 AATTTTACAA
Statistics
Matches: 74, Mismatches: 11, Indels: 19
0.71 0.11 0.18
Matches are distributed among these distances:
29 10 0.14
31 14 0.19
32 8 0.11
33 18 0.24
34 8 0.11
35 16 0.22
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (30 bp):
AAAAAAATTTTAAAACTATATATTATATTT
Found at i:4115508 original size:31 final size:31
Alignment explanation
Indices: 4115460--4115599 Score: 101
Period size: 31 Copynumber: 4.4 Consensus size: 31
4115450 AAACTATATA
4115460 ATATA-TATATTTCAAAAAAAAATTTT-AAACT
1 ATATATTATATTTC--AAAAAAATTTTAAAACT
*
4115491 ATATATTATATTT-AAAAAAGTTTTCAAAACT
1 ATATATTATATTTCAAAAAAATTTT-AAAACT
** *
4115522 ATATATTATATAGTTTTC-AAAATGTTTTAAAAAT
1 ATATA-T-TATA--TTTCAAAAAAATTTTAAAACT
* *
4115556 ATTATATAAGT-TTTCAAAAAAAATTTAAAAACT
1 A-TATATTA-TATTTC-AAAAAAATTTTAAAACT
4115589 ATATATTATAT
1 ATATATTATAT
4115600 AATTTTACAA
Statistics
Matches: 87, Mismatches: 9, Indels: 25
0.72 0.07 0.21
Matches are distributed among these distances:
29 10 0.11
31 20 0.23
32 15 0.17
33 18 0.21
34 8 0.09
35 16 0.18
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (31 bp):
ATATATTATATTTCAAAAAAATTTTAAAACT
Found at i:4115525 original size:24 final size:24
Alignment explanation
Indices: 4115497--4115543 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
4115487 AACTATATAT
4115497 TATAT-TTAAAAAAGTTTTCAAAAC
1 TATATATT-AAAAAGTTTTCAAAAC
* *
4115521 TATATATTATATAGTTTTCAAAA
1 TATATATTAAAAAGTTTTCAAAA
4115544 TGTTTTAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 18 0.90
25 2 0.10
ACGTcount: A:0.47, C:0.06, G:0.04, T:0.43
Consensus pattern (24 bp):
TATATATTAAAAAGTTTTCAAAAC
Found at i:4115595 original size:37 final size:36
Alignment explanation
Indices: 4115516--4115713 Score: 104
Period size: 37 Copynumber: 5.8 Consensus size: 36
4115506 AAAAGTTTTC
**
4115516 AAAACTATATATTATAT-AGTTTTC--AAAATGTTT
1 AAAACTATATATTATATAAGTTTTCAAAAAAAATTT
*
4115549 TAAA--A-ATATTATATAAGTTTTCAAAAAAAATTT
1 AAAACTATATATTATATAAGTTTTCAAAAAAAATTT
*
4115582 AAAAACTATATATTATATAA-TTTT--ACAAAAATGTT
1 -AAAACTATATATTATATAAGTTTTCAAAAAAAAT-TT
* ***
4115617 -----T-T-TATTATATAATTTTTCAAAAATGTTTTT
1 AAAACTATATATTATATAAGTTTTCAAAAA-AAATTT
* * ***
4115647 AAAACTATATACTATATAATTTTTCAAAAATGTTTT
1 AAAACTATATATTATATAAGTTTTCAAAAAAAATTT
* *
4115683 AAAAAACTATATACTATATAAGTTTTTAAAA
1 --AAAACTATATATTATATAAGTTTTCAAAA
4115714 TGTTTTAAAA
Statistics
Matches: 130, Mismatches: 14, Indels: 37
0.72 0.08 0.20
Matches are distributed among these distances:
27 10 0.08
28 5 0.04
29 1 0.01
30 14 0.11
31 9 0.07
33 10 0.08
34 10 0.08
35 3 0.02
36 10 0.08
37 31 0.24
38 27 0.21
ACGTcount: A:0.47, C:0.06, G:0.04, T:0.44
Consensus pattern (36 bp):
AAAACTATATATTATATAAGTTTTCAAAAAAAATTT
Found at i:4115622 original size:27 final size:27
Alignment explanation
Indices: 4115592--4115647 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
4115582 AAAAACTATA
4115592 TATTATATAATTTTACAAAAATGTTTT
1 TATTATATAATTTTACAAAAATGTTTT
*
4115619 TATTATATAATTTTTCAAAAATGTTTT
1 TATTATATAATTTTACAAAAATGTTTT
4115646 TA
1 TA
4115648 AAACTATATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.54
Consensus pattern (27 bp):
TATTATATAATTTTACAAAAATGTTTT
Found at i:4115651 original size:64 final size:64
Alignment explanation
Indices: 4115504--4115683 Score: 220
Period size: 64 Copynumber: 2.8 Consensus size: 64
4115494 TATTATATTT
* *
4115504 AAAAAAGTTTTCAAAACTATATATTATATAGTTTTC-AAAATGTTTTAAAAATATTATATAAGTT
1 AAAAAAGTTTTAAAAACTATATATTATATAATTTTCAAAAATGTTTT----ATATTATATAAGTT
4115568 TTC
62 TTC
** *
4115571 AAAAAAAATTTAAAAACTATATATTATATAATTTTACAAAAATGTTTT-TATTATATAATTTTTC
1 AAAAAAGTTTTAAAAACTATATATTATATAATTTT-CAAAAATGTTTTATATTATATAAGTTTTC
* * *
4115635 AAAAATGTTTTTAAAACTATATACTATATAATTTTTCAAAAATGTTTTA
1 AAAAAAGTTTTAAAAACTATATATTATATAA-TTTTCAAAAATGTTTTA
4115684 AAAAACTATA
Statistics
Matches: 99, Mismatches: 10, Indels: 10
0.83 0.08 0.08
Matches are distributed among these distances:
64 53 0.54
65 4 0.04
67 31 0.31
68 1 0.01
69 10 0.10
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (64 bp):
AAAAAAGTTTTAAAAACTATATATTATATAATTTTCAAAAATGTTTTATATTATATAAGTTTTC
Found at i:4115698 original size:38 final size:37
Alignment explanation
Indices: 4115622--4115751 Score: 174
Period size: 37 Copynumber: 3.5 Consensus size: 37
4115612 ATGTTTTTAT
*
4115622 TATATAATTTTTCAAAAATGTTTTTAAAACTATATAC
1 TATATAATTTTTCAAAAATGTTTTAAAAACTATATAC
4115659 TATATAATTTTTCAAAAATGTTTTAAAAAACTATATAC
1 TATATAATTTTTCAAAAATGTTTT-AAAAACTATATAC
* * *
4115697 TATATAAGTTTTT--AAAATGTTTTAAAATCTACATAA
1 TATATAA-TTTTTCAAAAATGTTTTAAAAACTATATAC
4115733 TATATAAATGTTTTCAAAA
1 TATAT-AAT-TTTTCAAAA
4115752 CTATATATTA
Statistics
Matches: 83, Mismatches: 4, Indels: 10
0.86 0.04 0.10
Matches are distributed among these distances:
36 16 0.19
37 40 0.48
38 19 0.23
39 8 0.10
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.44
Consensus pattern (37 bp):
TATATAATTTTTCAAAAATGTTTTAAAAACTATATAC
Found at i:4115741 original size:27 final size:27
Alignment explanation
Indices: 4115711--4115765 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
4115701 TAAGTTTTTA
4115711 AAATGTTTT-AAAATCTACATAATATAT
1 AAATGTTTTCAAAA-CTACATAATATAT
* *
4115738 AAATGTTTTCAAAACTATATATTATAT
1 AAATGTTTTCAAAACTACATAATATAT
4115765 A
1 A
4115766 TATTTTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 21 0.84
28 4 0.16
ACGTcount: A:0.47, C:0.07, G:0.04, T:0.42
Consensus pattern (27 bp):
AAATGTTTTCAAAACTACATAATATAT
Found at i:4115752 original size:63 final size:65
Alignment explanation
Indices: 4115674--4115805 Score: 171
Period size: 63 Copynumber: 2.1 Consensus size: 65
4115664 AATTTTTCAA
* * * *
4115674 AAATGTTTTAAAAAACTATATACTATATA-AGTTTTTAAAATGTTTT-AAAATCTACATAATATA
1 AAATGTTTTAAAAAACTATATACTATATATA-TTTTAAAAATATTTTAAAAAACCACATAATATA
4115737 T
65 T
* * *
4115738 AAATGTTTT-CAAAACTATATATTATATATATTTTAAAAATATTTTAAAAAACCATATAATATAT
1 AAATGTTTTAAAAAACTATATACTATATATATTTTAAAAATATTTTAAAAAACCACATAATATAT
4115802 AAAT
1 AAAT
4115806 TTTCGAAAAT
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
63 30 0.51
64 29 0.49
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.42
Consensus pattern (65 bp):
AAATGTTTTAAAAAACTATATACTATATATATTTTAAAAATATTTTAAAAAACCACATAATATAT
Found at i:4115907 original size:15 final size:14
Alignment explanation
Indices: 4115887--4115918 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
4115877 ATACATATAT
4115887 ATATATATAATAAAA
1 ATATATATAA-AAAA
4115902 ATATATATAAAAAA
1 ATATATATAAAAAA
4115916 ATA
1 ATA
4115919 AAATAACTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (14 bp):
ATATATATAAAAAA
Found at i:4116336 original size:51 final size:51
Alignment explanation
Indices: 4116238--4116346 Score: 121
Period size: 51 Copynumber: 2.2 Consensus size: 51
4116228 ACCCTTAGTA
* ** *
4116238 GTAAAGCGTGCCCCCTGCACCGCGCTATATGCTGATTTGGCGCCACGTGGG
1 GTAAAGCGTGCCCCCTGAACCGCGCTATATGCTGACATGGAGCCACGTGGG
* * * **
4116289 GTAAGGCGTGCCCCCTGAAGCGCGCTTTATGCTGACATGGATTCACGT-GG
1 GTAAAGCGTGCCCCCTGAACCGCGCTATATGCTGACATGGAGCCACGTGGG
*
4116339 ATAAAGCG
1 GTAAAGCG
4116347 CGAGGTAGGT
Statistics
Matches: 47, Mismatches: 11, Indels: 1
0.80 0.19 0.02
Matches are distributed among these distances:
50 8 0.17
51 39 0.83
ACGTcount: A:0.19, C:0.28, G:0.31, T:0.22
Consensus pattern (51 bp):
GTAAAGCGTGCCCCCTGAACCGCGCTATATGCTGACATGGAGCCACGTGGG
Found at i:4116604 original size:9 final size:9
Alignment explanation
Indices: 4116592--4116643 Score: 56
Period size: 9 Copynumber: 6.1 Consensus size: 9
4116582 TAATATTTTG
4116592 TATTTAATT
1 TATTTAATT
*
4116601 TATTTAA-G
1 TATTTAATT
4116609 TATTTAATT
1 TATTTAATT
4116618 TATTTAA--
1 TATTTAATT
* *
4116625 TATTTTACT
1 TATTTAATT
4116634 TATTTAATT
1 TATTTAATT
4116643 T
1 T
4116644 TTTTGCAGAT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
7 6 0.17
8 7 0.20
9 22 0.63
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (9 bp):
TATTTAATT
Found at i:4116613 original size:17 final size:17
Alignment explanation
Indices: 4116591--4116640 Score: 75
Period size: 17 Copynumber: 3.0 Consensus size: 17
4116581 TTAATATTTT
4116591 GTATTTAATTTATTTAA
1 GTATTTAATTTATTTAA
4116608 GTATTTAATTTATTTAA
1 GTATTTAATTTATTTAA
* *
4116625 -TATTTTACTTATTTAA
1 GTATTTAATTTATTTAA
4116641 TTTTTTTGCA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 14 0.45
17 17 0.55
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (17 bp):
GTATTTAATTTATTTAA
Found at i:4116636 original size:16 final size:16
Alignment explanation
Indices: 4116600--4116645 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
4116590 TGTATTTAAT
* *
4116600 TTATTTAAGTATTTAAT
1 TTATTTAA-TATTTTAC
4116617 TTATTTAATATTTTAC
1 TTATTTAATATTTTAC
4116633 TTATTTAAT-TTTT
1 TTATTTAATATTTT
4116646 TTGCAGATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
15 4 0.15
16 15 0.56
17 8 0.30
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (16 bp):
TTATTTAATATTTTAC
Found at i:4118399 original size:30 final size:27
Alignment explanation
Indices: 4118326--4118390 Score: 112
Period size: 27 Copynumber: 2.4 Consensus size: 27
4118316 AGCCATATAT
4118326 GATGCCGCCGCCACCATTCCCTTACCC
1 GATGCCGCCGCCACCATTCCCTTACCC
*
4118353 GATGCCGCCGCCACCATTCCCTTACTC
1 GATGCCGCCGCCACCATTCCCTTACCC
*
4118380 GATACCGCCGC
1 GATGCCGCCGC
4118391 TGCCACCATC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.15, C:0.49, G:0.17, T:0.18
Consensus pattern (27 bp):
GATGCCGCCGCCACCATTCCCTTACCC
Found at i:4128321 original size:12 final size:12
Alignment explanation
Indices: 4128304--4128329 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
4128294 TATTACATTC
4128304 AACCATTCTTCA
1 AACCATTCTTCA
4128316 AACCATTCTTCA
1 AACCATTCTTCA
4128328 AA
1 AA
4128330 TGAAGAGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.31, G:0.00, T:0.31
Consensus pattern (12 bp):
AACCATTCTTCA
Found at i:4128827 original size:29 final size:29
Alignment explanation
Indices: 4128785--4128931 Score: 267
Period size: 29 Copynumber: 5.0 Consensus size: 29
4128775 GTTGATTGCA
4128785 CGAGCTAGCCTGCAAGCAAGCCCCTTACT
1 CGAGCTAGCCTGCAAGCAAGCCCCTTACT
4128814 CGAGCTAGCCTGCAAGCAAGCCCCTTACT
1 CGAGCTAGCCTGCAAGCAAGCCCCTTACT
4128843 CGAGCTAGCCTGCAAGCAAGCCCCTTACT
1 CGAGCTAGCCTGCAAGCAAGCCCCTTACT
*
4128872 CGAGCCAGCCTGCAAGCAAGCCCCTTTACT
1 CGAGCTAGCCTGCAAGCAAGCCCC-TTACT
*
4128902 CGAGCCAGCCTGCAAGCAAGCCCCTTACT
1 CGAGCTAGCCTGCAAGCAAGCCCCTTACT
4128931 C
1 C
4128932 ACCTCTCTCT
Statistics
Matches: 116, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
29 87 0.75
30 29 0.25
ACGTcount: A:0.24, C:0.39, G:0.20, T:0.16
Consensus pattern (29 bp):
CGAGCTAGCCTGCAAGCAAGCCCCTTACT
Found at i:4130375 original size:13 final size:13
Alignment explanation
Indices: 4130357--4130381 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4130347 GGGTCTAATT
4130357 GAATTGAGTGAAA
1 GAATTGAGTGAAA
4130370 GAATTGAGTGAA
1 GAATTGAGTGAA
4130382 TAAACTCAAA
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:0.44, C:0.00, G:0.32, T:0.24
Consensus pattern (13 bp):
GAATTGAGTGAAA
Found at i:4130778 original size:39 final size:39
Alignment explanation
Indices: 4130735--4130812 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
4130725 AGTAGCAGAA
4130735 AAGGTAGACTACCAGAGACGCAATTCTACCTTTTAGCTC
1 AAGGTAGACTACCAGAGACGCAATTCTACCTTTTAGCTC
4130774 AAGGTAGACTACCAGAGACGCAATTCTACCTTTTAGCTC
1 AAGGTAGACTACCAGAGACGCAATTCTACCTTTTAGCTC
4130813 TCTTGGGATC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.26
Consensus pattern (39 bp):
AAGGTAGACTACCAGAGACGCAATTCTACCTTTTAGCTC
Found at i:4132561 original size:20 final size:20
Alignment explanation
Indices: 4132474--4132567 Score: 91
Period size: 20 Copynumber: 4.7 Consensus size: 20
4132464 CTATCGCAAA
*
4132474 TTCGAGTTGCGA-TTTCTCAT
1 TTCGCGTTGCGATTTTC-CAT
* *
4132494 TTCACGTTGCGATTTCCCAT
1 TTCGCGTTGCGATTTTCCAT
* ** *
4132514 TTCGCGTTGCGATAGTTGGAA
1 TTCGCGTTGCGAT-TTTCCAT
*
4132535 ATCGCGTTGCGATTTTCCAT
1 TTCGCGTTGCGATTTTCCAT
4132555 TTCGCGTTGCGAT
1 TTCGCGTTGCGAT
4132568 AGTCTACAGT
Statistics
Matches: 57, Mismatches: 15, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
20 40 0.70
21 17 0.30
ACGTcount: A:0.15, C:0.22, G:0.23, T:0.39
Consensus pattern (20 bp):
TTCGCGTTGCGATTTTCCAT
Found at i:4133229 original size:27 final size:23
Alignment explanation
Indices: 4133208--4133255 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 23
4133198 TTCGCAACGA
*
4133208 AACG-ACAATTGTAGACTATCGC
1 AACGAACAACTGTAGACTATCGC
4133230 AAC-AACAACTGTAGACTATCGC
1 AACGAACAACTGTAGACTATCGC
4133252 AACG
1 AACG
4133256 CGAAATGGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.40, C:0.25, G:0.17, T:0.19
Consensus pattern (23 bp):
AACGAACAACTGTAGACTATCGC
Found at i:4133237 original size:22 final size:22
Alignment explanation
Indices: 4133212--4133254 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
4133202 CAACGAAACG
*
4133212 ACAATTGTAGACTATCGCAACA
1 ACAACTGTAGACTATCGCAACA
4133234 ACAACTGTAGACTATCGCAAC
1 ACAACTGTAGACTATCGCAAC
4133255 GCGAAATGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.40, C:0.26, G:0.14, T:0.21
Consensus pattern (22 bp):
ACAACTGTAGACTATCGCAACA
Found at i:4152668 original size:27 final size:27
Alignment explanation
Indices: 4152637--4152704 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
4152627 TCTATTTACA
4152637 AAATCATATCTCTATAGGAATGGTAAC
1 AAATCATATCTCTATAGGAATGGTAAC
*
4152664 AAATCATCTCTCTATAGGAATGGTAAC
1 AAATCATATCTCTATAGGAATGGTAAC
4152691 AAATC--ATCTCTATA
1 AAATCATATCTCTATA
4152705 ATTCCTACAG
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
25 8 0.21
27 31 0.79
ACGTcount: A:0.40, C:0.18, G:0.12, T:0.31
Consensus pattern (27 bp):
AAATCATATCTCTATAGGAATGGTAAC
Found at i:4154524 original size:20 final size:21
Alignment explanation
Indices: 4154499--4154591 Score: 100
Period size: 21 Copynumber: 4.5 Consensus size: 21
4154489 TTTTCCCAAT
*
4154499 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
4154519 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
*
4154540 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
4154560 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
4154581 TCGCAATGCGA
1 TCGCAATGCGA
4154592 TACTGACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:4154544 original size:41 final size:41
Alignment explanation
Indices: 4154499--4154591 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
4154489 TTTTCCCAAT
4154499 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
4154540 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
4154581 TCGCAATGCGA
1 TCGCAATGCGA
4154592 TACTGACTAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:4154604 original size:41 final size:41
Alignment explanation
Indices: 4154518--4154652 Score: 132
Period size: 41 Copynumber: 3.3 Consensus size: 41
4154508 GAATAAGTAA
* *
4154518 ATCGCAACGCGAATTGGGAAAATCGCAATGCGAATA-AGTA-A
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCG-ATACTG-ACT
4154559 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
* * ** * * *
4154600 ATCGCAATGCGATAAT-AAAAAATCGCAACGAGATACTTACT
1 ATCGCAACGCGA-ATTGGGAAAATCGCAATGCGATACTGACT
*
4154641 TTCGCAACGCGA
1 ATCGCAACGCGA
4154653 TACTGACTTT
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
40 4 0.05
41 74 0.93
42 2 0.03
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.19
Consensus pattern (41 bp):
ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
Found at i:4154605 original size:20 final size:20
Alignment explanation
Indices: 4154580--4154694 Score: 113
Period size: 20 Copynumber: 5.7 Consensus size: 20
4154570 AATTGGGAAA
*
4154580 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
4154600 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-GACT
* *
4154621 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
*
4154641 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
4154661 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
4154681 TTCGCAACGCGATA
1 ATCGCAACGCGATA
4154695 ATACATAATC
Statistics
Matches: 79, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
20 65 0.82
21 14 0.18
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:4154653 original size:41 final size:41
Alignment explanation
Indices: 4154577--4154714 Score: 143
Period size: 41 Copynumber: 3.4 Consensus size: 41
4154567 GCGAATTGGG
* * *
4154577 AAAATCGCAATGCGATACTGACTATCGCAATGCGATAATAA
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAA
* * * *
4154618 AAAATCGCAACGAGATACTTACTTTCGCAACGCGATACT-G
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAA
*** * *
4154658 ACTTTCGCAACGCGATTCTGACTTTCGCAACGCGATAATAC
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAA
* *
4154699 ATAATCGCAATGCGAT
1 AAAATCGCAACGCGAT
4154715 TTTCAAAGCG
Statistics
Matches: 77, Mismatches: 19, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
40 32 0.42
41 45 0.58
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (41 bp):
AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAA
Found at i:4154910 original size:22 final size:22
Alignment explanation
Indices: 4154882--4154925 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
4154872 CACTCTCTCA
4154882 CCCATCTCC-GACGAAATCCGTC
1 CCCATCTCCAG-CGAAATCCGTC
4154904 CCCATCTCCAGCGAAATCCGTC
1 CCCATCTCCAGCGAAATCCGTC
4154926 TATCTCCATC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 20 0.95
23 1 0.05
ACGTcount: A:0.23, C:0.45, G:0.14, T:0.18
Consensus pattern (22 bp):
CCCATCTCCAGCGAAATCCGTC
Found at i:4154932 original size:20 final size:21
Alignment explanation
Indices: 4154882--4154933 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
4154872 CACTCTCTCA
4154882 CCCATCTCC-GACGAAATCCGT
1 CCCATCTCCAG-CGAAATCCGT
4154903 CCCCATCTCCAGCGAAATCCGT
1 -CCCATCTCCAGCGAAATCCGT
*
4154925 -CTATCTCCA
1 CCCATCTCCA
4154934 TCTCTCAGAG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 8 0.29
22 19 0.68
23 1 0.04
ACGTcount: A:0.23, C:0.44, G:0.12, T:0.21
Consensus pattern (21 bp):
CCCATCTCCAGCGAAATCCGT
Found at i:4155228 original size:20 final size:20
Alignment explanation
Indices: 4155205--4155247 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
4155195 GATAGTCGAA
4155205 TTCGCGTTGCGATTTTCATT
1 TTCGCGTTGCGATTTTCATT
*
4155225 TTCGTGTTGCGATTTTCATT
1 TTCGCGTTGCGATTTTCATT
4155245 TTC
1 TTC
4155248 AGAAACTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.09, C:0.19, G:0.19, T:0.53
Consensus pattern (20 bp):
TTCGCGTTGCGATTTTCATT
Found at i:4156588 original size:18 final size:18
Alignment explanation
Indices: 4156567--4156611 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
4156557 TCCACTTCGG
*
4156567 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
4156585 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
*
4156603 TAGCCATCA
1 GAGCCATCA
4156612 TCTGATCGAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.27, C:0.44, G:0.13, T:0.16
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:4157143 original size:20 final size:20
Alignment explanation
Indices: 4157093--4157159 Score: 82
Period size: 20 Copynumber: 3.4 Consensus size: 20
4157083 TAGTTTACTT
*
4157093 TCGCAACACGAAAATGACTA
1 TCGCAACGCGAAAATGACTA
*
4157113 TCGCAACGCGAAAATGGCTA
1 TCGCAACGCGAAAATGACTA
* **
4157133 TCGCAATGCG-AAATGAAAA
1 TCGCAACGCGAAAATGACTA
4157152 TCGCAACG
1 TCGCAACG
4157160 ACAAAATCGC
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
19 13 0.32
20 27 0.68
ACGTcount: A:0.40, C:0.24, G:0.21, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGAAAATGACTA
Found at i:4157167 original size:14 final size:14
Alignment explanation
Indices: 4157148--4157205 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
4157138 ATGCGAAATG
4157148 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
4157162 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
4157178 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
4157194 AAAATCGCAACG
1 AAAATCGCAACG
4157206 CGAAATGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.24, G:0.17, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:4157190 original size:32 final size:33
Alignment explanation
Indices: 4157132--4157222 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
4157122 GAAAATGGCT
4157132 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
4157165 ATCGCAATGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
4157197 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
4157223 TGCGATTTGT
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 31 0.55
33 25 0.45
ACGTcount: A:0.47, C:0.22, G:0.19, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:4157277 original size:32 final size:33
Alignment explanation
Indices: 4157234--4157312 Score: 133
Period size: 32 Copynumber: 2.4 Consensus size: 33
4157224 GCGATTTGTG
4157234 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
*
4157266 TTTTGCGTTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
*
4157299 TTTCGCATTGCGAT
1 TTTCGCGTTGCGAT
4157313 AGCCATTTCC
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
32 26 0.60
33 17 0.40
ACGTcount: A:0.10, C:0.18, G:0.24, T:0.48
Consensus pattern (33 bp):
TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
Found at i:4157281 original size:13 final size:14
Alignment explanation
Indices: 4157239--4157296 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
4157229 TTGTGTTTCG
4157239 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
4157253 CGTTGCGATTTCATTTT
1 CGTTGCGA-TT--TTGT
4157270 GCGTTGCGATTTTGT
1 -CGTTGCGATTTTGT
4157285 CGTTGCGATTTT
1 CGTTGCGATTTT
4157297 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 20 0.53
15 5 0.13
17 5 0.13
18 8 0.21
ACGTcount: A:0.09, C:0.16, G:0.26, T:0.50
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:4157309 original size:19 final size:19
Alignment explanation
Indices: 4157285--4157351 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
4157275 GCGATTTTGT
**
4157285 CGTTGCGATTTTCATTTCG
1 CGTTGCGATAGTCATTTCG
* *
4157304 CATTGCGATAGCCATTTCCG
1 CGTTGCGATAGTCATTT-CG
4157324 CGTTGCGATAGTCATTTCG
1 CGTTGCGATAGTCATTTCG
4157343 CGTTGCGAT
1 CGTTGCGAT
4157352 TTTAAGTTTC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
19 24 0.59
20 17 0.41
ACGTcount: A:0.15, C:0.24, G:0.24, T:0.37
Consensus pattern (19 bp):
CGTTGCGATAGTCATTTCG
Found at i:4157331 original size:20 final size:19
Alignment explanation
Indices: 4157297--4157351 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 19
4157287 TTGCGATTTT
*
4157297 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
4157316 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
4157336 CATTTCGCGTTGCGAT
1 CATTTCGCGTTGCGAT
4157352 TTTAAGTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 16 0.48
20 17 0.52
ACGTcount: A:0.16, C:0.25, G:0.24, T:0.35
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:4157448 original size:27 final size:28
Alignment explanation
Indices: 4157382--4157450 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 28
4157372 AGTAAACTAT
*
4157382 TCTTCTTCTGGAATGTTTATATATGTTG
1 TCTTCTTCTGGAATGTTTATATAAGTTG
*
4157410 TCTT-TT-T-AAATGTTTATATAAG-TG
1 TCTTCTTCTGGAATGTTTATATAAGTTG
4157434 -CTTACTTCTGGAATGTT
1 TCTT-CTTCTGGAATGTT
4157451 ATCTGAGCAT
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
23 3 0.09
24 2 0.06
25 15 0.44
26 2 0.06
27 8 0.24
28 4 0.12
ACGTcount: A:0.22, C:0.10, G:0.16, T:0.52
Consensus pattern (28 bp):
TCTTCTTCTGGAATGTTTATATAAGTTG
Found at i:4159228 original size:14 final size:14
Alignment explanation
Indices: 4159209--4159244 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
4159199 ATTGTTTAAT
4159209 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
4159223 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
4159237 TGATTTGT
1 TGATTTGT
4159245 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:4159383 original size:19 final size:19
Alignment explanation
Indices: 4159361--4159428 Score: 101
Period size: 19 Copynumber: 3.8 Consensus size: 19
4159351 ATCGCAACGA
4159361 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
4159380 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
4159399 GAAAATCGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
4159413 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
4159429 TTTTCATTTC
Statistics
Matches: 46, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
14 11 0.24
15 1 0.02
16 2 0.04
17 2 0.04
19 30 0.65
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.13
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:4159472 original size:20 final size:20
Alignment explanation
Indices: 4159447--4159504 Score: 107
Period size: 20 Copynumber: 2.9 Consensus size: 20
4159437 TCGCATTGCG
*
4159447 ATTTTCTCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
4159467 ATTTTCGCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
4159487 ATTTTCGCGTTGCGATAG
1 ATTTTCGCGTTGCGATAG
4159505 TCAAATGAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.16, C:0.22, G:0.24, T:0.38
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:4159769 original size:33 final size:33
Alignment explanation
Indices: 4159718--4159780 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
4159708 CATGTTAATC
* *
4159718 ATCGTTGCCTTTTTCATTTCGCATTGCGATTCT
1 ATCGTTGCCATTTGCATTTCGCATTGCGATTCT
*
4159751 ATCGTTGCGATTTGCATTTCGCATTGCGAT
1 ATCGTTGCCATTTGCATTTCGCATTGCGAT
4159781 GGTCAAATGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.14, C:0.22, G:0.19, T:0.44
Consensus pattern (33 bp):
ATCGTTGCCATTTGCATTTCGCATTGCGATTCT
Found at i:4160588 original size:24 final size:24
Alignment explanation
Indices: 4160561--4160614 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
4160551 GTATTAGAAA
* *
4160561 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACACGGAC
*
4160585 TTTGATATTGGTCAATACACGGAT
1 TTTGATATTGGTCAATACACGGAC
4160609 TTTGAT
1 TTTGAT
4160615 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (24 bp):
TTTGATATTGGTCAATACACGGAC
Found at i:4163125 original size:19 final size:19
Alignment explanation
Indices: 4163103--4163233 Score: 94
Period size: 19 Copynumber: 7.7 Consensus size: 19
4163093 GGAAATTACT
4163103 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
4163122 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
4163136 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
4163155 ATCGCAA--CG--CT-AAT
1 ATCGCAATGCGAAATGAAA
*
4163169 TTCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
4163188 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
4163202 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
4163221 ATCGCAACGCGAA
1 ATCGCAATGCGAA
4163234 TTTAATTTCG
Statistics
Matches: 84, Mismatches: 13, Indels: 30
0.66 0.10 0.24
Matches are distributed among these distances:
14 27 0.32
15 3 0.04
16 6 0.07
17 6 0.07
18 3 0.04
19 39 0.46
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:4163145 original size:33 final size:33
Alignment explanation
Indices: 4163103--4163229 Score: 202
Period size: 33 Copynumber: 3.8 Consensus size: 33
4163093 GGAAATTACT
4163103 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
**
4163136 ATCGCAATGCGAAATGAAAATCGCAACGCTA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
4163168 TTTCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
4163202 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
4163230 CGAATTTAAT
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
32 1 0.01
33 83 0.98
34 1 0.01
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:4163210 original size:66 final size:66
Alignment explanation
Indices: 4163104--4163236 Score: 248
Period size: 66 Copynumber: 2.0 Consensus size: 66
4163094 GAAATTACTA
*
4163104 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCTAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
4163169 T
66 T
*
4163170 TCGCAATGCGAAATGAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
4163235 T
66 T
4163236 T
1 T
4163237 AATTTCGCGT
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.41, C:0.20, G:0.23, T:0.17
Consensus pattern (66 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
T
Found at i:4163251 original size:19 final size:20
Alignment explanation
Indices: 4163229--4163271 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
4163219 AAATCGCAAC
4163229 GCGAATTT-AATTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
* *
4163248 GCGATTTTCATTTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
4163268 GCGA
1 GCGA
4163272 TTCCCTCGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.16, C:0.19, G:0.23, T:0.42
Consensus pattern (20 bp):
GCGAATTTCAATTTCGCGTT
Found at i:4163431 original size:14 final size:14
Alignment explanation
Indices: 4163412--4163448 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
4163402 CATCAATTAA
4163412 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
4163426 ACAAATCACCTTTT
1 ACAAATCAACTTTT
4163440 ACAAATCAA
1 ACAAATCAA
4163449 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:4164872 original size:21 final size:21
Alignment explanation
Indices: 4164806--4164872 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
4164796 GTGAATCGGG
4164806 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAATGGTGGGAGGGGA
* * * ** * *
4164826 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAATGGTGGGAGGGGA
4164848 CTCTTGAATGGTGGGAGGGGA
1 CTCTTGAATGGTGGGAGGGGA
4164869 CTCT
1 CTCT
4164873 CGAGGAATGA
Statistics
Matches: 31, Mismatches: 14, Indels: 2
0.66 0.30 0.04
Matches are distributed among these distances:
21 29 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.19, G:0.36, T:0.25
Consensus pattern (21 bp):
CTCTTGAATGGTGGGAGGGGA
Found at i:4164891 original size:42 final size:41
Alignment explanation
Indices: 4164806--4164928 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
4164796 GTGAATCGGG
* * * *
4164806 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAATGGTGGGAGGGGA-CTC-TCGAGGATGATAGGGGC
4164848 CTCTTGAATGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAATGGTGGGAGGGGACTCTCGAGG-ATGATAGGGGC
* * * * * *
4164890 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGATAGG
1 CTCTTGAATGGTGGGAGGGGACTCTCGA-GGATGATAGG
4164929 CGAGTCGGGC
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
41 4 0.06
42 58 0.85
43 6 0.09
ACGTcount: A:0.23, C:0.17, G:0.37, T:0.24
Consensus pattern (41 bp):
CTCTTGAATGGTGGGAGGGGACTCTCGAGGATGATAGGGGC
Found at i:4166852 original size:20 final size:19
Alignment explanation
Indices: 4166807--4166992 Score: 131
Period size: 19 Copynumber: 10.1 Consensus size: 19
4166797 TCTTTTGGTT
*
4166807 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
4166826 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
** *
4166846 GGAAATGACTATTGCAA--C
1 -GAAATGAAAATCGCAACGC
*
4166864 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
** *
4166880 GAAATGACTATCGCGAC-C
1 GAAATGAAAATCGCAACGC
*
4166898 ---A-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGC
* *
4166913 AAAAATGAAAATCACAACCGC
1 -GAAATGAAAATCGCAA-CGC
*
4166934 GAAATAAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
4166953 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
* *
4166972 GAAATAAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
4166991 GA
1 GA
4166993 TTTTTGTTTC
Statistics
Matches: 132, Mismatches: 21, Indels: 28
0.73 0.12 0.15
Matches are distributed among these distances:
14 18 0.14
15 3 0.02
16 2 0.02
17 1 0.01
18 3 0.02
19 52 0.39
20 48 0.36
21 5 0.04
ACGTcount: A:0.46, C:0.22, G:0.20, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:4166889 original size:33 final size:34
Alignment explanation
Indices: 4166832--4166912 Score: 119
Period size: 33 Copynumber: 2.4 Consensus size: 34
4166822 ACGAGATAAT
* *
4166832 GAGAATCGCAACGCGGAAATGACTATTGCAACGA
1 GAGAATCGCAACGCGGAAATGACTATCGCAACCA
*
4166866 GAGAATCGCAACGC-GAAATGACTATCGCGACCA
1 GAGAATCGCAACGCGGAAATGACTATCGCAACCA
*
4166899 GACAATCGCAACGC
1 GAGAATCGCAACGC
4166913 AAAAATGAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 29 0.67
34 14 0.33
ACGTcount: A:0.37, C:0.26, G:0.25, T:0.12
Consensus pattern (34 bp):
GAGAATCGCAACGCGGAAATGACTATCGCAACCA
Done.