Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr6
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: 56482370
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1659275 characters in sequence are not A, C, G, or T
File 57 of 172
Found at i:18484325 original size:27 final size:27
Alignment explanation
Indices: 18484255--18484520 Score: 252
Period size: 27 Copynumber: 9.8 Consensus size: 27
18484245 TTCATCCTAC
* * * *
18484255 AAGGGTGTTTTGGTAAATCTACAAACC
1 AAGGGTATTTTGGTAATTTTACAAACT
** *
18484282 AAGGGTATTTCAGTAATTTTATAAACT
1 AAGGGTATTTTGGTAATTTTACAAACT
* * *
18484309 AAGGGTATTTCT-ATAATTTTTAGAAAGT
1 AAGGGTATTT-TGGTAA-TTTTACAAACT
** *
18484337 CAAGGGTATTTTTTTAATTTTGCAAA-T
1 -AAGGGTATTTTGGTAATTTTACAAACT
* *
18484364 CAGGGGTATTTTGGTAATTTTACAAATT
1 -AAGGGTATTTTGGTAATTTTACAAACT
* * *
18484392 GAGGGTATTTCGGTAATTTCACAAAC-
1 AAGGGTATTTTGGTAATTTTACAAACT
* *
18484418 CAGTGGTATTTTGGTAATTTTATAAACT
1 AAG-GGTATTTTGGTAATTTTACAAACT
* *
18484446 AGGGGTATTTTGGTAAATTTACAAACT
1 AAGGGTATTTTGGTAATTTTACAAACT
18484473 -AGTGGTATTTTGGTAATTTTACAAACT
1 AAG-GGTATTTTGGTAATTTTACAAACT
18484500 AAGGGTATTTTGGTAATTTTA
1 AAGGGTATTTTGGTAATTTTA
18484521 TCCTATAGGG
Statistics
Matches: 197, Mismatches: 33, Indels: 18
0.79 0.13 0.07
Matches are distributed among these distances:
26 3 0.02
27 160 0.81
28 21 0.11
29 13 0.07
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.41
Consensus pattern (27 bp):
AAGGGTATTTTGGTAATTTTACAAACT
Found at i:18484457 original size:81 final size:81
Alignment explanation
Indices: 18484284--18484558 Score: 254
Period size: 81 Copynumber: 3.4 Consensus size: 81
18484274 TACAAACCAA
** * * * ** * * *
18484284 GGGTATTTCAGTAATTTTATAAACTAAGGGTATTTCTATAATTTTTAGAAAGTCAAGGGTATTTT
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAA-TTTCACAAACT-AAGGGTATTTT
** *
18484349 TTTAATTTT-GCAAATCAG
64 GGTAATTTTATCAAAT-AG
*
18484367 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAAC-CAGTGGTATTTTG
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACTAAG-GGTATTTTG
18484431 GTAATTTTAT-AAACTAG
65 GTAATTTTATCAAA-TAG
* * * *
18484448 GGGTATTTTGGTAAATTTACAAACT-AGTGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTG
1 GGGTATTTTGGTAATTTTACAAATTGAG-GGTATTTCGGTAATTTCACAAACTAAGGGTATTTTG
**
18484512 GTAATTTTATCCTATAG
65 GTAATTTTATCAAATAG
** *
18484529 GGGTATTTCAGTAATTTCAC-AATTGAGGGT
1 GGGTATTTTGGTAATTTTACAAATTGAGGGT
18484559 CAAATGGTAA
Statistics
Matches: 159, Mismatches: 26, Indels: 17
0.79 0.13 0.08
Matches are distributed among these distances:
80 10 0.06
81 104 0.65
82 11 0.07
83 34 0.21
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.42
Consensus pattern (81 bp):
GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACTAAGGGTATTTTGG
TAATTTTATCAAATAG
Found at i:18484534 original size:54 final size:54
Alignment explanation
Indices: 18484257--18484550 Score: 238
Period size: 54 Copynumber: 5.4 Consensus size: 54
18484247 CATCCTACAA
* * * * ** *
18484257 GGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTAT-AAACTAA
1 GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTATCAAA-TAG
* * * ** *
18484311 GGGTATTTCT-ATAATTTTTAGAAAGTCAAGGGTATTTTTTTAATTTT-GCAAATCAG
1 GGGTATTT-TGGTAA-TTTTACAAACT-AAGGGTATTTTGGTAATTTTATCAAAT-AG
* * * * *
18484367 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCA-CAAACCAG
1 GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTATCAAA-TAG
* * * *
18484421 TGGTATTTTGGTAATTTTATAAACTAGGGGTATTTTGGTAAATTTA-CAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTATCAAA-TAG
* **
18484475 TGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTATCCTATAG
1 GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTATCAAATAG
** *
18484529 GGGTATTTCAGTAATTTCACAA
1 GGGTATTTTGGTAATTTTACAA
18484551 TTGAGGGTCA
Statistics
Matches: 192, Mismatches: 39, Indels: 18
0.77 0.16 0.07
Matches are distributed among these distances:
54 140 0.73
55 20 0.10
56 32 0.17
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTATCAAATAG
Found at i:18484579 original size:27 final size:27
Alignment explanation
Indices: 18484549--18484670 Score: 163
Period size: 27 Copynumber: 4.5 Consensus size: 27
18484539 GTAATTTCAC
*
18484549 AATTGAGGGTCAAATGGTAATTTTGTA
1 AATTGAGGGTAAAATGGTAATTTTGTA
*
18484576 AATTGAGGGTAAAATTGTAATTTTGTA
1 AATTGAGGGTAAAATGGTAATTTTGTA
* *
18484603 AATTGAGGGTAAAACGGTAATTCTGTA
1 AATTGAGGGTAAAATGGTAATTTTGTA
* * *
18484630 AATCGAGGGTAAAATGGTAATTCTATA
1 AATTGAGGGTAAAATGGTAATTTTGTA
**
18484657 AATCAAGGGTAAAA
1 AATTGAGGGTAAAA
18484671 CAAAAAGTCT
Statistics
Matches: 86, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 86 1.00
ACGTcount: A:0.39, C:0.05, G:0.24, T:0.32
Consensus pattern (27 bp):
AATTGAGGGTAAAATGGTAATTTTGTA
Found at i:18484687 original size:54 final size:54
Alignment explanation
Indices: 18484575--18484692 Score: 128
Period size: 54 Copynumber: 2.2 Consensus size: 54
18484565 GTAATTTTGT
* * * * ** *** * **
18484575 AAATTGAGGGTAAAATTGTAATTTTGTAAATTGAGGGTAAAACGGTAATTCTGT
1 AAATCGAGGGTAAAATGGTAATTCTATAAATCAAGGGTAAAACAAAAAGTCTAC
18484629 AAATCGAGGGTAAAATGGTAATTCTATAAATCAAGGGTAAAACAAAAAGTCTAC
1 AAATCGAGGGTAAAATGGTAATTCTATAAATCAAGGGTAAAACAAAAAGTCTAC
18484683 AAATCGAGGG
1 AAATCGAGGG
18484693 CATTTCAGTA
Statistics
Matches: 52, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.42, C:0.08, G:0.23, T:0.27
Consensus pattern (54 bp):
AAATCGAGGGTAAAATGGTAATTCTATAAATCAAGGGTAAAACAAAAAGTCTAC
Found at i:18485843 original size:49 final size:50
Alignment explanation
Indices: 18485723--18485856 Score: 155
Period size: 49 Copynumber: 2.7 Consensus size: 50
18485713 ATCACGTGTA
* ** *
18485723 TAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTGACGTGTG
1 TAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTGACATGTG
* *
18485773 TAGTACTAAGCGCAGGCTACTACGTGTACCGGATAATT-GGTCG-CATGTG
1 TAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGT-GACATGTG
* * * *
18485822 TAGTACTAAGTGCAAGTTACTATGCGTACCAGATA
1 TAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
18485857 GCCTTGTCTA
Statistics
Matches: 71, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
49 37 0.52
50 34 0.48
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (50 bp):
TAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTGACATGTG
Found at i:18487812 original size:40 final size:40
Alignment explanation
Indices: 18487716--18487899 Score: 212
Period size: 40 Copynumber: 4.5 Consensus size: 40
18487706 TATTCGGATG
* **
18487716 ATATCCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCATGC---TAGTTGCT
*
18487759 ATACCCGGGCTAAGTCCCGAAGGCATTCATGCTAG-TGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTTG-CT
18487799 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAG-TGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTTG-CT
* * ** *
18487839 ATATCTGGGCTAAGACCCGAAGGCATTTGTGCCAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTTGCT
*
18487879 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
18487900 ATACTTGGGT
Statistics
Matches: 126, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
39 15 0.12
40 81 0.64
41 2 0.02
43 28 0.22
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTTGCT
Found at i:18496517 original size:21 final size:20
Alignment explanation
Indices: 18496493--18496532 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
18496483 TATGAGCTTT
18496493 AATGATTGATGATAGATTATG
1 AATGATTGATGATAG-TTATG
*
18496514 AATGTTTGATGATAGTTAT
1 AATGATTGATGATAGTTAT
18496533 ATAAGTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.35, C:0.00, G:0.23, T:0.42
Consensus pattern (20 bp):
AATGATTGATGATAGTTATG
Found at i:18496540 original size:20 final size:21
Alignment explanation
Indices: 18496498--18496540 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
18496488 GCTTTAATGA
*
18496498 TTGATGATAGATTATGAATGT
1 TTGATGATAGATTATGAAAGT
18496519 TTGATGATAG-TTAT-ATAAGT
1 TTGATGATAGATTATGA-AAGT
18496539 TT
1 TT
18496541 TGTTAAGTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 1 0.05
20 9 0.45
21 10 0.50
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.47
Consensus pattern (21 bp):
TTGATGATAGATTATGAAAGT
Found at i:18501549 original size:28 final size:28
Alignment explanation
Indices: 18501486--18501639 Score: 265
Period size: 28 Copynumber: 5.5 Consensus size: 28
18501476 ATATTAAGTC
* *
18501486 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
18501513 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
18501541 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
18501569 CGCACACTTAGTGCTACATAATCAAATT
1 CGCACACTTAGTGCTACATAATCAAACT
18501597 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
18501625 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
18501640 GTACAATTTA
Statistics
Matches: 122, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
27 22 0.18
28 100 0.82
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:18507695 original size:70 final size:70
Alignment explanation
Indices: 18507582--18507722 Score: 264
Period size: 70 Copynumber: 2.0 Consensus size: 70
18507572 AAAATCCTTA
*
18507582 AGAGTCCTGACATCTCCAACCGAAGGGCTATCAGAATCAAATGCACCAATATAGGCTAAAAACGC
1 AGAGTCCTGACATCTCCAACAGAAGGGCTATCAGAATCAAATGCACCAATATAGGCTAAAAACGC
18507647 TTCAC
66 TTCAC
*
18507652 AGAGTCCTGACATCTCCAACAGAAGGGCTCTCAGAATCAAATGCACCAATATAGGCTAAAAACGC
1 AGAGTCCTGACATCTCCAACAGAAGGGCTATCAGAATCAAATGCACCAATATAGGCTAAAAACGC
18507717 TTCAC
66 TTCAC
18507722 A
1 A
18507723 ACCCTTGTGA
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 69 1.00
ACGTcount: A:0.38, C:0.27, G:0.17, T:0.18
Consensus pattern (70 bp):
AGAGTCCTGACATCTCCAACAGAAGGGCTATCAGAATCAAATGCACCAATATAGGCTAAAAACGC
TTCAC
Found at i:18510398 original size:28 final size:28
Alignment explanation
Indices: 18510367--18510421 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
18510357 AATGTAAGCC
*
18510367 TTAGCCCAATATAGTAATAGAGTGGGCG
1 TTAGCCCAATACAGTAATAGAGTGGGCG
*
18510395 TTAGCCCAATACAGTAATAGTGTGGGC
1 TTAGCCCAATACAGTAATAGAGTGGGC
18510422 CTCAATACAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.25
Consensus pattern (28 bp):
TTAGCCCAATACAGTAATAGAGTGGGCG
Found at i:18510664 original size:58 final size:58
Alignment explanation
Indices: 18510599--18510711 Score: 192
Period size: 58 Copynumber: 1.9 Consensus size: 58
18510589 TCTATTTTTA
*
18510599 TTATGTGTGAA-TTAGTGTGTGCTAAATTTTTGTTTAAAAAATTCATTGTTTGGATGCC
1 TTATGTGTGAATTTA-TGTGTGCTAAATTTTTGTTTAAAAAATTCATCGTTTGGATGCC
*
18510657 TTATGTGTGAATTTATGTGTGCTAAATTTTTGTTTAAAAATTTCATCGTTTGGAT
1 TTATGTGTGAATTTATGTGTGCTAAATTTTTGTTTAAAAAATTCATCGTTTGGAT
18510712 CCCGATTTAA
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
58 49 0.94
59 3 0.06
ACGTcount: A:0.26, C:0.06, G:0.19, T:0.49
Consensus pattern (58 bp):
TTATGTGTGAATTTATGTGTGCTAAATTTTTGTTTAAAAAATTCATCGTTTGGATGCC
Found at i:18513379 original size:23 final size:22
Alignment explanation
Indices: 18513335--18513397 Score: 54
Period size: 25 Copynumber: 2.6 Consensus size: 22
18513325 AGCTCCGGAT
* *
18513335 AGCCATATAACAGGATGTTCAAGCA
1 AGCCATAT--CAGGAAGGTCAAG-A
18513360 AGCCATATCAGGAAGGTCAAGA
1 AGCCATATCAGGAAGGTCAAGA
18513382 AGTTCCTATATCAGGA
1 AG--CC-ATATCAGGA
18513398 CACTCATAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
22 3 0.09
23 11 0.33
24 2 0.06
25 17 0.52
ACGTcount: A:0.38, C:0.19, G:0.22, T:0.21
Consensus pattern (22 bp):
AGCCATATCAGGAAGGTCAAGA
Found at i:18514960 original size:46 final size:46
Alignment explanation
Indices: 18514907--18515004 Score: 178
Period size: 46 Copynumber: 2.1 Consensus size: 46
18514897 TAATCTCATG
*
18514907 CTTATGTTGTTACGAATAAATTCACGGAAACTCGATAATTTGCTTA
1 CTTATGTTGTTACGAATAAATTCACGGAAACTCGATAATTTGCTAA
*
18514953 CTTATGTTGTTACGAATAAATTCACGGCAACTCGATAATTTGCTAA
1 CTTATGTTGTTACGAATAAATTCACGGAAACTCGATAATTTGCTAA
18514999 CTTATG
1 CTTATG
18515005 AACATATTCA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 50 1.00
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.37
Consensus pattern (46 bp):
CTTATGTTGTTACGAATAAATTCACGGAAACTCGATAATTTGCTAA
Found at i:18517571 original size:49 final size:49
Alignment explanation
Indices: 18517501--18517612 Score: 183
Period size: 49 Copynumber: 2.3 Consensus size: 49
18517491 CTTATCACAC
*
18517501 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACATATAT
1 ATACAC-T-TTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAT
18517552 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAT
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAT
18517601 ATACA--TTCACAT
1 ATACACTTTCACAT
18517613 CACAATTATC
Statistics
Matches: 60, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
47 7 0.12
49 46 0.77
50 1 0.02
51 6 0.10
ACGTcount: A:0.29, C:0.28, G:0.08, T:0.35
Consensus pattern (49 bp):
ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAT
Found at i:18521297 original size:40 final size:40
Alignment explanation
Indices: 18521240--18521395 Score: 195
Period size: 40 Copynumber: 3.9 Consensus size: 40
18521230 CGAATACACG
* * * *
18521240 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCAGATATA
1 TCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
* ** *
18521280 ACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATATA
1 TCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
* * *
18521320 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
* *
18521360 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGA
1 TCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGA
18521396 CCATCGTCGA
Statistics
Matches: 99, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 99 1.00
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
TCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
Found at i:18521496 original size:38 final size:38
Alignment explanation
Indices: 18521454--18521528 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
18521444 GAATTTTAAT
*
18521454 CCGGACATAATCTCTGT-ACATAGCCATCGGGTCTTTAC
1 CCGGACATAATCTCT-TCACATAGCCAGCGGGTCTTTAC
* *
18521492 CCGGACATAATCTCTTCATATAGTCAGCGGGTCTTTA
1 CCGGACATAATCTCTTCACATAGCCAGCGGGTCTTTA
18521529 AACTCGGATT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.31
Consensus pattern (38 bp):
CCGGACATAATCTCTTCACATAGCCAGCGGGTCTTTAC
Found at i:18522333 original size:40 final size:42
Alignment explanation
Indices: 18522234--18522357 Score: 216
Period size: 42 Copynumber: 3.0 Consensus size: 42
18522224 GCTATCACCT
18522234 TAAAAATCATATCTTGAGTTTCACAACTCGAAAATTAGTTTC
1 TAAAAATCATATCTTGAGTTTCACAACTCGAAAATTAGTTTC
* *
18522276 TAAAAATCATATCTTGAGTTTCACAACTTGAAAATCAGTTT-
1 TAAAAATCATATCTTGAGTTTCACAACTCGAAAATTAGTTTC
18522317 T-AAAATCATATCTTGAGTTTCACAACTCGAAAATTAGTTTC
1 TAAAAATCATATCTTGAGTTTCACAACTCGAAAATTAGTTTC
18522358 GTGATTTTTA
Statistics
Matches: 77, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
40 37 0.48
41 1 0.01
42 39 0.51
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.36
Consensus pattern (42 bp):
TAAAAATCATATCTTGAGTTTCACAACTCGAAAATTAGTTTC
Found at i:18524111 original size:47 final size:47
Alignment explanation
Indices: 18524060--18524406 Score: 502
Period size: 47 Copynumber: 7.3 Consensus size: 47
18524050 TATACACTTC
* *
18524060 CACATCCATCACATTGGCCATTCGGCCTTATCACACGTACACATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
18524107 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
18524154 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
18524201 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
* *
18524248 CACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACT-TT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACA-TGTT
* * * *
18524295 CACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACT-TT
1 CACATTCATCACATTGGCCATTCGGCCTTATCAC--ACATACACA-TGTT
* * * *
18524344 CACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACT-TT
1 CACATTCATCACATTGGCCATTCGGCCTTATCAC--ACATACACA-TGTT
18524393 CACATTCATCACAT
1 CACATTCATCACAT
18524407 CATGTACAGA
Statistics
Matches: 291, Mismatches: 6, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
47 214 0.74
48 1 0.00
49 76 0.26
ACGTcount: A:0.29, C:0.31, G:0.10, T:0.31
Consensus pattern (47 bp):
CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
Found at i:18529358 original size:5 final size:5
Alignment explanation
Indices: 18529348--18529376 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
18529338 TCCTTTACTG
18529348 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
18529377 CTCAAAGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:18540232 original size:41 final size:41
Alignment explanation
Indices: 18540175--18540257 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
18540165 TTTCTTTAAC
*
18540175 TTAGAATTATTAAACTCATGCTTATGTTGTTATGAATAAAT
1 TTAGAATTATTAAACTCATGCTTATGTTGTTACGAATAAAT
18540216 TTAGAATTATTAAACTCATGCTTATGTTGTTACGAATAAAT
1 TTAGAATTATTAAACTCATGCTTATGTTGTTACGAATAAAT
18540257 T
1 T
18540258 AACGGCTACT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.36, C:0.08, G:0.12, T:0.43
Consensus pattern (41 bp):
TTAGAATTATTAAACTCATGCTTATGTTGTTACGAATAAAT
Found at i:18540909 original size:46 final size:46
Alignment explanation
Indices: 18540842--18541060 Score: 293
Period size: 46 Copynumber: 4.7 Consensus size: 46
18540832 AACCCGCCCC
* * * * *
18540842 TAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGTATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
18540888 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
18540936 TTA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
18540981 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
18541027 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
18541061 TGCTCAACCA
Statistics
Matches: 153, Mismatches: 11, Indels: 18
0.84 0.06 0.10
Matches are distributed among these distances:
42 2 0.01
43 4 0.03
44 2 0.01
45 2 0.01
46 106 0.69
47 29 0.19
48 2 0.01
49 2 0.01
50 2 0.01
51 2 0.01
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:18551703 original size:27 final size:28
Alignment explanation
Indices: 18551634--18551707 Score: 87
Period size: 28 Copynumber: 2.7 Consensus size: 28
18551624 GAGGAAGCGG
* * *
18551634 TCTGGTAGCTATGCCACAAATATCTATT
1 TCTGGTGGCTATGCCACAAACATCTAGT
* *
18551662 TCTTGTGGCTTTGCCACAAACATCT-GT
1 TCTGGTGGCTATGCCACAAACATCTAGT
*
18551689 TCTGGTGGCTCTGCCACAA
1 TCTGGTGGCTATGCCACAA
18551708 TATCCGTATC
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
27 18 0.46
28 21 0.54
ACGTcount: A:0.22, C:0.26, G:0.19, T:0.34
Consensus pattern (28 bp):
TCTGGTGGCTATGCCACAAACATCTAGT
Found at i:18551719 original size:27 final size:27
Alignment explanation
Indices: 18551634--18551746 Score: 95
Period size: 27 Copynumber: 4.2 Consensus size: 27
18551624 GAGGAAGCGG
* * *
18551634 TCTGGTAGCTATGCCACAAATATCTATT
1 TCTGGTGGCTCTGCCACAAATATCT-GT
* * *
18551662 TCTTGTGGCTTTGCCACAAACATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGT
*
18551689 TCTGGTGGCTCTGCCAC-AATATCCGT
1 TCTGGTGGCTCTGCCACAAATATCTGT
* * * *
18551715 ATCTGATGACTCTGTCAC-AATATCTAT
1 -TCTGGTGGCTCTGCCACAAATATCTGT
18551742 TCTGG
1 TCTGG
18551747 CAGCCATGCT
Statistics
Matches: 69, Mismatches: 15, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
26 11 0.16
27 37 0.54
28 21 0.30
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGT
Found at i:18561981 original size:27 final size:26
Alignment explanation
Indices: 18561910--18562024 Score: 122
Period size: 27 Copynumber: 4.3 Consensus size: 26
18561900 TGGAGGAAGC
*
18561910 GTTCTGGTGGCTATGCCACAAATATTT
1 GTTCTGGTGGCTATGCCAC-AATATCT
18561937 GTTTCTGGTGGCTATGCCACATATATCT
1 G-TTCTGGTGGCTATGCCACA-ATATCT
* *
18561965 GTTCTAGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTATGCCACAATATCT
* ** * *
18561991 ATATCTGGTTACTCTGTCACAATATCT
1 GT-TCTGGTGGCTATGCCACAATATCT
18562018 GTTCTGG
1 GTTCTGG
18562025 CAGCCATGCT
Statistics
Matches: 76, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
26 12 0.16
27 40 0.53
28 24 0.32
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.38
Consensus pattern (26 bp):
GTTCTGGTGGCTATGCCACAATATCT
Found at i:18566880 original size:18 final size:17
Alignment explanation
Indices: 18566854--18566888 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
18566844 GATTATTAGA
*
18566854 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
18566871 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
18566889 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:18567004 original size:147 final size:148
Alignment explanation
Indices: 18566845--18567116 Score: 485
Period size: 147 Copynumber: 1.8 Consensus size: 148
18566835 AAGAATATTG
*
18566845 ATTATTAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAA
1 ATTATTAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTTAAA
*
18566910 TATGAGTAAATTATTTATTATTGAT-ATTAATAATCTTATTAAAATTTAAATAA-AATAATTTAC
66 TATGAGTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATTTAC
18566973 CAAAACAAATTTCTGCTA
131 CAAAACAAATTTCTGCTA
18566991 ATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTTAA
1 ATTATT-AGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTTAA
* *
18567056 ATATGATTAAATTATTTATTTTTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
65 ATATGAGTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
18567117 CAATAATCAT
Statistics
Matches: 119, Mismatches: 4, Indels: 3
0.94 0.03 0.02
Matches are distributed among these distances:
146 6 0.05
147 81 0.68
148 27 0.23
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.46
Consensus pattern (148 bp):
ATTATTAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTTAAA
TATGAGTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATTTAC
CAAAACAAATTTCTGCTA
Found at i:18567029 original size:18 final size:17
Alignment explanation
Indices: 18567001--18567035 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
18566991 ATTATTAAGA
*
18567001 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
18567018 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
18567036 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:18567287 original size:45 final size:44
Alignment explanation
Indices: 18567197--18567291 Score: 118
Period size: 45 Copynumber: 2.1 Consensus size: 44
18567187 TTACACCTCT
* * *
18567197 ATTACATTCAACCAAACACAGTTTTACTATTACGCCTATATTCC
1 ATTACATTCAACCAAACACAGATTTACTATTACACATATATTCC
** * *
18567241 ATTACATTCAACCAAACAGTTGATTTGCTATTACACATCTATTCC
1 ATTACATTCAACCAAACA-CAGATTTACTATTACACATATATTCC
18567286 ATTACA
1 ATTACA
18567292 CCTCTAATCC
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
44 18 0.42
45 25 0.58
ACGTcount: A:0.35, C:0.25, G:0.05, T:0.35
Consensus pattern (44 bp):
ATTACATTCAACCAAACACAGATTTACTATTACACATATATTCC
Found at i:18567291 original size:16 final size:16
Alignment explanation
Indices: 18567272--18567323 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
18567262 GATTTGCTAT
* * *
18567272 TACACATCTATTCCAT
1 TACACCTCTAATCCAA
18567288 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
18567304 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
18567320 TACA
1 TACA
18567324 GCGAACCAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.37, C:0.35, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:18571508 original size:30 final size:30
Alignment explanation
Indices: 18571474--18571534 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
18571464 TCTTTAATAC
*
18571474 AAACTTAGGAAAAATTACATTTTTGCCCCT
1 AAACTTAGGAAAAATTACACTTTTGCCCCT
** * *
18571504 AAACTTTTGCATAATTACACTTTTGCCCCT
1 AAACTTAGGAAAAATTACACTTTTGCCCCT
18571534 A
1 A
18571535 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.23, G:0.08, T:0.36
Consensus pattern (30 bp):
AAACTTAGGAAAAATTACACTTTTGCCCCT
Found at i:18583221 original size:14 final size:13
Alignment explanation
Indices: 18583193--18583229 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
18583183 ATCATGGAAT
18583193 ATTAAG-ACAATA
1 ATTAAGAACAATA
18583205 ATTAAGAACATATA
1 ATTAAGAACA-ATA
18583219 ATTAAGAACAA
1 ATTAAGAACAA
18583230 GTCAAATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 6 0.26
13 4 0.17
14 13 0.57
ACGTcount: A:0.59, C:0.08, G:0.08, T:0.24
Consensus pattern (13 bp):
ATTAAGAACAATA
Found at i:18586750 original size:48 final size:48
Alignment explanation
Indices: 18586698--18586790 Score: 127
Period size: 48 Copynumber: 1.9 Consensus size: 48
18586688 TTAGTTAATG
* *
18586698 ATGCCGAA-GCCATATCCCT-GATATGGTCTTATACGGGATCTCATTTCA
1 ATGCC-AATGCCATAT-CCTAGACATGGTCTTACACGGGATCTCATTTCA
*
18586746 ATGCCAATGCCATGTCCTAGACATGGTCTTACACGGGATCTCATT
1 ATGCCAATGCCATATCCTAGACATGGTCTTACACGGGATCTCATT
18586791 AACCATGGTG
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
47 5 0.12
48 35 0.88
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (48 bp):
ATGCCAATGCCATATCCTAGACATGGTCTTACACGGGATCTCATTTCA
Found at i:18589322 original size:28 final size:28
Alignment explanation
Indices: 18589285--18589339 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
18589275 TTTGACCCCT
* * *
18589285 TTAGGTCCAATCTCATTCATATGGCCCA
1 TTAGGCCCAATCACATTCATATAGCCCA
*
18589313 TTAGGCCCAATCACTTTCATATAGCCC
1 TTAGGCCCAATCACATTCATATAGCCC
18589340 GTCAGGCACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.25, C:0.31, G:0.13, T:0.31
Consensus pattern (28 bp):
TTAGGCCCAATCACATTCATATAGCCCA
Found at i:18589346 original size:28 final size:28
Alignment explanation
Indices: 18589291--18589361 Score: 70
Period size: 28 Copynumber: 2.5 Consensus size: 28
18589281 CCCTTTAGGT
* * *
18589291 CCAATCTCATTCATATGGCCCATTAGGC
1 CCAATCACATTCATATAGCCCATCAGGC
* *
18589319 CCAATCACTTTCATATAGCCCGTCAGGC
1 CCAATCACATTCATATAGCCCATCAGGC
* **
18589347 ACAATGGCATTCATA
1 CCAATCACATTCATA
18589362 GTCATGCAAT
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.28, C:0.31, G:0.14, T:0.27
Consensus pattern (28 bp):
CCAATCACATTCATATAGCCCATCAGGC
Found at i:18593845 original size:28 final size:28
Alignment explanation
Indices: 18593803--18593905 Score: 143
Period size: 28 Copynumber: 3.7 Consensus size: 28
18593793 TGGCCCCTTT
*
18593803 AGGCCCAATCTCATTCATATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
* *
18593831 GGGCCCAATCACATTCATGTGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
* * *
18593859 AGGCCGAATCACTTTCATATGGCCCGTC
1 AGGCCCAATCACATTCATATGGCCCATC
*
18593887 AGGCCGAATCACATTCATA
1 AGGCCCAATCACATTCATA
18593906 GTCATGCAAT
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 66 1.00
ACGTcount: A:0.25, C:0.33, G:0.18, T:0.23
Consensus pattern (28 bp):
AGGCCCAATCACATTCATATGGCCCATC
Found at i:18596082 original size:46 final size:46
Alignment explanation
Indices: 18596013--18596105 Score: 168
Period size: 46 Copynumber: 2.0 Consensus size: 46
18596003 CAAGAACCTG
*
18596013 AATATCTCTTAACATACTATCCGTATGATTGTTTTGTTACTTTCCT
1 AATATCTCTTAACATACTATCCGTATGATTGTTTCGTTACTTTCCT
*
18596059 AATATCTCTTAACATACTGTCCGTATGATTGTTTCGTTACTTTCCT
1 AATATCTCTTAACATACTATCCGTATGATTGTTTCGTTACTTTCCT
18596105 A
1 A
18596106 TGAAAGTAGA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.24, C:0.20, G:0.10, T:0.46
Consensus pattern (46 bp):
AATATCTCTTAACATACTATCCGTATGATTGTTTCGTTACTTTCCT
Found at i:18597050 original size:79 final size:82
Alignment explanation
Indices: 18596939--18597123 Score: 211
Period size: 79 Copynumber: 2.3 Consensus size: 82
18596929 GCTACTCGTT
* * *
18596939 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
18597002 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* * **
18597019 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGTACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
18597082 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
*
18597099 CAAA-GCCTTTGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
18597124 CATCATTCAA
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
78 3 0.03
79 52 0.58
80 34 0.38
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:18597061 original size:39 final size:40
Alignment explanation
Indices: 18596939--18597123 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
18596929 GCTACTCGTT
*
18596939 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
18596979 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
18597019 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
18597058 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
*
18597099 CAAA-GCCTTTGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
18597124 CATCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 76 0.62
41 12 0.10
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:18599231 original size:25 final size:25
Alignment explanation
Indices: 18599197--18599247 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
18599187 AACATCGTGA
* *
18599197 ATCTGATTTTCCTTGAGCTCTATCC
1 ATCTAATTTTCCTTAAGCTCTATCC
18599222 ATCTAATTTTCCTTAAGCTCTATCC
1 ATCTAATTTTCCTTAAGCTCTATCC
18599247 A
1 A
18599248 ATACAAGGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.22, C:0.27, G:0.08, T:0.43
Consensus pattern (25 bp):
ATCTAATTTTCCTTAAGCTCTATCC
Found at i:18604775 original size:15 final size:15
Alignment explanation
Indices: 18604736--18604815 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
18604726 GTATCTTGGG
*
18604736 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
18604751 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
18604766 TTTCTTTATTCCGGG
1 TTTCTTTATTCTGGA
*
18604781 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
18604796 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
18604810 TTTCTT
1 TTTCTT
18604816 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 10 0.19
15 41 0.77
16 2 0.04
ACGTcount: A:0.10, C:0.19, G:0.14, T:0.57
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:18604805 original size:30 final size:30
Alignment explanation
Indices: 18604727--18604814 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
18604717 CATAGTATCG
* * *
18604727 TATCTTGGGTTTCTTTA-TCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCC-GGATTTCTC
*
18604757 TAT-TCTGGATTTCTTTATTCCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCCGGATTTCTC
*
18604787 TATCTTGGATTTCTTTATT-CGGTTTTCT
1 TATCTTGGATTTCTTTATTCCGGATTTCT
18604815 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
29 9 0.18
30 37 0.74
31 4 0.08
ACGTcount: A:0.10, C:0.18, G:0.16, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCCGGATTTCTC
Found at i:18610131 original size:6 final size:6
Alignment explanation
Indices: 18610120--18610152 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
18610110 GGATTGCAAG
*
18610120 TTTCCA TTTCCA TTTCCA TTTTCA TTTCCA TTT
1 TTTCCA TTTCCA TTTCCA TTTCCA TTTCCA TTT
18610153 TTGGAAACCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.15, C:0.27, G:0.00, T:0.58
Consensus pattern (6 bp):
TTTCCA
Found at i:18617361 original size:88 final size:88
Alignment explanation
Indices: 18617212--18617388 Score: 327
Period size: 88 Copynumber: 2.0 Consensus size: 88
18617202 TTTCCTAGAA
* *
18617212 TCACAAATTATATCAACCGCATATATCTTTTTCTAATCACCTTGAACTTTAACACGCTGTGTCGG
1 TCACAAATTATATCAACCGCAGATATCTTCTTCTAATCACCTTGAACTTTAACACGCTGTGTCGG
18617277 AGCATATCGTCAAAGTTTTGAAT
66 AGCATATCGTCAAAGTTTTGAAT
*
18617300 TCACAAATTATATCAACCGCAGATATCTTCTTCTAATCACCTTGCACTTTAACACGCTGTGTCGG
1 TCACAAATTATATCAACCGCAGATATCTTCTTCTAATCACCTTGAACTTTAACACGCTGTGTCGG
18617365 AGCATATCGTCAAAGTTTTGAAT
66 AGCATATCGTCAAAGTTTTGAAT
18617388 T
1 T
18617389 ACTCTCTCAG
Statistics
Matches: 86, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
88 86 1.00
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.34
Consensus pattern (88 bp):
TCACAAATTATATCAACCGCAGATATCTTCTTCTAATCACCTTGAACTTTAACACGCTGTGTCGG
AGCATATCGTCAAAGTTTTGAAT
Found at i:18620700 original size:15 final size:16
Alignment explanation
Indices: 18620680--18620717 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
18620670 AATTGGAAAG
*
18620680 ATGAAAAGTT-ATTAA
1 ATGAAAACTTAATTAA
18620695 ATGAAAACTTAATTAA
1 ATGAAAACTTAATTAA
18620711 ATGAAAA
1 ATGAAAA
18620718 AGAAAACAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 9 0.43
16 12 0.57
ACGTcount: A:0.58, C:0.03, G:0.11, T:0.29
Consensus pattern (16 bp):
ATGAAAACTTAATTAA
Found at i:18622446 original size:53 final size:52
Alignment explanation
Indices: 18622361--18622567 Score: 182
Period size: 53 Copynumber: 3.8 Consensus size: 52
18622351 TTTCTTTTTA
* *
18622361 AACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATG
1 AACTTACCA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
* * * *
18622414 AACTCACCATCGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATAG
1 AACTTACCAT-GCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-G
** * * * * * * *
18622468 TAGTTTATCAATGCCATGTCTAGACATGGCCTTACATGATTTCCTTGCCTTGCA-A
1 -AACTTA-CCATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTT--ATG
* *
18622523 AACTTACCAATGCCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 AACTTACC-ATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
18622568 AAACCCTAAT
Statistics
Matches: 118, Mismatches: 29, Indels: 13
0.74 0.18 0.08
Matches are distributed among these distances:
52 1 0.01
53 45 0.38
54 34 0.29
55 34 0.29
56 3 0.03
57 1 0.01
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.35
Consensus pattern (52 bp):
AACTTACCATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
Found at i:18625236 original size:40 final size:40
Alignment explanation
Indices: 18625207--18625469 Score: 399
Period size: 40 Copynumber: 6.6 Consensus size: 40
18625197 GCTACTCGCT
* *
18625207 CAAATGCCTTCGGGACTTAGCCCGG-ATATAGT-AGTTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTCA-CTAGCA
* *
18625247 CAAATGCCTTCAGGACTTAGCCCGG-ATATAGTAACTCA-CA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTCACT-AGCA
*
18625287 CAAATGCCTTCGGGACTTAGCCCAGAATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCA
18625327 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCA
* *
18625367 CAAATGCCTTCGGGACTTAGCCCAGAATTAGTCATTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCA
18625407 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCA
18625447 CAAATGCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
18625470 CGTTATCATC
Statistics
Matches: 208, Mismatches: 11, Indels: 8
0.92 0.05 0.04
Matches are distributed among these distances:
39 1 0.00
40 204 0.98
41 3 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACTAGCA
Found at i:18632083 original size:32 final size:32
Alignment explanation
Indices: 18632046--18632111 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
18632036 TCTTAGAACT
* *
18632046 ATGTAATATCTTCTATATTTCTTAATGAATCA
1 ATGTAATATATTCCATATTTCTTAATGAATCA
18632078 ATGTAATATATTCCATATTTCTTAATGAATCA
1 ATGTAATATATTCCATATTTCTTAATGAATCA
18632110 AT
1 AT
18632112 CCTTTATCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.36, C:0.12, G:0.06, T:0.45
Consensus pattern (32 bp):
ATGTAATATATTCCATATTTCTTAATGAATCA
Found at i:18633138 original size:13 final size:13
Alignment explanation
Indices: 18633120--18633183 Score: 67
Period size: 13 Copynumber: 4.9 Consensus size: 13
18633110 AGTTTAACAT
*
18633120 TGCTTTTGAAAAC
1 TGCTTTTGAAAAG
*
18633133 TGCTTTTAAAAAG
1 TGCTTTTGAAAAG
*
18633146 TG-TTGTGAAAAAG
1 TGCTTTTG-AAAAG
*
18633159 TGCTTTTGAAAAA
1 TGCTTTTGAAAAG
*
18633172 TACTTTTGAAAA
1 TGCTTTTGAAAA
18633184 ATTTTGTTTA
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
12 3 0.07
13 35 0.83
14 4 0.10
ACGTcount: A:0.38, C:0.08, G:0.17, T:0.38
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:18634073 original size:27 final size:27
Alignment explanation
Indices: 18634043--18634095 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
18634033 ATCAGGGTAT
18634043 GCCACAAAAG-TAGTTCTTTTAGAGTTC
1 GCCACAAAAGCTA-TTCTTTTAGAGTTC
*
18634070 GCCACAAAGGCTATTCTTTTAGAGTT
1 GCCACAAAAGCTATTCTTTTAGAGTT
18634096 TGCCTTAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 22 0.92
28 2 0.08
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (27 bp):
GCCACAAAAGCTATTCTTTTAGAGTTC
Found at i:18634105 original size:27 final size:27
Alignment explanation
Indices: 18634056--18634135 Score: 97
Period size: 27 Copynumber: 3.0 Consensus size: 27
18634046 ACAAAAGTAG
* *
18634056 TTCTTTTAGAGTTCGCCACAAAGGCTA
1 TTCTTTTAGAGTTTGCCATAAAGGCTA
* *
18634083 TTCTTTTAGAGTTTGCCTTAAAGGCTT
1 TTCTTTTAGAGTTTGCCATAAAGGCTA
* * *
18634110 TTCTTTCAGATTTTTCCATAAAGGCT
1 TTCTTTTAGAGTTTGCCATAAAGGCT
18634136 CACAAAATGC
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.23, C:0.19, G:0.16, T:0.42
Consensus pattern (27 bp):
TTCTTTTAGAGTTTGCCATAAAGGCTA
Found at i:18640837 original size:42 final size:42
Alignment explanation
Indices: 18640771--18640858 Score: 149
Period size: 42 Copynumber: 2.1 Consensus size: 42
18640761 GGCTATTACA
* *
18640771 ACACTGCCTAAGACACGAGCGTGTCTCTTGGTCATGTGAGTC
1 ACACAGCCTAAGACACGAGCGTGTCTCTTGGCCATGTGAGTC
*
18640813 ACACAGCCTAAGACACGAGTGTGTCTCTTGGCCATGTGAGTC
1 ACACAGCCTAAGACACGAGCGTGTCTCTTGGCCATGTGAGTC
18640855 ACAC
1 ACAC
18640859 GGCTTGTCCA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.24, C:0.27, G:0.25, T:0.24
Consensus pattern (42 bp):
ACACAGCCTAAGACACGAGCGTGTCTCTTGGCCATGTGAGTC
Found at i:18644258 original size:27 final size:28
Alignment explanation
Indices: 18644206--18644263 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 28
18644196 CATCACATAG
18644206 GGGCAAAACAATCATCTTACCATATA-A
1 GGGCAAAACAATCATCTTACCATATATA
* * * *
18644233 GGGCAAAATAATCATTTTATCTTATATA
1 GGGCAAAACAATCATCTTACCATATATA
18644261 GGG
1 GGG
18644264 GGTCTAGGTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
27 22 0.85
28 4 0.15
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.29
Consensus pattern (28 bp):
GGGCAAAACAATCATCTTACCATATATA
Found at i:18647728 original size:46 final size:46
Alignment explanation
Indices: 18647676--18648036 Score: 470
Period size: 46 Copynumber: 8.0 Consensus size: 46
18647666 GAGTGTGCTC
*
18647676 CCTGATA-GAAAATGTGTAAGAGCATGGTTGAAAGATACCATGGCAA
1 CCTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
18647722 CCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
1 CCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
*
18647768 CCTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAA
1 CCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
18647814 CCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
1 CCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
18647860 CCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
1 CCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
* * *
18647906 CATGACATGATATGTGT---A--A--GTTGAAAGATACCATGGCAA
1 CCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
* *** ** *
18647945 CGTGACCGGGAAATGAATAAGACCATGGTTGAATGATACCATGGCAA
1 CCTGA-TATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
* * * * * *
18647992 CATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CCTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
18648037 TCATGTTGAA
Statistics
Matches: 285, Mismatches: 20, Indels: 20
0.88 0.06 0.06
Matches are distributed among these distances:
39 24 0.08
40 7 0.02
41 1 0.00
43 2 0.01
45 2 0.01
46 225 0.79
47 24 0.08
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
CCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
Found at i:18657468 original size:16 final size:15
Alignment explanation
Indices: 18657441--18657474 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
18657431 ATAACTAGTA
*
18657441 TATAATTATATTTAT
1 TATAATTATATTAAT
18657456 TATAATATATATTAAT
1 TATAAT-TATATTAAT
18657472 TAT
1 TAT
18657475 TATCAACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATAATTATATTAAT
Found at i:18658111 original size:23 final size:23
Alignment explanation
Indices: 18658060--18658120 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 23
18658050 GGTGGTAAGA
18658060 CAAATT-TTT-ATT-TTTAATTT
1 CAAATTATTTAATTATTTAATTT
* *
18658080 CAATTTTATTTAATTATTTATTTT
1 CAA-ATTATTTAATTATTTAATTT
*
18658104 CAAATTATTGAATTATT
1 CAAATTATTTAATTATT
18658121 AATATTTTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
20 3 0.09
21 2 0.06
22 3 0.09
23 15 0.45
24 10 0.30
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.61
Consensus pattern (23 bp):
CAAATTATTTAATTATTTAATTT
Found at i:18664616 original size:31 final size:31
Alignment explanation
Indices: 18664532--18664616 Score: 136
Period size: 31 Copynumber: 2.8 Consensus size: 31
18664522 TTAATCTCAA
*
18664532 CATAT-ACTGGGCCGAAGCCTTTGCATTATT
1 CATATCACTGGGCCGAAGCCTTTTCATTATT
* *
18664562 AATGTCACTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTTCATTATT
18664593 CATATCACTGGGCCGAAGCCTTTT
1 CATATCACTGGGCCGAAGCCTTTT
18664617 ACTGTAAACG
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 3 0.06
31 46 0.94
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.33
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATTATT
Found at i:18664851 original size:25 final size:25
Alignment explanation
Indices: 18664823--18664882 Score: 68
Period size: 26 Copynumber: 2.4 Consensus size: 25
18664813 CTGGAGGCCT
*
18664823 AGCCTCTTTTAAT-AACTGGGGCAAA
1 AGCC-CTTTTAATAAACTAGGGCAAA
* *
18664848 AGCCCTTTTTGATAAATTAGGGCAAA
1 AGCCC-TTTTAATAAACTAGGGCAAA
18664874 AGCCCTTTT
1 AGCCCTTTT
18664883 CGGTAAACTG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 1 0.03
25 14 0.47
26 15 0.50
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (25 bp):
AGCCCTTTTAATAAACTAGGGCAAA
Found at i:18664896 original size:26 final size:25
Alignment explanation
Indices: 18664836--18664931 Score: 95
Period size: 26 Copynumber: 3.8 Consensus size: 25
18664826 CTCTTTTAAT
* *
18664836 AACTGGGGCAAAAGCCCTTTTTGATA
1 AACTGGGGC-AAAGCCCTTTTCGGTA
* *
18664862 AATTAGGGCAAAAGCCCTTTTCGGTA
1 AACTGGGGC-AAAGCCCTTTTCGGTA
* * *
18664888 AACTGGGGCGAAGTCTTTTTCGGT-
1 AACTGGGGCAAAGCCCTTTTCGGTA
*
18664912 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
18664932 GCACTTCCTC
Statistics
Matches: 57, Mismatches: 13, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
24 16 0.28
25 12 0.21
26 29 0.51
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGGTA
Found at i:18665092 original size:25 final size:25
Alignment explanation
Indices: 18665064--18665111 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
18665054 AATTAAACCT
* *
18665064 TAGGGGTAAAATGGTCATTTTTACC
1 TAGGGGCAAAATAGTCATTTTTACC
18665089 TAGGGGCAAAATAGTCATTTTTA
1 TAGGGGCAAAATAGTCATTTTTA
18665112 TATTTAAAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.31, C:0.10, G:0.23, T:0.35
Consensus pattern (25 bp):
TAGGGGCAAAATAGTCATTTTTACC
Found at i:18677431 original size:31 final size:31
Alignment explanation
Indices: 18677396--18677457 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
18677386 GCTTAGTAAG
*
18677396 CTCATGTAACAAGAATTATACTTACCTAATA
1 CTCATGAAACAAGAATTATACTTACCTAATA
18677427 CTCATGAAACAAGAATTATACTTACCTAATA
1 CTCATGAAACAAGAATTATACTTACCTAATA
18677458 TTTTTCAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.44, C:0.19, G:0.06, T:0.31
Consensus pattern (31 bp):
CTCATGAAACAAGAATTATACTTACCTAATA
Found at i:18680210 original size:31 final size:31
Alignment explanation
Indices: 18680164--18680245 Score: 121
Period size: 31 Copynumber: 2.7 Consensus size: 31
18680154 TCAATCTCAA
*
18680164 CATAT-ACTGGGCCGAAGCCTTTGCATTATT
1 CATATCACTAGGCCGAAGCCTTTGCATTATT
* *
18680194 CATGTCACTAGGCCGAAGCCTTTTCATTATT
1 CATATCACTAGGCCGAAGCCTTTGCATTATT
*
18680225 CATATCACTGGGCCGAAGCCT
1 CATATCACTAGGCCGAAGCCT
18680246 CTTACTGTAA
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
30 4 0.09
31 42 0.91
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (31 bp):
CATATCACTAGGCCGAAGCCTTTGCATTATT
Found at i:18680483 original size:25 final size:25
Alignment explanation
Indices: 18680455--18680539 Score: 93
Period size: 26 Copynumber: 3.4 Consensus size: 25
18680445 CTGGAGGCCT
18680455 AGCCTCTTTTAAT-AACTGGGGCAAA
1 AGCC-CTTTTAATAAACTGGGGCAAA
*
18680480 AGCCCTTTTTGATAAACTGGGGCAAA
1 AGCCC-TTTTAATAAACTGGGGCAAA
** *
18680506 AGCCCTTTTCGGTAAACTGGGAC-AA
1 AGCCCTTTT-AATAAACTGGGGCAAA
18680531 AGCCCTTTT
1 AGCCCTTTT
18680540 CGGTAACTGG
Statistics
Matches: 54, Mismatches: 3, Indels: 6
0.86 0.05 0.10
Matches are distributed among these distances:
24 1 0.02
25 25 0.46
26 28 0.52
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.28
Consensus pattern (25 bp):
AGCCCTTTTAATAAACTGGGGCAAA
Found at i:18680540 original size:25 final size:26
Alignment explanation
Indices: 18680468--18680563 Score: 135
Period size: 26 Copynumber: 3.8 Consensus size: 26
18680458 CTCTTTTAAT
* *
18680468 AACTGGGGCAAAAGCCCTTTTTGATA
1 AACTGGGGCAAAAGCCCTTTTCGGTA
18680494 AACTGGGGCAAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAAGCCCTTTTCGGTA
*
18680520 AACTGGGAC-AAAGCCCTTTTCGGT-
1 AACTGGGGCAAAAGCCCTTTTCGGTA
*
18680544 AACTGGGGC-ATAGCCCTTTT
1 AACTGGGGCAAAAGCCCTTTT
18680564 GTACTTCCTC
Statistics
Matches: 65, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
24 18 0.28
25 15 0.23
26 32 0.49
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.26
Consensus pattern (26 bp):
AACTGGGGCAAAAGCCCTTTTCGGTA
Found at i:18682934 original size:12 final size:12
Alignment explanation
Indices: 18682919--18682943 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
18682909 ACAGAAAATA
18682919 ATAAAAATTTTC
1 ATAAAAATTTTC
18682931 ATAAAAATTTTC
1 ATAAAAATTTTC
18682943 A
1 A
18682944 AACATACATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (12 bp):
ATAAAAATTTTC
Found at i:18688458 original size:56 final size:56
Alignment explanation
Indices: 18688423--18688830 Score: 559
Period size: 56 Copynumber: 7.3 Consensus size: 56
18688413 CACATATCAA
* * *
18688423 AATCACATATCGATGCCAACGTATTAAATGTGGTCTTAGTCGCATACATATTTCGG
1 AATCACATATCGATGCCAACGTATTAAATGTGGTCTTACTCGCACACATATTTCAG
* *
18688479 ATTCACATATCGATGCCAACGTATTAAATGTGGTCTTACTCGCACACATATTTCGG
1 AATCACATATCGATGCCAACGTATTAAATGTGGTCTTACTCGCACACATATTTCAG
* * *
18688535 AATCACATATCGATGCCAACATATTAAACGTGGTCTTAATCGCACACATATTTC-G
1 AATCACATATCGATGCCAACGTATTAAATGTGGTCTTACTCGCACACATATTTCAG
* * *
18688590 AAATTACTTATTGATGCCAACGTATTAAATGTGGTCTTACTCGCACACATATTTCAG
1 -AATCACATATCGATGCCAACGTATTAAATGTGGTCTTACTCGCACACATATTTCAG
*
18688647 AATCACATATCGATGCCAATGTATTAAAAT-TGGTCTTACTCGCACACATATTTCAG
1 AATCACATATCGATGCCAACGTATT-AAATGTGGTCTTACTCGCACACATATTTCAG
* * ** * * **
18688703 AATCACATATTGATGCCAACATATTAAACATAGTCTTACTCACACACATATTTTGG
1 AATCACATATCGATGCCAACGTATTAAATGTGGTCTTACTCGCACACATATTTCAG
* * ** *
18688759 AATCACATATTGATGCCAATGTATTAAACATGGTCTTACTCGTACACATATTTCAG
1 AATCACATATCGATGCCAACGTATTAAATGTGGTCTTACTCGCACACATATTTCAG
18688815 AATCACATATCGATGC
1 AATCACATATCGATGC
18688831 GAACTAAAAA
Statistics
Matches: 315, Mismatches: 33, Indels: 8
0.88 0.09 0.02
Matches are distributed among these distances:
55 4 0.01
56 306 0.97
57 5 0.02
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.32
Consensus pattern (56 bp):
AATCACATATCGATGCCAACGTATTAAATGTGGTCTTACTCGCACACATATTTCAG
Found at i:18688655 original size:168 final size:168
Alignment explanation
Indices: 18688422--18688830 Score: 622
Period size: 168 Copynumber: 2.4 Consensus size: 168
18688412 ACACATATCA
* * * * *
18688422 AAATCACATATCGATGCCAACGTATTAAATGTGGTCTTAGTCGCATACATATTTCGGATTCACAT
1 AAATCACATATTGATGCCAACGTATTAAATGTGGTCTTACTCGCACACATATTTCAGAATCACAT
*
18688487 ATCGATGCCAACGTATT-AAATGTGGTCTTACTCGCACACATATTTCGGAATCACATATCGATGC
66 ATCGATGCCAACGTATTAAAAT-TGGTCTTACTCGCACACATATTTCAGAATCACATATCGATGC
* * *
18688551 CAACATATTAAACGTGGTCTTAATCGCACACATATTTCG
130 CAACATATTAAACATAGTCTTAATCACACACATATTTCG
* *
18688590 AAATTACTTATTGATGCCAACGTATTAAATGTGGTCTTACTCGCACACATATTTCAGAATCACAT
1 AAATCACATATTGATGCCAACGTATTAAATGTGGTCTTACTCGCACACATATTTCAGAATCACAT
* *
18688655 ATCGATGCCAATGTATTAAAATTGGTCTTACTCGCACACATATTTCAGAATCACATATTGATGCC
66 ATCGATGCCAACGTATTAAAATTGGTCTTACTCGCACACATATTTCAGAATCACATATCGATGCC
* *
18688720 AACATATTAAACATAGTCTTACTCACACACATATTTTG
131 AACATATTAAACATAGTCTTAATCACACACATATTTCG
* * ** *
18688758 GAATCACATATTGATGCCAATGTATTAAACATGGTCTTACTCGTACACATATTTCAGAATCACAT
1 AAATCACATATTGATGCCAACGTATTAAATGTGGTCTTACTCGCACACATATTTCAGAATCACAT
18688823 ATCGATGC
66 ATCGATGC
18688831 GAACTAAAAA
Statistics
Matches: 218, Mismatches: 22, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
168 214 0.98
169 4 0.02
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.32
Consensus pattern (168 bp):
AAATCACATATTGATGCCAACGTATTAAATGTGGTCTTACTCGCACACATATTTCAGAATCACAT
ATCGATGCCAACGTATTAAAATTGGTCTTACTCGCACACATATTTCAGAATCACATATCGATGCC
AACATATTAAACATAGTCTTAATCACACACATATTTCG
Found at i:18694142 original size:39 final size:40
Alignment explanation
Indices: 18694045--18694224 Score: 181
Period size: 40 Copynumber: 4.5 Consensus size: 40
18694035 AATGATGTCT
* * * *
18694045 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT-TTC
*
18694085 GGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATTTC
1 GGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAATTTC
* *
18694125 GGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATTC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTTC
* * **
18694164 GGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACT-ATAACC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TTC
*
18694204 GGGCTATGTCCCGAAGGCATT
1 GGGCTAAGTCCCGAAGGCATT
18694225 GGAACGAGTA
Statistics
Matches: 118, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
39 36 0.31
40 72 0.61
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTTC
Found at i:18702334 original size:40 final size:40
Alignment explanation
Indices: 18702143--18702327 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
18702133 TCGAATGATG
* * * * *
18702143 TCCGTGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
18702183 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
18702223 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
18702262 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTGTAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAA
*
18702303 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
18702328 AACGAGTAGA
Statistics
Matches: 124, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:18702349 original size:79 final size:78
Alignment explanation
Indices: 18702196--18702350 Score: 181
Period size: 79 Copynumber: 2.0 Consensus size: 78
18702186 GGACTAAGAT
** *
18702196 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAA-TCCGGGCTAAGCCCGAAGGCATTGGAACGAGTTAATAA
18702261 ATCCGGGTTAAGTC
65 ATCCGGGTTAAGTC
* * *
18702275 CCGAAGGCATTTGTGCGAGTTATTGTAA-CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGA
1 CCGAAGGCATTTGTGCGAGTTA--CTAATCCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-A
*
18702338 TATATCC-GGTTAA
62 TAAATCCGGGTTAA
18702351 ATTCTGAAGG
Statistics
Matches: 65, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
79 39 0.60
80 23 0.35
81 3 0.05
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.26
Consensus pattern (78 bp):
CCGAAGGCATTTGTGCGAGTTACTAATCCGGGCTAAGCCCGAAGGCATTGGAACGAGTTAATAAA
TCCGGGTTAAGTC
Found at i:18704086 original size:20 final size:20
Alignment explanation
Indices: 18704061--18704111 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
18704051 TTAAGGCTCC
18704061 ACACGCCCGTGTGGCTTGCG
1 ACACGCCCGTGTGGCTTGCG
*
18704081 ACACGCCCGTGTGGCTTGGG
1 ACACGCCCGTGTGGCTTGCG
*
18704101 ACACGCTCGTG
1 ACACGCCCGTG
18704112 CCCTTAGCCC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.12, C:0.33, G:0.35, T:0.20
Consensus pattern (20 bp):
ACACGCCCGTGTGGCTTGCG
Found at i:18707320 original size:40 final size:40
Alignment explanation
Indices: 18707215--18707550 Score: 484
Period size: 40 Copynumber: 8.5 Consensus size: 40
18707205 CGGATGATAA
* *
18707215 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
18707255 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
18707294 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
18707334 CCGAGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
18707374 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
** * *
18707414 CCGGGCTAAGTCTTGAAGGCATTTGTACGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
18707454 CCGGGCTAAGTCCCGAAGGCATTTTTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
18707494 CCGGGCT-AGTCCCGAAGACATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
18707533 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
18707551 TGCTTGGTTT
Statistics
Matches: 269, Mismatches: 23, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
38 5 0.02
39 71 0.26
40 193 0.72
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:18714758 original size:93 final size:93
Alignment explanation
Indices: 18714628--18714893 Score: 478
Period size: 93 Copynumber: 2.9 Consensus size: 93
18714618 CGCCCATAAG
* * * * *
18714628 CGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAGCTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
18714693 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
18714721 CGAACTCGGACTCAGCTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAGCTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
18714786 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
18714814 CGAACTCGGACTCAGCTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAGCTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
18714879 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
18714894 CAAATATCTC
Statistics
Matches: 167, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 167 1.00
ACGTcount: A:0.27, C:0.31, G:0.22, T:0.20
Consensus pattern (93 bp):
CGAACTCGGACTCAGCTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:18714889 original size:46 final size:46
Alignment explanation
Indices: 18714621--18714889 Score: 271
Period size: 46 Copynumber: 5.8 Consensus size: 46
18714611 TGTAACCCGC
* * *
18714621 CCATAAGCGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* * *
18714667 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACG-CTCG---CAT
* * *
18714717 -C-TCA-CGAACTCGGACTCAGCTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* * *
18714760 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACG-CTCG---CAT
* * *
18714810 -C-TCA-CGAACTCGGACTCAGCTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* *
18714853 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
18714890 TGCCCAAATA
Statistics
Matches: 182, Mismatches: 27, Indels: 28
0.77 0.11 0.12
Matches are distributed among these distances:
43 6 0.03
44 2 0.01
45 4 0.02
46 97 0.53
47 61 0.34
48 4 0.02
49 2 0.01
50 6 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
Found at i:18722914 original size:50 final size:50
Alignment explanation
Indices: 18722839--18722938 Score: 191
Period size: 50 Copynumber: 2.0 Consensus size: 50
18722829 CTTGTGTAGT
18722839 TGCTAAGTTACGAAAATTACCCATAAAGAGCAAAATTACCGATATACCCC
1 TGCTAAGTTACGAAAATTACCCATAAAGAGCAAAATTACCGATATACCCC
*
18722889 TGCTAAGTTACGAAAATTACCCATAAAGAGCAAAATTACTGATATACCCC
1 TGCTAAGTTACGAAAATTACCCATAAAGAGCAAAATTACCGATATACCCC
18722939 GAGGGTTTAA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.42, C:0.23, G:0.12, T:0.23
Consensus pattern (50 bp):
TGCTAAGTTACGAAAATTACCCATAAAGAGCAAAATTACCGATATACCCC
Found at i:18728173 original size:37 final size:37
Alignment explanation
Indices: 18728119--18728192 Score: 121
Period size: 37 Copynumber: 2.0 Consensus size: 37
18728109 TATGGAAGTG
18728119 GGAAAGAGAAACAATGGACTTTGTGAGTAGGTTACCT
1 GGAAAGAGAAACAATGGACTTTGTGAGTAGGTTACCT
* * *
18728156 GGAAAGAGTAACGATGGACTTTGTGAGTGGGTTACCT
1 GGAAAGAGAAACAATGGACTTTGTGAGTAGGTTACCT
18728193 TTGACACCCA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.31, C:0.11, G:0.32, T:0.26
Consensus pattern (37 bp):
GGAAAGAGAAACAATGGACTTTGTGAGTAGGTTACCT
Found at i:18736534 original size:16 final size:16
Alignment explanation
Indices: 18736513--18736544 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
18736503 TTCCAAAAAC
18736513 ATATAATCACAACATT
1 ATATAATCACAACATT
18736529 ATATAATCACAACATT
1 ATATAATCACAACATT
18736545 CACCAATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.19, G:0.00, T:0.31
Consensus pattern (16 bp):
ATATAATCACAACATT
Found at i:18737348 original size:140 final size:140
Alignment explanation
Indices: 18736916--18737336 Score: 761
Period size: 140 Copynumber: 3.0 Consensus size: 140
18736906 ATTTAGTCCG
* * * * * * **
18736916 TAAAGCCAAAACATTCAAATTTAACAAAATTCCACAAACACGCATGCTAGTTGAATTTATTCTTA
1 TAAATCCAAAACTTTCGAATTTAACTAAATTTCACAAACATGCATGCTAGCCGAATTTATTCTTA
*
18736981 TTGTAGTACAATTCAATATTATCCAAAATTCACAAGAATTCCATATAAATTTTAATATTTTATCA
66 TTTTAGTACAATTCAATATTATCCAAAATTCACAAGAATTCCATATAAATTTTAATATTTTATCA
18737046 AATTAATCCT
131 AATTAATCCT
18737056 TAAATCCAAAACTTTCGAATTTAACTAAATTTCACAAACATGCATGCTAGCCGAATTTATTCTTA
1 TAAATCCAAAACTTTCGAATTTAACTAAATTTCACAAACATGCATGCTAGCCGAATTTATTCTTA
18737121 TTTTAGTACAATTCAATATTATCCAAAATTCACAAGAATTCCATATAAATTTTAATATTTTATCA
66 TTTTAGTACAATTCAATATTATCCAAAATTCACAAGAATTCCATATAAATTTTAATATTTTATCA
18737186 AATTAATCCT
131 AATTAATCCT
18737196 TAAATCCAAAACTTTCGAATTTAACTAAATTTCACAAACATGCATGCTAGCCGAATTTATTCTTA
1 TAAATCCAAAACTTTCGAATTTAACTAAATTTCACAAACATGCATGCTAGCCGAATTTATTCTTA
18737261 TTTTAGTACAATTCAATATTATCCAAAATTCACAAGAATTCCATATAAATTTTAATATTTTATCA
66 TTTTAGTACAATTCAATATTATCCAAAATTCACAAGAATTCCATATAAATTTTAATATTTTATCA
18737326 AATTAATCCT
131 AATTAATCCT
18737336 T
1 T
18737337 TAACTGAAAA
Statistics
Matches: 272, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
140 272 1.00
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.37
Consensus pattern (140 bp):
TAAATCCAAAACTTTCGAATTTAACTAAATTTCACAAACATGCATGCTAGCCGAATTTATTCTTA
TTTTAGTACAATTCAATATTATCCAAAATTCACAAGAATTCCATATAAATTTTAATATTTTATCA
AATTAATCCT
Found at i:18741330 original size:20 final size:20
Alignment explanation
Indices: 18741301--18741345 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
18741291 AGCACATGTA
* *
18741301 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAACTT
*
18741321 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
18741341 TTCAT
1 TTCAT
18741346 TTTAGTCCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.02, T:0.49
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:18749504 original size:79 final size:81
Alignment explanation
Indices: 18749368--18749552 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
18749358 TTGAATGATG
*
18749368 TCCGGGCTAAGTCCCGAAGG-ATTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
18749432 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
18749447 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
18749509 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
18749527 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
18749553 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.62
80 34 0.37
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:18749559 original size:40 final size:40
Alignment explanation
Indices: 18749368--18749552 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
18749358 TTGAATGATG
* * * *
18749368 TCCGGGCTAAGTCCCGAAGG-ATTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
18749408 TCCGGACTAAGAT-CCGAAGGCAATTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
18749448 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
18749487 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
18749528 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
18749553 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
39 34 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:18749574 original size:79 final size:79
Alignment explanation
Indices: 18749421--18749585 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
18749411 GGACTAAGAT
* **
18749421 CCGAAGGCAATTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
18749486 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
18749500 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
18749563 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
18749579 CCGAAGG
1 CCGAAGG
18749586 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.24
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:18754333 original size:40 final size:40
Alignment explanation
Indices: 18754276--18754424 Score: 237
Period size: 40 Copynumber: 3.7 Consensus size: 40
18754266 ACTACTTGCT
18754276 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
18754316 CAAATGCCTTCGAGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
18754356 CAAATGCCTTCGGGACTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
18754396 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
18754425 CATCCGAATA
Statistics
Matches: 100, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
39 1 0.01
40 98 0.98
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:18762584 original size:40 final size:40
Alignment explanation
Indices: 18762539--18762687 Score: 228
Period size: 40 Copynumber: 3.7 Consensus size: 40
18762529 ACTACTTGCT
*
18762539 CAAATGCCTTTGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
18762579 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
18762619 CAAATGCCTTCGGGACTTAGCCCGG-AATTAGTTACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
18762659 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
18762688 CATCCGAATA
Statistics
Matches: 99, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
39 1 0.01
40 97 0.98
41 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:18772652 original size:41 final size:43
Alignment explanation
Indices: 18772581--18772681 Score: 109
Period size: 44 Copynumber: 2.4 Consensus size: 43
18772571 CTATATACAA
* * *
18772581 CACTTAGTGTCCGA-ATTGAAATAGCCTTGGTT-TTATG-TGG
1 CACTAAGTGTGCGATATTGAAATAGCCTTGGTTAATATGATGG
* ** *
18772621 CACTAAGTGTGCGATATTGAGATAGTTTTGGTTCAATGTGATGG
1 CACTAAGTGTGCGATATTGAAATAGCCTTGGTT-AATATGATGG
18772665 CACTAAGTGTGCGATAT
1 CACTAAGTGTGCGATAT
18772682 CGTTATAGCT
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
40 12 0.24
41 15 0.30
43 3 0.06
44 20 0.40
ACGTcount: A:0.25, C:0.13, G:0.27, T:0.36
Consensus pattern (43 bp):
CACTAAGTGTGCGATATTGAAATAGCCTTGGTTAATATGATGG
Found at i:18776562 original size:40 final size:40
Alignment explanation
Indices: 18776468--18776692 Score: 290
Period size: 40 Copynumber: 5.6 Consensus size: 40
18776458 TATTCGAATG
* *
18776468 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GTGACT
* * * * *
18776509 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGACT
* *
18776549 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* *
18776589 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * *
18776629 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
*
18776669 ACATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
18776693 CTTGCGCATG
Statistics
Matches: 159, Mismatches: 23, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
39 1 0.01
40 129 0.81
41 29 0.18
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
Found at i:18785186 original size:27 final size:27
Alignment explanation
Indices: 18785151--18785215 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
18785141 TTAGCTCTTA
*
18785151 TGAGCTTCCCGATTATA-TGGCTCTTTG
1 TGAGCTTCCC-ATTAAATTGGCTCTTTG
* *
18785178 TGAGGTTCCCATTAAATTGTCTCTTTG
1 TGAGCTTCCCATTAAATTGGCTCTTTG
18785205 TGAGCTTCCCA
1 TGAGCTTCCCA
18785216 ATATGGCTCA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
26 5 0.15
27 28 0.85
ACGTcount: A:0.17, C:0.23, G:0.20, T:0.40
Consensus pattern (27 bp):
TGAGCTTCCCATTAAATTGGCTCTTTG
Found at i:18786973 original size:41 final size:44
Alignment explanation
Indices: 18786928--18787014 Score: 135
Period size: 44 Copynumber: 2.0 Consensus size: 44
18786918 ACGATTAAAC
18786928 CAATTAAACC-AA-C-CAAGAAGATTAACTTTTTTTAGGGGTTG
1 CAATTAAACCAAATCACAAGAAGATTAACTTTTTTTAGGGGTTG
**
18786969 CAATTAAACCAAATCACCTGAAGATTAACTTTTTTTAGGGGTTG
1 CAATTAAACCAAATCACAAGAAGATTAACTTTTTTTAGGGGTTG
18787013 CA
1 CA
18787015 TGGAAAAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
41 10 0.24
42 2 0.05
43 1 0.02
44 28 0.68
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (44 bp):
CAATTAAACCAAATCACAAGAAGATTAACTTTTTTTAGGGGTTG
Found at i:18791206 original size:18 final size:20
Alignment explanation
Indices: 18791160--18791206 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 20
18791150 CACTGCCAAG
*
18791160 GCCA-ATTTGGGCTGTGTGG
1 GCCACATTTGGGCTGTGTGA
18791179 GCCACA--TGGGC-GTGTGA
1 GCCACATTTGGGCTGTGTGA
18791196 GCC-CATTTGGG
1 GCCACATTTGGG
18791207 TGAAATAATC
Statistics
Matches: 24, Mismatches: 1, Indels: 7
0.75 0.03 0.22
Matches are distributed among these distances:
16 2 0.08
17 8 0.33
18 9 0.38
19 4 0.17
20 1 0.04
ACGTcount: A:0.13, C:0.21, G:0.40, T:0.26
Consensus pattern (20 bp):
GCCACATTTGGGCTGTGTGA
Found at i:18795703 original size:31 final size:31
Alignment explanation
Indices: 18795665--18795743 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
18795655 TTTAACGGTT
18795665 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
18795696 ACTGGGCCGAAGCCATTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
18795727 ACTAGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
18795744 ACTGTAAATG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.27
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:18795992 original size:25 final size:25
Alignment explanation
Indices: 18795964--18796029 Score: 80
Period size: 25 Copynumber: 2.6 Consensus size: 25
18795954 CTCTTTTAAT
18795964 AACTGGGGCAAAGCCC-TTTCTGATA
1 AACTGGGGCAAAGCCCTTTTC-GATA
* *
18795989 AACTGAGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
18796014 AACTAGGGCAGAGCCC
1 AACTGGGGCAAAGCCC
18796030 ATTTAGCACT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
25 31 0.89
26 4 0.11
ACGTcount: A:0.29, C:0.26, G:0.26, T:0.20
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:18796998 original size:28 final size:28
Alignment explanation
Indices: 18796959--18797045 Score: 90
Period size: 28 Copynumber: 3.1 Consensus size: 28
18796949 GTAAATCTAC
18796959 AAACCAAGGGTATTTCAGTAAATTTTGT
1 AAACCAAGGGTATTTCAGTAAATTTTGT
* *
18796987 AAACCAATGGTATTTCTA-TAATTTTTAG-
1 AAACCAAGGGTATTTC-AGTAAATTTT-GT
* *
18797015 AAAGTCAAGGGTATTTCTGT-AATTTTGT
1 AAA-CCAAGGGTATTTCAGTAAATTTTGT
18797043 AAA
1 AAA
18797046 TTAGGGGTAT
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
27 1 0.02
28 33 0.69
29 14 0.29
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.39
Consensus pattern (28 bp):
AAACCAAGGGTATTTCAGTAAATTTTGT
Found at i:18797063 original size:27 final size:27
Alignment explanation
Indices: 18797023--18797173 Score: 180
Period size: 27 Copynumber: 5.6 Consensus size: 27
18797013 AGAAAGTCAA
** *
18797023 GGGTATTTCT-GTAATTTTGTAAATTAG
1 GGGTATTT-TGGTAATTTTACAAACTAG
*
18797050 GGGTATTTTGGTAATTTTACAAA-TTG
1 GGGTATTTTGGTAATTTTACAAACTAG
* * *
18797076 AGGGTATTTCGGTAATTTCACAAACCAG
1 -GGGTATTTTGGTAATTTTACAAACTAG
* * *
18797104 TGGTATTTCGGTAATTTTACAAACTAA
1 GGGTATTTTGGTAATTTTACAAACTAG
18797131 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
18797158 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
18797174 CTATCCTACA
Statistics
Matches: 107, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
26 3 0.03
27 103 0.96
28 1 0.01
ACGTcount: A:0.28, C:0.08, G:0.22, T:0.42
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:18797109 original size:54 final size:54
Alignment explanation
Indices: 18796939--18797206 Score: 198
Period size: 54 Copynumber: 4.9 Consensus size: 54
18796929 CATCCTACAA
* * * * * *** *
18796939 GGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGT-AATTTCACAAACCAG
* * * * * *** **
18796994 TGGTATTTCT-ATAATTTTTAGAAAGTCAAGGGTATTTCTGTAATTTTGTAAATTAG
1 GGGTATTT-TGGTAA-TTTTACAAACT-AAGGGTATTTCGGTAATTTCACAAACCAG
* *
18797050 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTCACAAACCAG
* * * * *
18797104 TGGTATTTCGGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTCACAAACCAG
* ** * *
18797158 GGGTATTTTGGTAATTCTATCCTAC-AGGGGTATTTCAGTAATTTCACAA
1 GGGTATTTTGGTAATTTTA-CAAACTAAGGGTATTTCGGTAATTTCACAA
18797207 TCGGGGGTAA
Statistics
Matches: 169, Mismatches: 39, Indels: 11
0.77 0.18 0.05
Matches are distributed among these distances:
54 105 0.62
55 22 0.13
56 29 0.17
57 13 0.08
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTCACAAACCAG
Found at i:18797135 original size:81 final size:81
Alignment explanation
Indices: 18797024--18797173 Score: 221
Period size: 81 Copynumber: 1.9 Consensus size: 81
18797014 GAAAGTCAAG
* ** * * *
18797024 GGTATTTCTGTAATTTTGTAAATTAGGGGTATTTTGGTAATTTTACAAA-TTGAGGGTATTTCGG
1 GGTATTTCGGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTCGG
18797088 TAATTTCACAAACCAGT
65 TAATTTCACAAACCAGT
*
18797105 GGTATTTCGGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGT
1 GGTATTTCGGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTCGGT
18797170 AATT
66 AATT
18797174 CTATCCTACA
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
81 59 0.97
82 2 0.03
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.42
Consensus pattern (81 bp):
GGTATTTCGGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTCGGT
AATTTCACAAACCAGT
Found at i:18797190 original size:81 final size:81
Alignment explanation
Indices: 18797023--18797206 Score: 212
Period size: 81 Copynumber: 2.3 Consensus size: 81
18797013 AGAAAGTCAA
* ** * * *
18797023 GGGTATTTCTGTAATTTTGTAAATTAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGG
1 GGGTATTTCAGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTACAAATAGAGGGTATTTCGG
18797088 TAATTTCACAAACCAG
66 TAATTTCACAAACCAG
* * *
18797104 TGGTATTTCGGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTG
1 GGGTATTTCAGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTACAAA-TAGAGGGTATTTCG
**
18797168 GTAA-TTCTATCCTA-CAG
65 GTAATTTC-A-CAAACCAG
*
18797185 GGGTATTTCAGTAATTTCACAA
1 GGGTATTTCAGTAATTTTACAA
18797207 TCGGGGGTAA
Statistics
Matches: 87, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
80 3 0.03
81 80 0.92
82 4 0.05
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (81 bp):
GGGTATTTCAGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTACAAATAGAGGGTATTTCGG
TAATTTCACAAACCAG
Found at i:18797245 original size:27 final size:27
Alignment explanation
Indices: 18797205--18797645 Score: 578
Period size: 27 Copynumber: 16.3 Consensus size: 27
18797195 GTAATTTCAC
*
18797205 AATCGGGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * *
18797232 AA-CTGATGGTAAAATGATAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTTTGTA
*
18797259 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * *
18797286 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
*
18797313 AATCAAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
*
18797340 AATCGAGGTTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * *
18797367 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
*
18797394 AATCAAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
*
18797421 AATCGAGGTTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * *
18797448 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
*
18797475 AATCAAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
*
18797502 AATCGAGGTTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * *
18797529 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
*
18797556 AATCGAGGGTAAAACGGTAATTTTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* ** *
18797583 AATCGAGGGTGAAACGGTAATCCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * **
18797610 AATCGAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAACGGTAATTTTGTA
18797637 AATCGAGGG
1 AATCGAGGG
18797646 CATTTCAGTA
Statistics
Matches: 363, Mismatches: 49, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
26 1 0.00
27 361 0.99
28 1 0.00
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTTTGTA
Found at i:18797659 original size:81 final size:81
Alignment explanation
Indices: 18797239--18797645 Score: 697
Period size: 81 Copynumber: 5.0 Consensus size: 81
18797229 GTAAACTGAT
* * * *
18797239 GGTAAAATGATAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGT
1 GGTAAAACGGTAATTTTGTAAATCGAGGTTAAAACGGTAATTTTGTAAATCGAGGGTAAAATGGT
18797304 AATTCTATAAATCAAG
66 AATTCTATAAATCAAG
18797320 GGTAAAACGGTAATTTTGTAAATCGAGGTTAAAACGGTAATTTTGTAAATCGAGGGTAAAATGGT
1 GGTAAAACGGTAATTTTGTAAATCGAGGTTAAAACGGTAATTTTGTAAATCGAGGGTAAAATGGT
18797385 AATTCTATAAATCAAG
66 AATTCTATAAATCAAG
18797401 GGTAAAACGGTAATTTTGTAAATCGAGGTTAAAACGGTAATTTTGTAAATCGAGGGTAAAATGGT
1 GGTAAAACGGTAATTTTGTAAATCGAGGTTAAAACGGTAATTTTGTAAATCGAGGGTAAAATGGT
18797466 AATTCTATAAATCAAG
66 AATTCTATAAATCAAG
18797482 GGTAAAACGGTAATTTTGTAAATCGAGGTTAAAACGGTAATTTTGTAAATCGAGGGTAAAATGGT
1 GGTAAAACGGTAATTTTGTAAATCGAGGTTAAAACGGTAATTTTGTAAATCGAGGGTAAAATGGT
*
18797547 AATTCTATAAATCGAG
66 AATTCTATAAATCAAG
* * * ** *
18797563 GGTAAAACGGTAATTTTATAAATCGAGGGTGAAACGGTAATCCTATAAATCGAGGGTAAAATGGT
1 GGTAAAACGGTAATTTTGTAAATCGAGGTTAAAACGGTAATTTTGTAAATCGAGGGTAAAATGGT
* *
18797628 AATTCTACAAATCGAG
66 AATTCTATAAATCAAG
18797644 GG
1 GG
18797646 CATTTCAGTA
Statistics
Matches: 314, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
81 314 1.00
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.29
Consensus pattern (81 bp):
GGTAAAACGGTAATTTTGTAAATCGAGGTTAAAACGGTAATTTTGTAAATCGAGGGTAAAATGGT
AATTCTATAAATCAAG
Found at i:18799573 original size:6 final size:6
Alignment explanation
Indices: 18799558--18799594 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
18799548 CCTAAGGATG
18799558 AAAT-A AAATAA AAATAA AAATAA AAAT-A AAATAA AAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAA
18799595 GGTAGTTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
5 9 0.30
6 21 0.70
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:18799574 original size:11 final size:11
Alignment explanation
Indices: 18799558--18799594 Score: 65
Period size: 11 Copynumber: 3.3 Consensus size: 11
18799548 CCTAAGGATG
18799558 AAATAAAATAA
1 AAATAAAATAA
18799569 AAATAAAAATAA
1 AAAT-AAAATAA
18799581 AAATAAAATAA
1 AAATAAAATAA
18799592 AAA
1 AAA
18799595 GGTAGTTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 14 0.56
12 11 0.44
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (11 bp):
AAATAAAATAA
Found at i:18799580 original size:17 final size:17
Alignment explanation
Indices: 18799558--18799594 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
18799548 CCTAAGGATG
18799558 AAAT-AAAATAAAAATAA
1 AAATAAAAAT-AAAATAA
18799575 AAATAAAAATAAAATAA
1 AAATAAAAATAAAATAA
18799592 AAA
1 AAA
18799595 GGTAGTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (17 bp):
AAATAAAAATAAAATAA
Found at i:18810414 original size:96 final size:96
Alignment explanation
Indices: 18810250--18810637 Score: 776
Period size: 96 Copynumber: 4.0 Consensus size: 96
18810240 TCCACTGGAA
18810250 CTTCCGAGATTGAGGGAGAAGATATTTGTAGCCTCGATCTTCTCTACTAAATTTCAAGGACTTAG
1 CTTCCGAGATTGAGGGAGAAGATATTTGTAGCCTCGATCTTCTCTACTAAATTTCAAGGACTTAG
18810315 AATTCAAGTAGAAGGGATATAAAATTTATAT
66 AATTCAAGTAGAAGGGATATAAAATTTATAT
18810346 CTTCCGAGATTGAGGGAGAAGATATTTGTAGCCTCGATCTTCTCTACTAAATTTCAAGGACTTAG
1 CTTCCGAGATTGAGGGAGAAGATATTTGTAGCCTCGATCTTCTCTACTAAATTTCAAGGACTTAG
18810411 AATTCAAGTAGAAGGGATATAAAATTTATAT
66 AATTCAAGTAGAAGGGATATAAAATTTATAT
18810442 CTTCCGAGATTGAGGGAGAAGATATTTGTAGCCTCGATCTTCTCTACTAAATTTCAAGGACTTAG
1 CTTCCGAGATTGAGGGAGAAGATATTTGTAGCCTCGATCTTCTCTACTAAATTTCAAGGACTTAG
18810507 AATTCAAGTAGAAGGGATATAAAATTTATAT
66 AATTCAAGTAGAAGGGATATAAAATTTATAT
18810538 CTTCCGAGATTGAGGGAGAAGATATTTGTAGCCTCGATCTTCTCTACTAAATTTCAAGGACTTAG
1 CTTCCGAGATTGAGGGAGAAGATATTTGTAGCCTCGATCTTCTCTACTAAATTTCAAGGACTTAG
18810603 AATTCAAGTAGAAGGGATATAAAATTTATAT
66 AATTCAAGTAGAAGGGATATAAAATTTATAT
18810634 CTTC
1 CTTC
18810638 GATTAACTCC
Statistics
Matches: 292, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
96 292 1.00
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.32
Consensus pattern (96 bp):
CTTCCGAGATTGAGGGAGAAGATATTTGTAGCCTCGATCTTCTCTACTAAATTTCAAGGACTTAG
AATTCAAGTAGAAGGGATATAAAATTTATAT
Found at i:18810907 original size:14 final size:14
Alignment explanation
Indices: 18810888--18810923 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
18810878 GGTTGATTTT
18810888 TTTGAAAAGCAGAA
1 TTTGAAAAGCAGAA
*
18810902 TTTGAAAAGCATAA
1 TTTGAAAAGCAGAA
*
18810916 ATTGAAAA
1 TTTGAAAA
18810924 AACGAAAATT
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:0.53, C:0.06, G:0.17, T:0.25
Consensus pattern (14 bp):
TTTGAAAAGCAGAA
Found at i:18811224 original size:74 final size:74
Alignment explanation
Indices: 18811103--18811554 Score: 374
Period size: 74 Copynumber: 6.0 Consensus size: 74
18811093 AAAAAAATCT
* *
18811103 ATTGAAAATACCTCGGCGTA--TGACCTGAGGTTCAATTCACCTCTAGCAATATGAATTGATTTT
1 ATTGAAAATACCTC-GC-TATGTGACCCGAGGCTCAATTCACCTCTAGCAATATGAATTGATTTT
18811166 TGAAAACATAA
64 TGAAAACATAA
*
18811177 ATTGAAAATACCTCGCTATGTGACCCGATGCTCAATTCACCTCTAGCAATATGAATTGATTTTTG
1 ATTGAAAATACCTCGCTATGTGACCCGAGGCTCAATTCACCTCTAGCAATATGAATTGATTTTTG
18811242 AAAACATAA
66 AAAACATAA
* * * * *
18811251 ATTGAAAATACCTCGTTATGCGACCCGAGGCTCAATTCACATTTAGCAATATAAATTGATTTTTG
1 ATTGAAAATACCTCGCTATGTGACCCGAGGCTCAATTCACCTCTAGCAATATGAATTGATTTTTG
18811316 AAAACATAA
66 AAAACATAA
* * * * * * *
18811325 ATTGAAAA-ACAGAAATCGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAGTAT
1 ATTGAAAATAC----CTCG---CTA--T--G--TGACCCGAGGCTCAATTCACCTCTAGCAATAT
*
18811389 GAGTTGATTTTTGACAAACAGT-A
53 GAATTGATTTTTGA-AAACA-TAA
* * *
18811412 ATTGAAAATACCTCAGC---GTGCCCCGAGGCTCAACTCACCTCTCA-CAATATGAGTTGATTTT
1 ATTGAAAATACCTC-GCTATGTGACCCGAGGCTCAATTCACCTCT-AGCAATATGAATTGA--TT
18811473 TTTGACAAACA-ATA
62 TTTGA-AAACATA-A
* * *
18811487 ATTGAAAATACCTCAGC---GT-ACCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTT
1 ATTGAAAATACCTC-GCTATGTGA-CCCGAGGCTCAATTCACCTCTAGCAATATGAATTGATTTT
*
18811547 AGAAAACA
64 TGAAAACA
18811555 GACATAAAAA
Statistics
Matches: 322, Mismatches: 30, Indels: 55
0.79 0.07 0.14
Matches are distributed among these distances:
71 5 0.02
72 7 0.02
73 38 0.12
74 141 0.44
75 68 0.21
77 3 0.01
80 2 0.01
82 1 0.00
84 3 0.01
85 1 0.00
86 36 0.11
87 14 0.04
88 3 0.01
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.28
Consensus pattern (74 bp):
ATTGAAAATACCTCGCTATGTGACCCGAGGCTCAATTCACCTCTAGCAATATGAATTGATTTTTG
AAAACATAA
Found at i:18811505 original size:75 final size:75
Alignment explanation
Indices: 18811342--18811717 Score: 343
Period size: 75 Copynumber: 4.9 Consensus size: 75
18811332 AACAGAAATC
* * * *
18811342 GAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAGTATGAGTTGA--TTTTTGACA
1 GAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACA
*
18811405 AACAGTAATT
66 AACAATAATT
*
18811415 GAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTGACA
1 GAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACA
18811480 AACAATAATT
66 AACAATAATT
* ****
18811490 GAAAATACCTCAGCGTACCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTAGAAAACA
1 GAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT----TTTT
*
18811555 GACATAAAAATAGAAATT
62 GACA-AACAAT---AATT
* ** * * ** * * *
18811573 GAAAGTGACTCAACACATGAGCCAAGGCTCAACTCACCTTTCTCAATATGAGTTGATTTTTTTGA
1 GAAAATACCTCA--GCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA
*
18811638 -AAGTAGAAT--TT
64 CAA--ACAATAATT
* * *
18811649 AAAAAATACCTCGGCGTGCCTCGAGGCTCAACTCACCTCTCGCAATTATGAGTTGA-TTTTTTGA
1 -GAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAA-TATGAGTTGATTTTTTTGA
18811713 -AAACA
64 CAAACA
18811718 GAAATGAAAC
Statistics
Matches: 244, Mismatches: 43, Indels: 32
0.76 0.13 0.10
Matches are distributed among these distances:
73 51 0.21
75 107 0.44
76 12 0.05
77 7 0.03
79 5 0.02
80 6 0.02
81 6 0.02
83 13 0.05
85 37 0.15
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.27
Consensus pattern (75 bp):
GAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACA
AACAATAATT
Found at i:18825850 original size:48 final size:48
Alignment explanation
Indices: 18825742--18825960 Score: 262
Period size: 48 Copynumber: 4.6 Consensus size: 48
18825732 TGAGATCCCA
* * * * *
18825742 TGTAAGACCATGTCTAGGACATGGC-TTGGCATCGAGATGAGATCTCG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGTGATCTAG
* * *
18825789 TATAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTG-TGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGTGAT-CTAG
* * ** * *
18825837 TGTAAGACCATGTCTGGGACATGGCATCGGCCTTGACGTGTGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGTGATCTAG
* *
18825885 TGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGTGATTTTG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGTGATCTAG
*
18825933 TGTAAGACCATGTCTAGGACATGGCATC
1 TGTAAGACCATGTCTGGGACATGGCATC
18825961 ATTATGAGAC
Statistics
Matches: 146, Mismatches: 23, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
47 24 0.16
48 122 0.84
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (48 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGTGATCTAG
Found at i:18851540 original size:23 final size:22
Alignment explanation
Indices: 18851510--18851605 Score: 84
Period size: 23 Copynumber: 4.2 Consensus size: 22
18851500 TAACATTCCA
*
18851510 TAGAATGAATCACATCAAAGTGC
1 TAGAATGAATCGCA-CAAAGTGC
* *
18851533 TAGAATGAGTCGCACAGATGTGC
1 TAGAATGAATCGCACA-AAGTGC
* * *
18851556 CAGAATGGATCCCACTAAAGTGC
1 TAGAATGAATCGCAC-AAAGTGC
* *
18851579 CAAAATGAATCGCACCAAAGTGC
1 TAGAATGAATCGCA-CAAAGTGC
18851602 TAGA
1 TAGA
18851606 TTGCTCCCAC
Statistics
Matches: 57, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
22 2 0.04
23 53 0.93
24 2 0.04
ACGTcount: A:0.39, C:0.21, G:0.22, T:0.19
Consensus pattern (22 bp):
TAGAATGAATCGCACAAAGTGC
Found at i:18860883 original size:23 final size:23
Alignment explanation
Indices: 18860853--18860909 Score: 96
Period size: 23 Copynumber: 2.5 Consensus size: 23
18860843 TTATATATGC
18860853 TTTTTTATTCTCAAAAAGAATGG
1 TTTTTTATTCTCAAAAAGAATGG
*
18860876 TTTTTTATTCTCCAAAAGAATGG
1 TTTTTTATTCTCAAAAAGAATGG
*
18860899 TTTTTTTTTCT
1 TTTTTTATTCT
18860910 TTTTTTATTG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.26, C:0.11, G:0.11, T:0.53
Consensus pattern (23 bp):
TTTTTTATTCTCAAAAAGAATGG
Found at i:18862968 original size:14 final size:15
Alignment explanation
Indices: 18862945--18862977 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
18862935 TTCTGTATAT
18862945 AAAAAGAATTTAAA-
1 AAAAAGAATTTAAAC
*
18862959 AAAAATAATTTAAAC
1 AAAAAGAATTTAAAC
18862974 AAAA
1 AAAA
18862978 CTAAAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.73, C:0.03, G:0.03, T:0.21
Consensus pattern (15 bp):
AAAAAGAATTTAAAC
Found at i:18867798 original size:46 final size:46
Alignment explanation
Indices: 18867730--18867933 Score: 218
Period size: 46 Copynumber: 4.4 Consensus size: 46
18867720 GATCCAATGC
18867730 CCCAGACATGGTCTTACACTGGCTATCATCTCATA-GCCGACGCATGT
1 CCCAGACAT-GTCTTACACTGGCTATCATCTCA-AGGCCGACGCATGT
*
18867777 CCCAGACATGTCTTACACTGGCT-TACATCTCAAGGTCGACGCATGT
1 CCCAGACATGTCTTACACTGGCTAT-CATCTCAAGGCCGACGCATGT
* * * *
18867823 CCCAGACATGTCTTACACTAGC-ACTCGTCTCAATGCCGATGCCATGT
1 CCCAGACATGTCTTACACTGGCTA-TCATCTCAAGGCCGACG-CATGT
* * ** *
18867870 CCCAGACATGGTCTTACACTGGCTTTCATAAT-GTGGCCGATGCATGT
1 CCCAGACAT-GTCTTACACTGGCTATCAT-CTCAAGGCCGACGCATGT
*
18867917 CCCAGCCATGTCTTACA
1 CCCAGACATGTCTTACA
18867934 ATAGCTCACA
Statistics
Matches: 135, Mismatches: 14, Indels: 17
0.81 0.08 0.10
Matches are distributed among these distances:
45 2 0.01
46 73 0.54
47 37 0.27
48 22 0.16
49 1 0.01
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.26
Consensus pattern (46 bp):
CCCAGACATGTCTTACACTGGCTATCATCTCAAGGCCGACGCATGT
Found at i:18867920 original size:94 final size:92
Alignment explanation
Indices: 18867730--18867939 Score: 246
Period size: 94 Copynumber: 2.2 Consensus size: 92
18867720 GATCCAATGC
*
18867730 CCCAGACATGGTCTTACACTGGCTATCATCTCATAGCCGACGCATGTCCCAGACATGTCTTACAC
1 CCCAGACAT-GTCTTACACTAGCTATCATCTCATAGCCGACGCATGTCCCAGACATGTCTTACAC
* *
18867795 TGGCTTACATCTCAAGGTCGACGCATGT
65 TGGCTTACATATCAAGGCCGACGCATGT
* *
18867823 CCCAGACATGTCTTACACTAGC-ACTCGTCTCA-ATGCCGATGCCATGTCCCAGACATGGTCTTA
1 CCCAGACATGTCTTACACTAGCTA-TCATCTCATA-GCCGACG-CATGTCCCAGACAT-GTCTTA
* ** *
18867886 CACTGGCTTTCATAAT-GTGGCCGATGCATGT
62 CACTGGCTTACAT-ATCAAGGCCGACGCATGT
* *
18867917 CCCAGCCATGTCTTACAATAGCT
1 CCCAGACATGTCTTACACTAGCT
18867940 CACATAAGTG
Statistics
Matches: 100, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
91 2 0.02
92 25 0.25
93 23 0.23
94 49 0.49
95 1 0.01
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (92 bp):
CCCAGACATGTCTTACACTAGCTATCATCTCATAGCCGACGCATGTCCCAGACATGTCTTACACT
GGCTTACATATCAAGGCCGACGCATGT
Found at i:18867946 original size:46 final size:48
Alignment explanation
Indices: 18867857--18867946 Score: 121
Period size: 46 Copynumber: 1.9 Consensus size: 48
18867847 TCGTCTCAAT
* * **
18867857 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTTCATAATGTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACAATAGCTCACATAATGTG
*
18867905 GCCGATG-CATGTCCCAGCCAT-GTCTTACAATAGCTCACATAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACAATAGCTCACATAA
18867947 GTGACCTGAT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
46 17 0.46
47 13 0.35
48 7 0.19
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACAATAGCTCACATAATGTG
Found at i:18870284 original size:80 final size:80
Alignment explanation
Indices: 18870180--18870483 Score: 361
Period size: 80 Copynumber: 3.8 Consensus size: 80
18870170 GCTCCTCGTT
*
18870180 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
18870245 ATTTAGTAACTCGCA
66 ATTTAGTAACTCGCA
* *
18870260 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCG
18870324 GATTTAGTAACTCGCA
65 GATTTAGTAACTCGCA
* * *
18870340 CAAATGCCTTCGGG-CTTAGCCC-ATAATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAAT-TCGCACAAATGCCTTCGGGACTTAACCC
** * *
18870401 ATAATTAGTATCTCGCA
64 GGATTTAGTAACTCGCA
* * * * * * *
18870418 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACCAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGT-AATTCGCACAAATGCCTTCGGGACTTAACCC
18870481 GGA
64 GGA
18870484 CATCATTCAA
Statistics
Matches: 192, Mismatches: 22, Indels: 20
0.82 0.09 0.09
Matches are distributed among these distances:
77 3 0.02
78 32 0.17
79 49 0.26
80 105 0.55
81 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
ATTTAGTAACTCGCA
Found at i:18870381 original size:39 final size:40
Alignment explanation
Indices: 18870180--18870430 Score: 337
Period size: 40 Copynumber: 6.3 Consensus size: 40
18870170 GCTCCTCGTT
* * * *
18870180 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGAAT-TAGTAACTCGCA
*
18870220 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGAATTAGTAACTCGCA
*
18870260 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGAATTAGTAACTCGCA
*
18870300 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGAATTAGTAACTCGCA
* ** *
18870340 CAAATGCCTTCGGG-CTTAGCCCATAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGAATTAGTAACTCGCA
* ** *
18870379 CAAATGCCTTCGGG-CTTAGCCCATAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGAATTAGTAACTCGCA
18870418 CAAATGCCTTCGG
1 CAAATGCCTTCGG
18870431 ATCTTAGTCC
Statistics
Matches: 202, Mismatches: 8, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
39 72 0.36
40 128 0.63
41 2 0.01
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGAATTAGTAACTCGCA
Found at i:18870483 original size:40 final size:40
Alignment explanation
Indices: 18870180--18870483 Score: 301
Period size: 40 Copynumber: 7.7 Consensus size: 40
18870170 GCTCCTCGTT
* * *
18870180 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTACTTCGCA
* *
18870220 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGT-ACTTCGCA
* *
18870260 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGT-ACTTCGCA
* *
18870300 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGT-ACTTCGCA
18870340 CAAATGCCTTCGGG-CTTAGCCC--ATAATTAGTA-TCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAT-A-TAGTACT-TCGCA
18870379 CAAATGCCTTCGGG-CTTAGCCC--ATAATTAGTA-TCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAT-A-TAGTACT-TCGCA
* * *
18870418 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGT-ACTTCGCA
*
18870459 CCAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
18870484 CATCATTCAA
Statistics
Matches: 240, Mismatches: 12, Indels: 24
0.87 0.04 0.09
Matches are distributed among these distances:
37 2 0.01
38 3 0.01
39 66 0.28
40 153 0.64
41 13 0.05
42 3 0.01
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTACTTCGCA
Found at i:18885177 original size:44 final size:44
Alignment explanation
Indices: 18885114--18885200 Score: 147
Period size: 44 Copynumber: 2.0 Consensus size: 44
18885104 CTTCCAATTA
* * *
18885114 AGTATGGCTGAAATTTTGCTCGGGTCAACTTGAATACCTGATGC
1 AGTATGGCTGAAATTTTGCTCGGATCAACTCGAATACCCGATGC
18885158 AGTATGGCTGAAATTTTGCTCGGATCAACTCGAATACCCGATG
1 AGTATGGCTGAAATTTTGCTCGGATCAACTCGAATACCCGATG
18885201 TAGATACCAC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (44 bp):
AGTATGGCTGAAATTTTGCTCGGATCAACTCGAATACCCGATGC
Found at i:18897523 original size:47 final size:47
Alignment explanation
Indices: 18897469--18897654 Score: 338
Period size: 47 Copynumber: 4.0 Consensus size: 47
18897459 TATTTGAATA
18897469 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * *
18897516 AATGTGAAAGTGTATTTATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
18897563 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
18897610 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC-ATGTGAT
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
18897655 AAGGCCTAAT
Statistics
Matches: 133, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
46 7 0.05
47 126 0.95
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.30
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:18897658 original size:68 final size:68
Alignment explanation
Indices: 18897580--18898470 Score: 1665
Period size: 68 Copynumber: 13.0 Consensus size: 68
18897570 AAGTGTATAT
18897580 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
1 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
18897645 GCC
66 GCC
18897648 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
1 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
18897713 GCC
66 GCC
18897716 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
1 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
18897781 GCC
66 GCC
18897784 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
1 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
18897849 GCC
66 GCC
18897852 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
1 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
18897917 GCC
66 GCC
18897920 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
1 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
18897985 GCC
66 GCC
18897988 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
1 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
18898053 GCC
66 GCC
18898056 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
1 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
**
18898121 GAT
66 GCC
*
18898124 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATTTATGTGATAAGGCCGAATG
1 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC---T-
*
18898189 GCCATGGCC
62 --AATGGCC
18898198 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
1 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
18898263 GCC
66 GCC
18898266 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
1 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
18898331 GCC
66 GCC
18898334 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
1 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
18898399 GCC
66 GCC
* * *
18898402 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCCGAGTG
1 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
18898467 GCC
66 GCC
18898470 A
1 A
18898471 ACATGATGGA
Statistics
Matches: 806, Mismatches: 11, Indels: 12
0.97 0.01 0.01
Matches are distributed among these distances:
68 741 0.92
71 2 0.00
74 63 0.08
ACGTcount: A:0.31, C:0.12, G:0.30, T:0.28
Consensus pattern (68 bp):
ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
GCC
Found at i:18897767 original size:115 final size:115
Alignment explanation
Indices: 18897486--18897790 Score: 382
Period size: 115 Copynumber: 2.7 Consensus size: 115
18897476 AAGTGTATAT
* *
18897486 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATTTATGTGATAAGGCCGAATG
1 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
18897551 GCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
66 GCC-ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* *
18897602 ATGTGAT---G---AATGTG--AAAGTGTAT-ATATGTGATAAG-GCCTA-ATGGCCATGTGATA
1 ATGTGATAAGGCCTAATG-GCCGATGTG-ATGA-ATGTGA-AAGTG--TATAT----ATGTGATA
18897656 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC-
56 AGGCCTAATGGCC-ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
18897716 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
1 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
18897781 GCCATGTGAT
66 GCCATGTGAT
18897791 AAGGCCTAAT
Statistics
Matches: 161, Mismatches: 7, Indels: 44
0.76 0.03 0.21
Matches are distributed among these distances:
109 5 0.03
110 13 0.08
111 5 0.03
112 2 0.01
113 1 0.01
114 14 0.09
115 87 0.54
116 7 0.04
117 1 0.01
118 2 0.01
119 6 0.04
120 13 0.08
121 5 0.03
ACGTcount: A:0.31, C:0.10, G:0.30, T:0.29
Consensus pattern (115 bp):
ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
GCCATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Done.