Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 108 of 213
Found at i:30551826 original size:86 final size:86
Alignment explanation
Indices: 30551518--30551829 Score: 340
Period size: 86 Copynumber: 3.6 Consensus size: 86
30551508 ACCATACTTT
** * * * * *
30551518 TAGCGGCGTTTGTGATAAAAGCACCGCTAAAGATCATGTTCTTTAGCGGCGTTTATGGGTAAAGC
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCATTTGTGGGTAAAGC
*
30551583 GCTGCT-AAAGATCATGTTCTT
66 GCTGCTAAAAG-TCATGTTCTA
* * * * * * *
30551604 TAGCGGCGTTCGTTGGTAAAA-TGCCTCTAAAGGTCATGTTCTTTAGCAGCGTTTGTGGGTAAAG
1 TAGCGGCGTTTG-TGGGAAAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCATTTGTGGGTAAAG
* * *
30551668 CACCGCTAAAACTCATGTTCTA
65 CGCTGCTAAAAGTCATGTTCTA
* * * * * *
30551690 TAGCAGCGTTTGTAGGAAAACCGCCGCTAAAAGTCATGATCTATAGCGGCATTTGTGGGAAAAGC
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCATTTGTGGGTAAAGC
* *
30551755 GCTGTTAAAAGTCATGATCTA
66 GCTGCTAAAAGTCATGTTCTA
* *
30551776 TAGCGGCGTTTGTGGGAGAAGCGCCGCTAAAGGTCATGACCTTTAGCGGCATTT
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCATTT
30551830 TTGTACTTTT
Statistics
Matches: 187, Mismatches: 36, Indels: 6
0.82 0.16 0.03
Matches are distributed among these distances:
85 6 0.03
86 171 0.91
87 10 0.05
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.29
Consensus pattern (86 bp):
TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCATTTGTGGGTAAAGC
GCTGCTAAAAGTCATGTTCTA
Found at i:30555285 original size:29 final size:29
Alignment explanation
Indices: 30555251--30555476 Score: 179
Period size: 29 Copynumber: 7.7 Consensus size: 29
30555241 TCACAATCTT
*
30555251 TTTTCATAGTTGATGGTCGTCACCATCCC
1 TTTTCATAATTGATGGTCGTCACCATCCC
* * * *** * *
30555280 CTTTCATAATCGATAG-CCAAAGCTAACCC
1 TTTTCATAATTGATGGTCGTCA-CCATCCC
*
30555309 TTTTCATAATTCGAAGGTCGTCACCATCCC
1 TTTTCATAATT-GATGGTCGTCACCATCCC
* *
30555339 TTTTCATAGTTGATGGTCCTCACCATCCC
1 TTTTCATAATTGATGGTCGTCACCATCCC
* * * * * *
30555368 -TTTCATAATCGATAGCCG-AAGCTATCCT
1 TTTTCATAATTGATGGTCGTCA-CCATCCC
30555396 TTTTCATAATTCGATGGTCGTCACCATCCC
1 TTTTCATAATT-GATGGTCGTCACCATCCC
* * *
30555426 TTTTCATAGTTGATAGTCATCACCATCCC
1 TTTTCATAATTGATGGTCGTCACCATCCC
* *
30555455 ATTACATAATTGAGTGGTCGTC
1 TTTTCATAATTGA-TGGTCGTC
30555477 GATATGCCGT
Statistics
Matches: 146, Mismatches: 43, Indels: 15
0.72 0.21 0.07
Matches are distributed among these distances:
27 1 0.01
28 20 0.14
29 77 0.53
30 45 0.31
31 3 0.02
ACGTcount: A:0.24, C:0.27, G:0.14, T:0.35
Consensus pattern (29 bp):
TTTTCATAATTGATGGTCGTCACCATCCC
Found at i:30555372 original size:58 final size:59
Alignment explanation
Indices: 30555251--30555473 Score: 181
Period size: 59 Copynumber: 3.8 Consensus size: 59
30555241 TCACAATCTT
* * * * * ** * *
30555251 TTTTCATAGTT-GATGGTCGTCACCATCCCCTTTCATAATCGATAG-CCAAAGCTAACCC
1 TTTTCATAATTCGATAGTCGTCACCATCCCTTTTCATAATTGATGGTCCTCA-CCATCCC
*
30555309 TTTTCATAATTCGA-AGGTCGTCACCATCCCTTTTCATAGTTGATGGTCCTCACCATCCC
1 TTTTCATAATTCGATA-GTCGTCACCATCCCTTTTCATAATTGATGGTCCTCACCATCCC
* * * * *
30555368 -TTTCATAA-TCGATAGCCG-AAGCTATCCTTTTTCATAATTCGATGGTCGTCACCATCCC
1 TTTTCATAATTCGATAGTCGTCA-CCATCCCTTTTCATAATT-GATGGTCCTCACCATCCC
* * * *
30555426 TTTTCATAGTT-GATAGTCATCACCATCCCATTACATAATTGAGTGGTC
1 TTTTCATAATTCGATAGTCGTCACCATCCCTTTTCATAATTGA-TGGTC
30555474 GTCGATATGC
Statistics
Matches: 131, Mismatches: 24, Indels: 19
0.75 0.14 0.11
Matches are distributed among these distances:
56 1 0.01
57 22 0.17
58 38 0.29
59 65 0.50
60 5 0.04
ACGTcount: A:0.24, C:0.27, G:0.14, T:0.35
Consensus pattern (59 bp):
TTTTCATAATTCGATAGTCGTCACCATCCCTTTTCATAATTGATGGTCCTCACCATCCC
Found at i:30555400 original size:87 final size:87
Alignment explanation
Indices: 30555251--30555464 Score: 338
Period size: 87 Copynumber: 2.4 Consensus size: 87
30555241 TCACAATCTT
*
30555251 TTTTCATAGTTGATGGTCGTCACCATCCCCTTTCATAATCGATAGCCAAAGCTAACCCTTTTCAT
1 TTTTCATAGTTGATGGTCATCACCAT-CCCTTTCATAATCGATAGCCAAAGCTAACCCTTTTCAT
30555316 AATTCGAAGGTCGTCACCATCCC
65 AATTCGAAGGTCGTCACCATCCC
* * * *
30555339 TTTTCATAGTTGATGGTCCTCACCATCCCTTTCATAATCGATAGCCGAAGCTATCCTTTTTCATA
1 TTTTCATAGTTGATGGTCATCACCATCCCTTTCATAATCGATAGCCAAAGCTAACCCTTTTCATA
*
30555404 ATTCGATGGTCGTCACCATCCC
66 ATTCGAAGGTCGTCACCATCCC
* *
30555426 TTTTCATAGTTGATAGTCATCACCATCCCATTACATAAT
1 TTTTCATAGTTGATGGTCATCACCATCCC-TTTCATAAT
30555465 TGAGTGGTCG
Statistics
Matches: 117, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
87 84 0.72
88 33 0.28
ACGTcount: A:0.25, C:0.28, G:0.13, T:0.35
Consensus pattern (87 bp):
TTTTCATAGTTGATGGTCATCACCATCCCTTTCATAATCGATAGCCAAAGCTAACCCTTTTCATA
ATTCGAAGGTCGTCACCATCCC
Found at i:30559831 original size:20 final size:20
Alignment explanation
Indices: 30559806--30559852 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
30559796 TAGCTTATAC
*
30559806 TAAGTAAATGGAATGGAAAG
1 TAAGTAAATGAAATGGAAAG
30559826 TAAGTAAATGAAATGGAAAG
1 TAAGTAAATGAAATGGAAAG
30559846 TAAGTAA
1 TAAGTAA
30559853 GTCGAGTGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.26, T:0.21
Consensus pattern (20 bp):
TAAGTAAATGAAATGGAAAG
Found at i:30560262 original size:42 final size:42
Alignment explanation
Indices: 30560203--30560297 Score: 190
Period size: 42 Copynumber: 2.3 Consensus size: 42
30560193 AGGGTTACAA
30560203 TGGCATGTATAGGTGGACTTATATTTAATGATCTAGTTGTTT
1 TGGCATGTATAGGTGGACTTATATTTAATGATCTAGTTGTTT
30560245 TGGCATGTATAGGTGGACTTATATTTAATGATCTAGTTGTTT
1 TGGCATGTATAGGTGGACTTATATTTAATGATCTAGTTGTTT
30560287 TGGCATGTATA
1 TGGCATGTATA
30560298 AGTGTTATTA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.24, C:0.07, G:0.24, T:0.44
Consensus pattern (42 bp):
TGGCATGTATAGGTGGACTTATATTTAATGATCTAGTTGTTT
Found at i:30560875 original size:42 final size:42
Alignment explanation
Indices: 30560768--30560875 Score: 144
Period size: 42 Copynumber: 2.6 Consensus size: 42
30560758 AAGTCATGCA
* * * *
30560768 GTTACATGGCCTGGCACATGGGCGTGTAAGGCCATTCTGAGT
1 GTTACAAGGCCTAGCACACGGGCGTGTAAGGCCATTCCGAGT
* * *
30560810 GTTACACGACCTAGCACAGGGGCGTGTAAGGCCATTCCGAGT
1 GTTACAAGGCCTAGCACACGGGCGTGTAAGGCCATTCCGAGT
*
30560852 GTTACAAGGCCTAGCATACGGGCG
1 GTTACAAGGCCTAGCACACGGGCG
30560876 GCGGCTTTAT
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 57 1.00
ACGTcount: A:0.22, C:0.24, G:0.32, T:0.21
Consensus pattern (42 bp):
GTTACAAGGCCTAGCACACGGGCGTGTAAGGCCATTCCGAGT
Found at i:30563821 original size:30 final size:29
Alignment explanation
Indices: 30563741--30563861 Score: 118
Period size: 29 Copynumber: 4.1 Consensus size: 29
30563731 AGCTTCGGCT
*
30563741 ATCAATTATGAAAAGGGGTGGTGACGACC
1 ATCAATTATGAAAAGGGATGGTGACGACC
* *
30563770 ATCAACTATGTAAAGGGATGGTGACGACC
1 ATCAATTATGAAAAGGGATGGTGACGACC
* ****
30563799 ATCAATTAATGAAAAAGGATGGTTTTAACC
1 ATCAATT-ATGAAAAGGGATGGTGACGACC
* * *
30563829 ATCGAA-TATGAAAAGGGACGGTTACAACC
1 ATC-AATTATGAAAAGGGATGGTGACGACC
30563858 ATCA
1 ATCA
30563862 TTTAGCACGC
Statistics
Matches: 76, Mismatches: 14, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
28 1 0.01
29 53 0.70
30 20 0.26
31 2 0.03
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (29 bp):
ATCAATTATGAAAAGGGATGGTGACGACC
Found at i:30568020 original size:28 final size:28
Alignment explanation
Indices: 30567988--30568043 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
30567978 TATGTGTTTT
30567988 TGGATAAAATTGAATGAATATTTCTTTA
1 TGGATAAAATTGAATGAATATTTCTTTA
30568016 TGGATAAAATTGAATGAATATTTCTTTA
1 TGGATAAAATTGAATGAATATTTCTTTA
30568044 ACTAAGTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.39, C:0.04, G:0.14, T:0.43
Consensus pattern (28 bp):
TGGATAAAATTGAATGAATATTTCTTTA
Found at i:30568391 original size:92 final size:92
Alignment explanation
Indices: 30568279--30568932 Score: 893
Period size: 92 Copynumber: 7.1 Consensus size: 92
30568269 CGAATTCGAA
* * * * *
30568279 TTGTTTATAGTTATACATTGTCGAAATTGATTTGCATATGGATATAAGTTGCCGAATTGATTTGT
1 TTGTATATGGTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGT
*
30568344 ATATGATTGTACATTGCTGAAATTAAT
66 ATATGATTATACATTGCTGAAATTAAT
*
30568371 TTGTATATGGTTATACATTGTTGAAATTGAATTTTATATGGATATAAGTTGCCGAATTGATTTGT
1 TTGTATATGGTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGT
30568436 ATATGATTATACATTGCTGAAATTAAT
66 ATATGATTATACATTGCTGAAATTAAT
* * *
30568463 TTTTACATGGTTATACATTATTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGT
1 TTGTATATGGTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGT
* * * *
30568528 ACATAACTGTACATTGCTGAAATTAAT
66 ATATGATTATACATTGCTGAAATTAAT
* * *
30568555 TTGTATATGGTTATACATTGTTGAAATTGCATTGTATATGGATATAAGTTCCCGAATTGATTCGT
1 TTGTATATGGTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGT
* *
30568620 ATAT-AGTTGTACATTGTTGAAATTAAT
66 ATATGA-TTATACATTGCTGAAATTAAT
*
30568647 TTGTATATGGTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTAGCCGAATTGATTTGT
1 TTGTATATGGTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGT
*
30568712 ATATGATTATATATTGCTGAAATTAAT
66 ATATGATTATACATTGCTGAAATTAAT
* * * **
30568739 TTGTACATGGTTATACATTGTTGAAATTGAATAGTATATGGATATAAGTTGCTGAATTGATTCAT
1 TTGTATATGGTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGT
* *
30568804 ATATGGTTATACATTGCTGAATTTAAT
66 ATATGATTATACATTGCTGAAATTAAT
* * * * * *
30568831 TTGTATATGATTATACATTGCTGAACTTG-ATTCGTATATGGGTTGTACA-TTGCTGAATTGATT
1 TTGTATATGGTTATACATTGTTGAAATTGAATT-GTATAT-GGATATA-AGTTGCCGAATTGATT
* * **
30568894 TGTATATAGA-TATACATTGCAGAATTTGGT
63 TGTATAT-GATTATACATTGCTGAAATTAAT
30568924 TTGTATATG
1 TTGTATATG
30568933 AATATATATA
Statistics
Matches: 503, Mismatches: 53, Indels: 11
0.89 0.09 0.02
Matches are distributed among these distances:
91 3 0.01
92 447 0.89
93 51 0.10
94 2 0.00
ACGTcount: A:0.31, C:0.07, G:0.18, T:0.43
Consensus pattern (92 bp):
TTGTATATGGTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGT
ATATGATTATACATTGCTGAAATTAAT
Found at i:30568946 original size:33 final size:31
Alignment explanation
Indices: 30568204--30568958 Score: 391
Period size: 31 Copynumber: 24.7 Consensus size: 31
30568194 ATATATGTTT
**
30568204 TATACATTGCTGAATTTGATTAAT-TATAGA
1 TATACATTGCTGAATTTGATTTGTATATAGA
*
30568234 TATACATTACTGAATTTGA-TTGT-T-T---
1 TATACATTGCTGAATTTGATTTGTATATAGA
* * * * *
30568259 TATATATT-CTCGAATTCGAATTGTTTATAGT
1 TATACATTGCT-GAATTTGATTTGTATATAGA
* * *
30568290 TATACATTG-TCGAAATTGATTTGCATATGGA
1 TATACATTGCT-GAATTTGATTTGTATATAGA
*
30568321 TATA-AGTTGCCGAA-TTGATTTGTATAT-GA
1 TATACA-TTGCTGAATTTGATTTGTATATAGA
* * * * *
30568350 TTGTACATTGCTGAAATTAATTTGTATATGGT
1 -TATACATTGCTGAATTTGATTTGTATATAGA
* * *
30568382 TATACATTGTTGAAATTGAATTT-TATATGGA
1 TATACATTGCTGAATTTG-ATTTGTATATAGA
*
30568413 TATA-AGTTGCCGAA-TTGATTTGTATAT-GA
1 TATACA-TTGCTGAATTTGATTTGTATATAGA
* * * * * *
30568442 TTATACATTGCTGAAATTAATTTTTACATGGT
1 -TATACATTGCTGAATTTGATTTGTATATAGA
** * * *
30568474 TATACATTATTGAAATTGAATTGTATATGGA
1 TATACATTGCTGAATTTGATTTGTATATAGA
* *
30568505 TATA-AGTTGCCGAA-TTGATTTGTACATA-A
1 TATACA-TTGCTGAATTTGATTTGTATATAGA
* * * * *
30568534 CTGTACATTGCTGAAATTAATTTGTATATGGT
1 -TATACATTGCTGAATTTGATTTGTATATAGA
* * *
30568566 TATACATTGTTGAAATTGCA-TTGTATATGGA
1 TATACATTGCTGAATTTG-ATTTGTATATAGA
* * * *
30568597 TATA-AGTTCCCGAA-TTGATTCGTATATAGT
1 TATACA-TTGCTGAATTTGATTTGTATATAGA
* * * * * *
30568627 TGTACATTGTTGAAATTAATTTGTATATGGT
1 TATACATTGCTGAATTTGATTTGTATATAGA
* * * *
30568658 TATACATTGTTGAAATTGAATTGTATATGGA
1 TATACATTGCTGAATTTGATTTGTATATAGA
* *
30568689 TATA-AGTAGCCGAA-TTGATTTGTATAT-GA
1 TATACA-TTGCTGAATTTGATTTGTATATAGA
* * * * * *
30568718 TTATATATTGCTGAAATTAATTTGTACATGGT
1 -TATACATTGCTGAATTTGATTTGTATATAGA
* * * * *
30568750 TATACATTGTTGAAATTGAATAGTATATGGA
1 TATACATTGCTGAATTTGATTTGTATATAGA
** * *
30568781 TATA-AGTTGCTGAA-TTGATTCATATATGGT
1 TATACA-TTGCTGAATTTGATTTGTATATAGA
*
30568811 TATACATTGCTGAATTTAATTTGTATAT-GA
1 TATACATTGCTGAATTTGATTTGTATATAGA
* * * *
30568841 TTATACATTGCTGAACTTGATTCGTATATGGGT
1 -TATACATTGCTGAATTTGATTTGTATAT-AGA
*
30568874 TGTACATTGCTGAA-TTGATTTGTATATAGA
1 TATACATTGCTGAATTTGATTTGTATATAGA
* * *
30568904 TATACATTGCAGAATTTGGTTTGTATATGAATA
1 TATACATTGCTGAATTTGATTTGTATAT--AGA
*
30568937 TATATATTGCTGAA-TTGATTTG
1 TATACATTGCTGAATTTGATTTG
30568959 AGCATTGGAT
Statistics
Matches: 570, Mismatches: 110, Indels: 88
0.74 0.14 0.11
Matches are distributed among these distances:
24 2 0.00
25 14 0.02
26 4 0.01
27 1 0.00
28 2 0.00
29 15 0.03
30 165 0.29
31 324 0.57
32 28 0.05
33 15 0.03
ACGTcount: A:0.32, C:0.07, G:0.18, T:0.44
Consensus pattern (31 bp):
TATACATTGCTGAATTTGATTTGTATATAGA
Found at i:30573412 original size:27 final size:27
Alignment explanation
Indices: 30573381--30573558 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
30573371 TAAATTGTAC
30573381 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
30573408 TGCACTAAGTGTGCGAAATGAATATGCT
1 AGCACTAAGTGTGCGATTTGACTATG-T
* * *
30573436 -GCACTAAGTGTGCGAATTGACCATGC
1 AGCACTAAGTGTGCGATTTGACTATGT
* *
30573462 GGCGCTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
30573490 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
30573517 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
30573544 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
30573559 GACTCAATAT
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 105 0.82
28 23 0.18
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:30573495 original size:82 final size:81
Alignment explanation
Indices: 30573385--30573537 Score: 227
Period size: 82 Copynumber: 1.9 Consensus size: 81
30573375 TTGTACAGCA
* *
30573385 CTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGCT-GCACTAAGTGTGC
1 CTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACG-TAGCACTAAGTGTGC
30573449 GAATTGACCATGCGGCG
65 GAATTGACCATGCGGCG
** *
30573466 CTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGTGC
1 CTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGTGC
*
30573531 GAGTTGA
65 GAATTGA
30573538 TTATATAGCA
Statistics
Matches: 64, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 13 0.20
82 51 0.80
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.30
Consensus pattern (81 bp):
CTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGTGCG
AATTGACCATGCGGCG
Found at i:30573555 original size:82 final size:81
Alignment explanation
Indices: 30573378--30573558 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
30573368 GATTAAATTG
* *
30573378 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGCTGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGCTGCACTAA
30573443 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
30573459 TGCGGCGCTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGCT-GCACT
* **
30573523 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
30573541 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
30573559 GACTCAATAT
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 17 0.21
82 65 0.79
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGCTGCACTAA
GTGTGCGAATTGACCA
Found at i:30577813 original size:25 final size:25
Alignment explanation
Indices: 30577785--30577838 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 25
30577775 TAATTATAGA
*
30577785 TATAAATTGTCGAATTTG-ATTGTT
1 TATAAATTGCCGAATTTGAATTGTT
*
30577809 T-TATATTTGCCGAATTTGAATTGTT
1 TATA-AATTGCCGAATTTGAATTGTT
30577834 TATAA
1 TATAA
30577839 TTATACATTG
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
23 2 0.08
24 13 0.52
25 8 0.32
26 2 0.08
ACGTcount: A:0.30, C:0.06, G:0.15, T:0.50
Consensus pattern (25 bp):
TATAAATTGCCGAATTTGAATTGTT
Found at i:30577917 original size:61 final size:60
Alignment explanation
Indices: 30577809--30578504 Score: 358
Period size: 61 Copynumber: 11.4 Consensus size: 60
30577799 TTTGATTGTT
* * * * *
30577809 TTATATTTGCCGAATTTGAATTGTTTATAATTATACATTGCCT-AAATTGATTTGCATATGG
1 TTATAATTGCCGAA-TTGATTTGTATATGATTATACATTG-CTGAAATTGATTTGTATATGG
* * * * **
30577870 ATATAAGTTGCCGAATTGATTTGTATATGATTGTACATTGCTGAAATTAATTTTTATATAT
1 TTATAA-TTGCCGAATTGATTTGTATATGATTATACATTGCTGAAATTGATTTGTATATGG
**** * *
30577931 TTATACATTATTAAAATTGAATTGTATATGGA-TATA-AGTTGAC-G-AATTGATTTGTATATGT
1 TTATA-ATT-GCCGAATTGATTTGTATAT-GATTATACA-TTG-CTGAAATTGATTTGTATATGG
* * * * * ** *
30577992 TTATACGTTGCTGAAATTAATTTGTACATGGTTATACATTATTGAAATTGAATTGTATATGG
1 TTATA-ATTGCCG-AATTGATTTGTATATGATTATACATTGCTGAAATTGATTTGTATATGG
* * * * * * *
30578054 ATATAAGTTGTCAAATTGATTTATATATAATTGTACATTGCTGAAATTAATTTGTATATGG
1 TTATAA-TTGCCGAATTGATTTGTATATGATTATACATTGCTGAAATTGATTTGTATATGG
** * * * * *
30578115 TTATACATTGTTGAAATTGAATTGTATATGGA-TATA-AGTGGTCG-AATTGATTCGTATTTGG
1 TTATA-ATTGCCG-AATTGATTTGTATAT-GATTATACATTGCT-GAAATTGATTTGTATATGG
* * * * * * * * *
30578176 TTGTACATTGCTGAAATTAATTT-AATATGGTTATACATTGTTAAAATTGAATTGTATATCG
1 TTATA-ATTGCCG-AATTGATTTGTATATGATTATACATTGCTGAAATTGATTTGTATATGG
* * * * *
30578237 ATATAAATTGCCGAATTGATTTGTACATGATTATATATTGCTGAAATTAATTTGTACATGG
1 TTAT-AATTGCCGAATTGATTTGTATATGATTATACATTGCTGAAATTGATTTGTATATGG
** * * * * *
30578298 TTATACATTGTTGAAATTGAATAGTATATGGA-TATA-AGTTGCCG-AATTTATTCGTATATGG
1 TTATA-ATTGCCG-AATTGATTTGTATAT-GATTATACA-TTGCTGAAATTGATTTGTATATGG
** * * * *
30578359 TTATACATTGTTGAATTTAATTTGTATATGATTATACATAGC-CAAACTTGATTCGTATATGG
1 TTATA-ATTGCCGAA-TTGATTTGTATATGATTATACATTGCTGAAA-TTGATTTGTATATGG
* * * * * * * *
30578421 TTGTACATTGCTGAATTAATTTGTATATAGA-TATACATTGCCGAATTTGGTTCGTATATGA
1 TTATA-ATTGCCGAATTGATTTGTATAT-GATTATACATTGCTGAAATTGATTTGTATATGG
* *
30578482 ATATATATTGCTGAATTGATTTG
1 TTATA-ATTGCCGAATTGATTTG
30578505 AGCATTGGAT
Statistics
Matches: 487, Mismatches: 115, Indels: 66
0.73 0.17 0.10
Matches are distributed among these distances:
59 1 0.00
60 24 0.05
61 331 0.68
62 125 0.26
63 6 0.01
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.44
Consensus pattern (60 bp):
TTATAATTGCCGAATTGATTTGTATATGATTATACATTGCTGAAATTGATTTGTATATGG
Found at i:30577938 original size:31 final size:31
Alignment explanation
Indices: 30577839--30578461 Score: 415
Period size: 31 Copynumber: 20.4 Consensus size: 31
30577829 TTGTTTATAA
* *
30577839 TTATACATTGCCT-AAATTGATTTGCATATGG
1 TTATACATTG-CTGAAATTAATTTGTATATGG
* * * *
30577870 ATATA-AGTTGCCG-AATTGATTTGTATATGA
1 TTATACA-TTGCTGAAATTAATTTGTATATGG
* * **
30577900 TTGTACATTGCTGAAATTAATTTTTATATAT
1 TTATACATTGCTGAAATTAATTTGTATATGG
** *
30577931 TTATACATTATTAAAATTGAA-TTGTATATGG
1 TTATACATTGCTGAAATT-AATTTGTATATGG
* * *
30577962 ATATA-AGTTGAC-G-AATTGATTTGTATATGT
1 TTATACA-TTG-CTGAAATTAATTTGTATATGG
* *
30577992 TTATACGTTGCTGAAATTAATTTGTACATGG
1 TTATACATTGCTGAAATTAATTTGTATATGG
**
30578023 TTATACATTATTGAAATTGAA-TTGTATATGG
1 TTATACATTGCTGAAATT-AATTTGTATATGG
* * * * **
30578054 ATATA-AGTTG-TCAAATTGATTTATATATAA
1 TTATACA-TTGCTGAAATTAATTTGTATATGG
*
30578084 TTGTACATTGCTGAAATTAATTTGTATATGG
1 TTATACATTGCTGAAATTAATTTGTATATGG
*
30578115 TTATACATTGTTGAAATTGAA-TTGTATATGG
1 TTATACATTGCTGAAATT-AATTTGTATATGG
* * * * * *
30578146 ATATA-AGTGGTCG-AATTGATTCGTATTTGG
1 TTATACATTGCT-GAAATTAATTTGTATATGG
* *
30578176 TTGTACATTGCTGAAATTAATTT-AATATGG
1 TTATACATTGCTGAAATTAATTTGTATATGG
* * *
30578206 TTATACATTGTTAAAATTGAA-TTGTATATCG
1 TTATACATTGCTGAAATT-AATTTGTATATGG
* * * * * *
30578237 ATATAAATTGCCG-AATTGATTTGTACATGA
1 TTATACATTGCTGAAATTAATTTGTATATGG
* *
30578267 TTATATATTGCTGAAATTAATTTGTACATGG
1 TTATACATTGCTGAAATTAATTTGTATATGG
* *
30578298 TTATACATTGTTGAAATTGAA-TAGTATATGG
1 TTATACATTGCTGAAATT-AATTTGTATATGG
* * * *
30578329 ATATA-AGTTGCCG-AATTTATTCGTATATGG
1 TTATACA-TTGCTGAAATTAATTTGTATATGG
* * *
30578359 TTATACATTGTTGAATTTAATTTGTATATGA
1 TTATACATTGCTGAAATTAATTTGTATATGG
* * * *
30578390 TTATACATAGC-CAAACTTGATTCGTATATGG
1 TTATACATTGCTGAAA-TTAATTTGTATATGG
* *
30578421 TTGTACATTGCTG-AATTAATTTGTATATAG
1 TTATACATTGCTGAAATTAATTTGTATATGG
*
30578451 ATATACATTGC
1 TTATACATTGC
30578462 CGAATTTGGT
Statistics
Matches: 447, Mismatches: 113, Indels: 65
0.72 0.18 0.10
Matches are distributed among these distances:
29 6 0.01
30 175 0.39
31 258 0.58
32 8 0.02
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (31 bp):
TTATACATTGCTGAAATTAATTTGTATATGG
Found at i:30577950 original size:92 final size:92
Alignment explanation
Indices: 30577839--30578461 Score: 745
Period size: 92 Copynumber: 6.8 Consensus size: 92
30577829 TTGTTTATAA
* * * *
30577839 TTATACATTGCCT-AAATTGATTTGCATATGGATATAAGTTGCCGAATTGATTTGTATATGATTG
1 TTATACATTG-TTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGTATATGATTA
* **
30577903 TACATTGCTGAAATTAATTTTTATATAT
65 TACATTGCTGAAATTAATTTGTATATGG
* * * *
30577931 TTATACATTATTAAAATTGAATTGTATATGGATATAAGTTGACGAATTGATTTGTATATGTTTAT
1 TTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGTATATGATTAT
* *
30577996 ACGTTGCTGAAATTAATTTGTACATGG
66 ACATTGCTGAAATTAATTTGTATATGG
* * * * * *
30578023 TTATACATTATTGAAATTGAATTGTATATGGATATAAGTTGTCAAATTGATTTATATATAATTGT
1 TTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGTATATGATTAT
30578088 ACATTGCTGAAATTAATTTGTATATGG
66 ACATTGCTGAAATTAATTTGTATATGG
* * * * * *
30578115 TTATACATTGTTGAAATTGAATTGTATATGGATATAAGTGGTCGAATTGATTCGTATTTGGTTGT
1 TTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGTATATGATTAT
*
30578180 ACATTGCTGAAATTAATTT-AATATGG
66 ACATTGCTGAAATTAATTTGTATATGG
* * * *
30578206 TTATACATTGTTAAAATTGAATTGTATATCGATATAAATTGCCGAATTGATTTGTACATGATTAT
1 TTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGTATATGATTAT
* *
30578271 ATATTGCTGAAATTAATTTGTACATGG
66 ACATTGCTGAAATTAATTTGTATATGG
* * * *
30578298 TTATACATTGTTGAAATTGAATAGTATATGGATATAAGTTGCCGAATTTATTCGTATATGGTTAT
1 TTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGTATATGATTAT
* * *
30578363 ACATTGTTGAATTTAATTTGTATATGA
66 ACATTGCTGAAATTAATTTGTATATGG
* ** * * * *
30578390 TTATACATAG-CCAAACTTG-ATTCGTATATGGTTGTACA-TTGCTGAATTAATTTGTATATAGA
1 TTATACATTGTTGAAA-TTGAATT-GTATATGGATATA-AGTTGCCGAATTGATTTGTATAT-GA
30578452 -TATACATTGC
62 TTATACATTGC
30578462 CGAATTTGGT
Statistics
Matches: 458, Mismatches: 67, Indels: 12
0.85 0.12 0.02
Matches are distributed among these distances:
91 85 0.19
92 371 0.81
93 2 0.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (92 bp):
TTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGTATATGATTAT
ACATTGCTGAAATTAATTTGTATATGG
Found at i:30578281 original size:275 final size:276
Alignment explanation
Indices: 30577829--30578397 Score: 809
Period size: 275 Copynumber: 2.1 Consensus size: 276
30577819 CGAATTTGAA
* * * * *
30577829 TTGTTTATAATTATACATTGCCTAAATTGATTTGCATATGGATATAAGTTGCCGAATTGATTTGT
1 TTGTATATGATTATACATTGCCTAAATTGAATTGCATATGGATATAAGTGGCCGAATTGATTCGT
* *
30577894 ATATGATTGTACATTGCTGAAATTAATTTTTATATATTTATACATTATTAAAATTGAATTGTATA
66 ATATGATTGTACATTGCTGAAATTAATTTTAATATAGTTATACATTATTAAAATTGAATTGTATA
* * * * *
30577959 TGGATATAAGTTGACGAATTGATTTGTATATGTTTATACGTTGCTGAAATTAATTTGTACATGGT
131 TCGATATAAATTGACGAATTGATTTGTACATGATTATACATTGCTGAAATTAATTTGTACATGGT
* * * *
30578024 TATACATTATTGAAATTGAATTGTATATGGATATAAGTTGTCAAATTGATTTATATATAATTGTA
196 TATACATTATTGAAATTGAATAGTATATGGATATAAGTTGCCAAATTGATTCATATATAATTATA
30578089 CATTGCTGAAATTAAT
261 CATTGCTGAAATTAAT
* * * *
30578105 TTGTATATGGTTATACATTG-TTGAAATTGAATTGTATATGGATATAAGTGGTCGAATTGATTCG
1 TTGTATATGATTATACATTGCCT-AAATTGAATTGCATATGGATATAAGTGGCCGAATTGATTCG
* * * *
30578169 TATTTGGTTGTACATTGCTGAAATTAA-TTTAATATGGTTATACATTGTTAAAATTGAATTGTAT
65 TATATGATTGTACATTGCTGAAATTAATTTTAATATAGTTATACATTATTAAAATTGAATTGTAT
* *
30578233 ATCGATATAAATTGCCGAATTGATTTGTACATGATTATATATTGCTGAAATTAATTTGTACATGG
130 ATCGATATAAATTGACGAATTGATTTGTACATGATTATACATTGCTGAAATTAATTTGTACATGG
* * * * **
30578298 TTATACATTGTTGAAATTGAATAGTATATGGATATAAGTTGCCGAATTTATTCGTATATGGTTAT
195 TTATACATTATTGAAATTGAATAGTATATGGATATAAGTTGCCAAATTGATTCATATATAATTAT
* *
30578363 ACATTGTTGAATTTAAT
260 ACATTGCTGAAATTAAT
30578380 TTGTATATGATTATACAT
1 TTGTATATGATTATACAT
30578398 AGCCAAACTT
Statistics
Matches: 257, Mismatches: 35, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
275 179 0.70
276 78 0.30
ACGTcount: A:0.33, C:0.06, G:0.17, T:0.44
Consensus pattern (276 bp):
TTGTATATGATTATACATTGCCTAAATTGAATTGCATATGGATATAAGTGGCCGAATTGATTCGT
ATATGATTGTACATTGCTGAAATTAATTTTAATATAGTTATACATTATTAAAATTGAATTGTATA
TCGATATAAATTGACGAATTGATTTGTACATGATTATACATTGCTGAAATTAATTTGTACATGGT
TATACATTATTGAAATTGAATAGTATATGGATATAAGTTGCCAAATTGATTCATATATAATTATA
CATTGCTGAAATTAAT
Found at i:30578460 original size:275 final size:272
Alignment explanation
Indices: 30577815--30578461 Score: 794
Period size: 275 Copynumber: 2.3 Consensus size: 272
30577805 TGTTTTATAT
* * * *
30577815 TTGCCGAATTTGAA-TTGTTTATAATTATACATTGCCTAAATTGATTTGCATATGGATATAAGTT
1 TTGCTGAATTT-AATTTGTATATGATTATACATTGCC-AAATTGA-TTGTATATGGATATAA-TT
* * *
30577879 GCCGAATTGATTTGTATATGATTGTACATTGCTGAAATTAATTTTTATATATTTATACATTATTA
62 GCTGAATTGATTTGTATATGA-TGTACATTGCTGAAATTAATTTTAATATAGTTATACATTATTA
* * * * *
30577944 AAATTGAATTGTATATGGATATAAGTTGACGAATTGATTTGTATATGTTTATACGTTGCTGAAAT
126 AAATTGAATTGTATATCGATATAAATTGACGAATTGATTTGTACATGATTATACATTGCTGAAAT
* *
30578009 TAATTTGTACATGGTTATACATTATTGAAATTGAATTGTATATGGATATAAGTTGTCAAATTGAT
191 TAATTTGTACATGGTTATACATTATTGAAATTGAATAGTATATGGATATAAGTTGCCAAATTGAT
* *
30578074 TTATATATAATTGTACA
256 TCATATATAATTATACA
* * ** * *
30578091 TTGCTGAAATTAATTTGTATATGGTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTGG
1 TTGCTGAATTTAATTTGTATATGATTATACATTG-CCAAATTG-ATTGTATATGGATATAATTGC
* * * * *
30578156 TCGAATTGATTCGTATTTGGTTGTACATTGCTGAAATTAA-TTTAATATGGTTATACATTGTTAA
64 T-GAATTGATTTGTATAT-GATGTACATTGCTGAAATTAATTTTAATATAGTTATACATTATTAA
* *
30578220 AATTGAATTGTATATCGATATAAATTGCCGAATTGATTTGTACATGATTATATATTGCTGAAATT
127 AATTGAATTGTATATCGATATAAATTGACGAATTGATTTGTACATGATTATACATTGCTGAAATT
* * *
30578285 AATTTGTACATGGTTATACATTGTTGAAATTGAATAGTATATGGATATAAGTTGCCGAATTTATT
192 AATTTGTACATGGTTATACATTATTGAAATTGAATAGTATATGGATATAAGTTGCCAAATTGATT
* **
30578350 CGTATATGGTTATACA
257 CATATATAATTATACA
* * * *
30578366 TTGTTGAATTTAATTTGTATATGATTATACATAGCCAAACTTGATTCGTATATGGTTGTACATTG
1 TTGCTGAATTTAATTTGTATATGATTATACATTGCCAAA-TTGATT-GTATATGGATATA-ATTG
* *
30578431 CTGAATTAATTTGTATATAGATATACATTGC
63 CTGAATTGATTTGTATAT-GATGTACATTGC
30578462 CGAATTTGGT
Statistics
Matches: 312, Mismatches: 51, Indels: 17
0.82 0.13 0.04
Matches are distributed among these distances:
274 6 0.02
275 220 0.71
276 84 0.27
277 2 0.01
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (272 bp):
TTGCTGAATTTAATTTGTATATGATTATACATTGCCAAATTGATTGTATATGGATATAATTGCTG
AATTGATTTGTATATGATGTACATTGCTGAAATTAATTTTAATATAGTTATACATTATTAAAATT
GAATTGTATATCGATATAAATTGACGAATTGATTTGTACATGATTATACATTGCTGAAATTAATT
TGTACATGGTTATACATTATTGAAATTGAATAGTATATGGATATAAGTTGCCAAATTGATTCATA
TATAATTATACA
Found at i:30578486 original size:31 final size:31
Alignment explanation
Indices: 30578220--30578498 Score: 133
Period size: 31 Copynumber: 9.1 Consensus size: 31
30578210 ACATTGTTAA
* *
30578220 AATTGAATT-GTATATCG-ATATAAATTGCCG
1 AATTTAATTCGTATAT-GAATATACATTGCCG
* * * * * *
30578250 AA-TTGATTTGTACATGATTATATATTGCTG
1 AATTTAATTCGTATATGAATATACATTGCCG
* * * ** **
30578280 AAATTAATTTGTACATGGTTATACATTGTTG
1 AATTTAATTCGTATATGAATATACATTGCCG
* * *
30578311 AAATTGAA-TAGTATATGGATATA-AGTTGCCG
1 -AATTTAATTCGTATATGAATATACA-TTGCCG
** **
30578342 AATTT-ATTCGTATATGGTTATACATTGTTG
1 AATTTAATTCGTATATGAATATACATTGCCG
* * * *
30578372 AATTTAATTTGTATATGATTATACATAGCCA
1 AATTTAATTCGTATATGAATATACATTGCCG
* * ** * *
30578403 AACTTGATTCGTATATGGTTGTACATTGCTG
1 AATTTAATTCGTATATGAATATACATTGCCG
*
30578434 AA-TTAATTTGTATAT-AGATATACATTGCCG
1 AATTTAATTCGTATATGA-ATATACATTGCCG
** * *
30578464 AATTTGGTTCGTATATGAATATATATTGCTG
1 AATTTAATTCGTATATGAATATACATTGCCG
30578495 AATT
1 AATT
30578499 GATTTGAGCA
Statistics
Matches: 191, Mismatches: 47, Indels: 21
0.74 0.18 0.08
Matches are distributed among these distances:
29 6 0.03
30 69 0.36
31 110 0.58
32 6 0.03
ACGTcount: A:0.33, C:0.08, G:0.17, T:0.42
Consensus pattern (31 bp):
AATTTAATTCGTATATGAATATACATTGCCG
Found at i:30579667 original size:26 final size:26
Alignment explanation
Indices: 30579617--30579667 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
30579607 GGTGTTACAG
* *
30579617 TTAGTCTGGTTGATTAATTATTGGCA
1 TTAGTCTGGTTGATTAATCAATGGCA
30579643 TTAGTCTGGTTGATTAATCAATGGC
1 TTAGTCTGGTTGATTAATCAATGGC
30579668 CAAAGTGATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.24, C:0.10, G:0.24, T:0.43
Consensus pattern (26 bp):
TTAGTCTGGTTGATTAATCAATGGCA
Found at i:30582159 original size:39 final size:40
Alignment explanation
Indices: 30582064--30582285 Score: 248
Period size: 39 Copynumber: 5.7 Consensus size: 40
30582054 TTGAATGATG
*
30582064 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
30582102 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
30582143 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
30582182 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
30582221 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* * *
30582260 AACCGAGCT-TGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
30582286 AACGAGGAGC
Statistics
Matches: 162, Mismatches: 12, Indels: 18
0.84 0.06 0.09
Matches are distributed among these distances:
39 109 0.67
40 41 0.25
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:30582258 original size:79 final size:81
Alignment explanation
Indices: 30582064--30582258 Score: 260
Period size: 79 Copynumber: 2.5 Consensus size: 81
30582054 TTGAATGATG
* * *
30582064 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAA-TTACTAATATCCGGACTAAGACCCGAAGGCAT
*
30582126 TTGTGCGAGATACTAAT
65 TTGTGCGAGATACTAAA
*
30582143 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-TACTAAT-TCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGA-ATTACTAATATCCGGACTAAGACCCGAAGGCAT
*
30582204 TTGTGCGAGTTACTAAA
65 TTGTGCGAGATACTAAA
*
30582221 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTA
30582259 TAACCGAGCT
Statistics
Matches: 103, Mismatches: 7, Indels: 12
0.84 0.06 0.10
Matches are distributed among these distances:
78 45 0.44
79 47 0.46
80 10 0.10
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTAATATCCGGACTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:30582276 original size:118 final size:118
Alignment explanation
Indices: 30582064--30582285 Score: 269
Period size: 118 Copynumber: 1.9 Consensus size: 118
30582054 TTGAATGATG
30582064 TCCGGGCTAAGTCCCGAAGGCTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATTTG
* *
30582129 TGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
66 TGCGAGATACTAATACCGAGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* * **
30582182 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAA-ATCCGGGTTAAG-TCCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGCA
*
30582243 TTTGTGCGA-ATTACT-ATAACCGAGCT-TGTCCCGAAGGCATTTG
62 TTTGTGCGAGA-TACTAAT-ACCGAGCTAAG-CCCGAAGGCATTTG
30582286 AACGAGGAGC
Statistics
Matches: 90, Mismatches: 7, Indels: 14
0.81 0.06 0.13
Matches are distributed among these distances:
117 14 0.16
118 68 0.76
119 8 0.09
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (118 bp):
TCCGGGCTAAGTCCCGAAGGCTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATTTG
TGCGAGATACTAATACCGAGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:30582278 original size:79 final size:78
Alignment explanation
Indices: 30582116--30582285 Score: 229
Period size: 79 Copynumber: 2.2 Consensus size: 78
30582106 GGACTAAGAT
*
30582116 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAA
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAA
* *
30582181 TTCCGGGCTAAGC
66 TACCGAGCTAAGC
* *
30582194 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-TACT
*
30582258 -ATAACCGAGCT-TGTC
64 AAT-ACCGAGCTAAG-C
30582273 CCGAAGGCATTTG
1 CCGAAGGCATTTG
30582286 AACGAGGAGC
Statistics
Matches: 82, Mismatches: 6, Indels: 7
0.86 0.06 0.07
Matches are distributed among these distances:
78 39 0.48
79 43 0.52
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (78 bp):
CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAA
TACCGAGCTAAGC
Found at i:30582303 original size:79 final size:79
Alignment explanation
Indices: 30582116--30582318 Score: 195
Period size: 79 Copynumber: 2.6 Consensus size: 79
30582106 GGACTAAGAT
** * *
30582116 CCGAAGGCATTTGTGCGAGAT-ACTAATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACT
1 CCGAAGGCATTTGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACT
* *
30582179 AATTCCGGGCTAAGC
65 AATACCGAGCTAAGC
** *
30582194 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT
1 CCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-TACT
*
30582258 -ATAACCGAGCT-TGTC
65 AAT-ACCGAGCTAAG-C
* * *
30582273 CCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
30582319 TACGTGATTT
Statistics
Matches: 108, Mismatches: 11, Indels: 12
0.82 0.08 0.09
Matches are distributed among these distances:
77 1 0.01
78 53 0.49
79 54 0.50
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTA
ATACCGAGCTAAGC
Found at i:30589021 original size:39 final size:40
Alignment explanation
Indices: 30588926--30589186 Score: 319
Period size: 39 Copynumber: 6.7 Consensus size: 40
30588916 TTGAATGATG
*
30588926 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
30588964 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
30589005 TCCGGGCTAAG-CCCGAAGGCA-TTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
30589043 TCCGGGCTAAG-CCCGAAGGCTTTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
30589082 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
30589121 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
30589160 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
30589187 AACGAGGAGC
Statistics
Matches: 199, Mismatches: 13, Indels: 19
0.86 0.06 0.08
Matches are distributed among these distances:
38 37 0.19
39 91 0.46
40 59 0.30
41 11 0.06
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:30591510 original size:22 final size:22
Alignment explanation
Indices: 30591485--30591530 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
30591475 TGTGGACATG
*
30591485 CTACAACTGATTTGTAGATAAA
1 CTACAACTGAATTGTAGATAAA
* *
30591507 CTACTAGTGAATTGTAGATAAA
1 CTACAACTGAATTGTAGATAAA
30591529 CT
1 CT
30591531 GCCATTGATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.33
Consensus pattern (22 bp):
CTACAACTGAATTGTAGATAAA
Found at i:30596771 original size:14 final size:14
Alignment explanation
Indices: 30596752--30596785 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
30596742 AATTTAATCT
30596752 AAATGAAAAGTATG
1 AAATGAAAAGTATG
*
30596766 AAATGAAATGTATG
1 AAATGAAAAGTATG
*
30596780 AGATGA
1 AAATGA
30596786 GTTTAGCAGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.24, T:0.24
Consensus pattern (14 bp):
AAATGAAAAGTATG
Found at i:30599136 original size:33 final size:33
Alignment explanation
Indices: 30599052--30599161 Score: 123
Period size: 33 Copynumber: 3.3 Consensus size: 33
30599042 TACTCTCTAT
*
30599052 TTGGTGTGTTGGTTGGATTAGCTCTTATGAGCA
1 TTGGTGTGTTGGATGGATTAGCTCTTATGAGCA
* * *
30599085 TTAGTTTGTT-GATTGGATTAGCTTTTATGAGCA
1 TTGGTGTGTTGGA-TGGATTAGCTCTTATGAGCA
* * * *
30599118 TTGGTGTATTGGAGGGATTGGCTCTTGTGAGCA
1 TTGGTGTGTTGGATGGATTAGCTCTTATGAGCA
30599151 TCTGGTGTGTT
1 T-TGGTGTGTT
30599162 TGGTCGGACT
Statistics
Matches: 62, Mismatches: 12, Indels: 5
0.78 0.15 0.06
Matches are distributed among these distances:
32 1 0.02
33 51 0.82
34 10 0.16
ACGTcount: A:0.15, C:0.08, G:0.33, T:0.44
Consensus pattern (33 bp):
TTGGTGTGTTGGATGGATTAGCTCTTATGAGCA
Found at i:30607856 original size:22 final size:24
Alignment explanation
Indices: 30607813--30607857 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
30607803 TTATGTAATT
*
30607813 ATTATTTTTACATTATATTTATAA
1 ATTATTTTAACATTATATTTATAA
30607837 ATTATTTTAAC-TT-TATTTATA
1 ATTATTTTAACATTATATTTATA
30607858 TTTATATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 8 0.40
23 2 0.10
24 10 0.50
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (24 bp):
ATTATTTTAACATTATATTTATAA
Found at i:30608019 original size:16 final size:15
Alignment explanation
Indices: 30607998--30608036 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
30607988 GGTTCTCTTC
* *
30607998 TTTCTTTTGTTTTGTT
1 TTTCTTTTCTTTT-CT
30608014 TTTCTTTTCTTTTCT
1 TTTCTTTTCTTTTCT
30608029 TTTCTTTT
1 TTTCTTTT
30608037 AGGTTTCAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 9 0.43
16 12 0.57
ACGTcount: A:0.00, C:0.13, G:0.05, T:0.82
Consensus pattern (15 bp):
TTTCTTTTCTTTTCT
Found at i:30608021 original size:5 final size:5
Alignment explanation
Indices: 30607998--30608036 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
30607988 GGTTCTCTTC
* *
30607998 TTTCT TTTGT TTTGTT TTTCT TTTCT TTTCT TTTCT TTT
1 TTTCT TTTCT TTT-CT TTTCT TTTCT TTTCT TTTCT TTT
30608037 AGGTTTCAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
5 26 0.87
6 4 0.13
ACGTcount: A:0.00, C:0.13, G:0.05, T:0.82
Consensus pattern (5 bp):
TTTCT
Found at i:30621181 original size:20 final size:21
Alignment explanation
Indices: 30621146--30621184 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
30621136 TTAATGGTTT
*
30621146 TAAATAATTTTTGGTTAAAAA
1 TAAATAATTTTGGGTTAAAAA
30621167 TAAAT-ATTTTGGGTTAAA
1 TAAATAATTTTGGGTTAAA
30621185 TTGGATTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.44, C:0.00, G:0.13, T:0.44
Consensus pattern (21 bp):
TAAATAATTTTGGGTTAAAAA
Found at i:30622686 original size:17 final size:18
Alignment explanation
Indices: 30622652--30622691 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
30622642 AAAATAAGAT
30622652 AAAAAATTCTGGTAAGAAG
1 AAAAAATTC-GGTAAGAAG
*
30622671 AAAAAATTC-GTTAGAAG
1 AAAAAATTCGGTAAGAAG
30622688 AAAA
1 AAAA
30622692 TTTATAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 11 0.55
19 9 0.45
ACGTcount: A:0.57, C:0.05, G:0.17, T:0.20
Consensus pattern (18 bp):
AAAAAATTCGGTAAGAAG
Found at i:30623149 original size:21 final size:20
Alignment explanation
Indices: 30623119--30623157 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
30623109 GTTTCTTTAA
30623119 TATTAATATAATATTTTAATT
1 TATTAATATAAT-TTTTAATT
*
30623140 TATTATTATAATTTTTAA
1 TATTAATATAATTTTTAA
30623158 AAATATTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TATTAATATAATTTTTAATT
Found at i:30623164 original size:21 final size:21
Alignment explanation
Indices: 30623117--30623164 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
30623107 CAGTTTCTTT
30623117 AATATTAATATAATATTTTAA
1 AATATTAATATAATATTTTAA
** *
30623138 TTTATTATTATAAT-TTTTAAA
1 AATATTAATATAATATTTT-AA
30623159 AATATT
1 AATATT
30623165 TATTTATTTT
Statistics
Matches: 21, Mismatches: 5, Indels: 2
0.75 0.18 0.07
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
AATATTAATATAATATTTTAA
Found at i:30623182 original size:17 final size:17
Alignment explanation
Indices: 30623160--30623205 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
30623150 ATTTTTAAAA
30623160 ATATTTATTTATTTTAT
1 ATATTTATTTATTTTAT
*
30623177 ATATTT-TTAAATTTTAT
1 ATATTTATT-TATTTTAT
*
30623194 A-ATTTATATATT
1 ATATTTATTTATT
30623206 ATGATTTCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
16 9 0.38
17 15 0.62
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
ATATTTATTTATTTTAT
Found at i:30623182 original size:29 final size:31
Alignment explanation
Indices: 30623128--30623212 Score: 92
Period size: 29 Copynumber: 2.8 Consensus size: 31
30623118 ATATTAATAT
30623128 AATATTTTAATTTATTATTATAATTTTTAAA
1 AATATTTTAATTTATTATTATAATTTTTAAA
30623159 AATA-TTT-ATTTATT-TTATATATTTTT--A
1 AATATTTTAATTTATTATTATA-ATTTTTAAA
*
30623186 AAT-TTTATAATTTATATATTATGATTT
1 AATATTT-TAATTTAT-TATTATAATTT
30623213 CTTGTCAATA
Statistics
Matches: 47, Mismatches: 1, Indels: 13
0.77 0.02 0.21
Matches are distributed among these distances:
27 6 0.13
28 6 0.13
29 19 0.40
30 8 0.17
31 8 0.17
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (31 bp):
AATATTTTAATTTATTATTATAATTTTTAAA
Found at i:30623339 original size:51 final size:51
Alignment explanation
Indices: 30623263--30623366 Score: 131
Period size: 51 Copynumber: 2.0 Consensus size: 51
30623253 TATTTCTTTA
* **
30623263 AATTTTTTAGAATTAGAATCAAATTGAGATCAAT-TGTAAATTTTGAGGGTT
1 AATTTTTTAAAATTAGAATCAAATTGAGAT-AATATGTAAAAGTTGAGGGTT
* *
30623314 AATTTTTTAAAATTATG-ATTAAATTGATATAATATGTAAAAGTTGAGGGTT
1 AATTTTTTAAAATTA-GAATCAAATTGAGATAATATGTAAAAGTTGAGGGTT
30623365 AA
1 AA
30623367 ATTTGTTATT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
50 3 0.07
51 42 0.91
52 1 0.02
ACGTcount: A:0.40, C:0.02, G:0.16, T:0.41
Consensus pattern (51 bp):
AATTTTTTAAAATTAGAATCAAATTGAGATAATATGTAAAAGTTGAGGGTT
Found at i:30644308 original size:18 final size:18
Alignment explanation
Indices: 30644285--30644327 Score: 70
Period size: 17 Copynumber: 2.4 Consensus size: 18
30644275 ATAAATATTA
30644285 AAAAATTATTTTAAAAAT
1 AAAAATTATTTTAAAAAT
*
30644303 AAAAA-TATTTTAAAATT
1 AAAAATTATTTTAAAAAT
30644320 AAAAATTA
1 AAAAATTA
30644328 AAAATTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 16 0.70
18 7 0.30
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
AAAAATTATTTTAAAAAT
Found at i:30644324 original size:7 final size:7
Alignment explanation
Indices: 30644295--30644353 Score: 64
Period size: 7 Copynumber: 8.1 Consensus size: 7
30644285 AAAAATTATT
30644295 TTAAAAA
1 TTAAAAA
*
30644302 TAAAAATA
1 TTAAAA-A
*
30644310 TTTTAAAA
1 -TTAAAAA
30644318 TTAAAAA
1 TTAAAAA
30644325 TTAAAAA
1 TTAAAAA
30644332 TTAAAAA
1 TTAAAAA
*
30644339 ATAAAAA
1 TTAAAAA
*
30644346 TAAAAAA
1 TTAAAAA
30644353 T
1 T
30644354 ATATATTTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
7 37 0.86
8 2 0.05
9 4 0.09
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
TTAAAAA
Found at i:30644352 original size:13 final size:13
Alignment explanation
Indices: 30644313--30644354 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
30644303 AAAAATATTT
* *
30644313 TAAAATTAAAAAT
1 TAAAAATAAAAAA
30644326 TAAAAATTAAAAAA
1 TAAAAA-TAAAAAA
30644340 TAAAAATAAAAAA
1 TAAAAATAAAAAA
30644353 TA
1 TA
30644355 TATATTTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 14 0.54
14 12 0.46
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
TAAAAATAAAAAA
Found at i:30646069 original size:24 final size:24
Alignment explanation
Indices: 30646042--30646090 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
30646032 ATAATATTCT
30646042 AGTTAAACTCTGTTTATTTATTTC
1 AGTTAAACTCTGTTTATTTATTTC
*
30646066 AGTTAAACTCTGTTTATTTGTTTC
1 AGTTAAACTCTGTTTATTTATTTC
30646090 A
1 A
30646091 ATCAAACTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.24, C:0.12, G:0.10, T:0.53
Consensus pattern (24 bp):
AGTTAAACTCTGTTTATTTATTTC
Found at i:30646097 original size:24 final size:24
Alignment explanation
Indices: 30646046--30646098 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
30646036 TATTCTAGTT
* *
30646046 AAACTCTGTTTATTTATTTCAGTT
1 AAACTCTGTTTATTTATTTCAATC
*
30646070 AAACTCTGTTTATTTGTTTCAATC
1 AAACTCTGTTTATTTATTTCAATC
30646094 AAACT
1 AAACT
30646099 TTGATTAGTC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.28, C:0.15, G:0.08, T:0.49
Consensus pattern (24 bp):
AAACTCTGTTTATTTATTTCAATC
Found at i:30652684 original size:11 final size:11
Alignment explanation
Indices: 30652668--30652695 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
30652658 AAACACAATT
30652668 AAACATGCTCA
1 AAACATGCTCA
30652679 AAACATGCTCA
1 AAACATGCTCA
30652690 AAACAT
1 AAACAT
30652696 CCAACCTAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.50, C:0.25, G:0.07, T:0.18
Consensus pattern (11 bp):
AAACATGCTCA
Found at i:30655266 original size:15 final size:15
Alignment explanation
Indices: 30655246--30655274 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
30655236 GTATTGTTAC
30655246 TTGATAACACGGTGA
1 TTGATAACACGGTGA
30655261 TTGATAACACGGTG
1 TTGATAACACGGTG
30655275 TGTGAGACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.28
Consensus pattern (15 bp):
TTGATAACACGGTGA
Found at i:30656270 original size:49 final size:49
Alignment explanation
Indices: 30656192--30656305 Score: 140
Period size: 49 Copynumber: 2.3 Consensus size: 49
30656182 GCACTTGGCA
* ** * ** *
30656192 ACTAGGTGCCAAGCCCATGGGCTAACATCCTTCTGAAATACACCTAGGC
1 ACTAAGTGCCAAGCCCATAAGCTAACATCCCTCCAAAACACACCTAGGC
*
30656241 ACTGAA-TGCCAAGCGCATAAGCTAACATCCCTCCAAAACACACCTAGGC
1 ACT-AAGTGCCAAGCCCATAAGCTAACATCCCTCCAAAACACACCTAGGC
30656290 ACTAAGTGCCAAGCCC
1 ACTAAGTGCCAAGCCC
30656306 GAAAGCTTTA
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
48 2 0.04
49 51 0.94
50 1 0.02
ACGTcount: A:0.32, C:0.33, G:0.18, T:0.17
Consensus pattern (49 bp):
ACTAAGTGCCAAGCCCATAAGCTAACATCCCTCCAAAACACACCTAGGC
Found at i:30658425 original size:22 final size:22
Alignment explanation
Indices: 30658400--30658444 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 22
30658390 ATTGTATGTA
30658400 TTAATTTATAATATAA-TTAATT
1 TTAATTTAT-ATATAATTTAATT
30658422 TTAATTTATATATAATTTAATT
1 TTAATTTATATATAATTTAATT
30658444 T
1 T
30658445 GGGTTAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
TTAATTTATATATAATTTAATT
Found at i:30663518 original size:31 final size:30
Alignment explanation
Indices: 30663483--30663649 Score: 127
Period size: 31 Copynumber: 5.4 Consensus size: 30
30663473 GAATCACCCC
* * *
30663483 ATGTTTACTATCTCAACGAACTATCTGTTCT
1 ATGTTTATTGTCTCAAC-AACTATCTATTCT
* * * * *
30663514 ATGTTTATTATCTTAGCACACTATTTTTTCT
1 ATGTTTATTGTCTCAACA-ACTATCTATTCT
* *
30663545 ATGTTTATTGTCTCAACAAACTATTTACTCT
1 ATGTTTATTGTCTCAAC-AACTATCTATTCT
* *
30663576 ATGTTTATTGTCCCAACAGACTATCTATCCT
1 ATGTTTATTGTCTCAACA-ACTATCTATTCT
* * * * * *
30663607 ATGTTTACTGTCCCAGCGGACTACCTGTTCT
1 ATGTTTATTGTCTCAAC-AACTATCTATTCT
30663638 ATGTTTATTGTC
1 ATGTTTATTGTC
30663650 CCAGCGGACT
Statistics
Matches: 111, Mismatches: 21, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
30 2 0.02
31 108 0.97
32 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.11, T:0.44
Consensus pattern (30 bp):
ATGTTTATTGTCTCAACAACTATCTATTCT
Found at i:30663599 original size:62 final size:62
Alignment explanation
Indices: 30663483--30663618 Score: 146
Period size: 62 Copynumber: 2.2 Consensus size: 62
30663473 GAATCACCCC
* * ** ** * * * *
30663483 ATGTTTACTATCTCAACGAACTATCTGTTCTATGTTTATTATCTTAGCACACTATTTTTTCT
1 ATGTTTACTGTCTCAACAAACTATCTACTCTATGTTTATTATCCCAACACACTATCTATCCT
* * * *
30663545 ATGTTTATTGTCTCAACAAACTATTTACTCTATGTTTATTGTCCCAACAGACTATCTATCCT
1 ATGTTTACTGTCTCAACAAACTATCTACTCTATGTTTATTATCCCAACACACTATCTATCCT
30663607 ATGTTTACTGTC
1 ATGTTTACTGTC
30663619 CCAGCGGACT
Statistics
Matches: 59, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
62 59 1.00
ACGTcount: A:0.25, C:0.21, G:0.09, T:0.46
Consensus pattern (62 bp):
ATGTTTACTGTCTCAACAAACTATCTACTCTATGTTTATTATCCCAACACACTATCTATCCT
Found at i:30667201 original size:2 final size:2
Alignment explanation
Indices: 30667194--30667246 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
30667184 GGAAGGGAAA
30667194 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
30667236 AG AG AG AG AG A
1 AG AG AG AG AG A
30667247 ACATGAAAAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:30671488 original size:129 final size:129
Alignment explanation
Indices: 30671257--30671513 Score: 356
Period size: 129 Copynumber: 2.0 Consensus size: 129
30671247 TCTACAGTCT
* * *
30671257 GGTGAATGCCCAAACAATGCCTGGTATTCCAAAGCAACCTCCCCATTGACATCCTGTTTTTTTTC
1 GGTGAATGCCCAAACAATGCCTGCTATTCCAAAGCAACCTCCCCATTGACATCCTCTTTTTTATC
* * * * *
30671322 GATTCCTTTAACCTGACACTCGGAGAAGCCATCTTGAATGCAGACTGAAGAATCTCTCCCATCA
66 AATTCCCTTAACCTGACACTCAGAGAAACCATCTTGAACGCAGACTGAAGAATCTCTCCCATCA
* *
30671386 GGTGAATGTCCAAACAATGCCTCGCT-TTCCAAAGCAACGCT-TCCATTGACATCCTCTTTTTTA
1 GGTGAATGCCCAAACAATGCCT-GCTATTCCAAAGCAAC-CTCCCCATTGACATCCTCTTTTTTA
* * * *
30671449 TCAATTCCCTTCACCTGACACTCAGAGAAACCATTTTGAACGCAGATTGAAGTATCTCTCCCATC
64 TCAATTCCCTTAACCTGACACTCAGAGAAACCATCTTGAACGCAGACTGAAGAATCTCTCCCATC
30671514 TGATTGTTGA
Statistics
Matches: 112, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
129 108 0.96
130 4 0.04
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.29
Consensus pattern (129 bp):
GGTGAATGCCCAAACAATGCCTGCTATTCCAAAGCAACCTCCCCATTGACATCCTCTTTTTTATC
AATTCCCTTAACCTGACACTCAGAGAAACCATCTTGAACGCAGACTGAAGAATCTCTCCCATCA
Found at i:30679162 original size:263 final size:262
Alignment explanation
Indices: 30678683--30679177 Score: 613
Period size: 263 Copynumber: 1.9 Consensus size: 262
30678673 GACTCACCAC
*
30678683 ACCAACTTAGGGATTTTATTAATAATATAGATATACAATTAAAATGTACATAATAAAATTAAAAG
1 ACCAACTTAGGGATTTTATTAATAATATAAATATACAATTAAAATGTACATAATAAAATTAAAAG
* * ** *
30678748 GTATAAGTAAACTAAAATAAAGTCTAGGTTAGATGATAAATTTAAAGTTTTTTTTTAATATAATT
66 GTATAAGTAAACCAAAATAAAGTCTAGGTTAAATGATAAATTTAAAG-ACTTTTCTAATATAATT
* * * * *
30678813 AGCATTGGTTTAAATCCCACAATACACATTTTTATTTTTTTATTAAAAATATTAAAGTCCCCCGA
130 AGCATTGGTTCAAATCCCACAATACACATTTTTATTTTTTAATTAAAAAGACTAAAGTCCCCCAA
* * *
30678878 ACAATTTAGCTTATTTTAAATTCAG-AAGGTCATTTTTTGTTCGAGTTAGTGCTTGATTGACTCG
195 ACAATATAACTTATGTTAAATT-AGTAAGGTCATTTTTTGTTCGAGTTAGTGCTTGATTGACTCG
30678942 TGAT
259 TGAT
* * * *
30678946 ACCAACTT-GGGAATTTTATTAATAGTATAAATATACCATTAAAATGTGCATAATGAAATTAAAA
1 ACCAACTTAGGG-ATTTTATTAATAATATAAATATACAATTAAAATGTACATAATAAAATTAAAA
* * * * *
30679010 TGTATAAGTAAGCCAAAATCAAGTCTTGGTTAAATGATAAATTTAAA-ACTTTTCTAATGTAATT
65 GGTATAAGTAAACCAAAATAAAGTCTAGGTTAAATGATAAATTTAAAGACTTTTCTAATATAATT
* * * *
30679074 AGCA-TGAGTTCAAATTCCACAATACACGCATTTTTA-TTTTTAATTAAAAGGACTAAAGTGTCT
130 AGCATTG-GTTCAAATCCCACAATACA--CATTTTTATTTTTTAATTAAAAAGACTAAAGT-CCC
* * * *
30679137 TCAAATAATATAATTTATGTTAAATTTGTAAGGTCATTTTT
191 CCAAACAATATAACTTATGTTAAATTAGTAAGGTCATTTTT
30679178 GTAATTTCCA
Statistics
Matches: 195, Mismatches: 31, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
260 2 0.01
261 34 0.17
262 23 0.12
263 136 0.70
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.38
Consensus pattern (262 bp):
ACCAACTTAGGGATTTTATTAATAATATAAATATACAATTAAAATGTACATAATAAAATTAAAAG
GTATAAGTAAACCAAAATAAAGTCTAGGTTAAATGATAAATTTAAAGACTTTTCTAATATAATTA
GCATTGGTTCAAATCCCACAATACACATTTTTATTTTTTAATTAAAAAGACTAAAGTCCCCCAAA
CAATATAACTTATGTTAAATTAGTAAGGTCATTTTTTGTTCGAGTTAGTGCTTGATTGACTCGTG
AT
Found at i:30685229 original size:37 final size:37
Alignment explanation
Indices: 30685179--30685331 Score: 261
Period size: 37 Copynumber: 4.1 Consensus size: 37
30685169 TTATTACGAA
* * * *
30685179 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
30685216 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
*
30685253 GTCTTACCCGGATAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
30685290 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
30685327 GTCTT
1 GTCTT
30685332 TAGAGCTCGG
Statistics
Matches: 110, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 110 1.00
ACGTcount: A:0.26, C:0.33, G:0.19, T:0.22
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
Found at i:30685625 original size:49 final size:47
Alignment explanation
Indices: 30685450--30685674 Score: 317
Period size: 47 Copynumber: 4.7 Consensus size: 47
30685440 CCCTTCGGGA
* * * * * *
30685450 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
30685497 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30685544 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30685591 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACA--TATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
30685640 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
30685675 AGAATCCTAA
Statistics
Matches: 162, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
46 1 0.01
47 115 0.71
49 46 0.28
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:30685643 original size:96 final size:94
Alignment explanation
Indices: 30685450--30685674 Score: 326
Period size: 96 Copynumber: 2.4 Consensus size: 94
30685440 CCCTTCGGGA
* * * * *
30685450 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
30685515 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
* * *
30685544 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATGTATATAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACA--TATATAC
30685609 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
30685640 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATCCATCACAT
30685675 AGAATCCTAA
Statistics
Matches: 117, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
94 48 0.41
95 1 0.01
96 68 0.58
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:30688856 original size:3 final size:3
Alignment explanation
Indices: 30688848--30688947 Score: 127
Period size: 3 Copynumber: 33.7 Consensus size: 3
30688838 TGTGTTCAAA
30688848 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
30688896 AAT AAT AAT AAT AAT -GT AGAT AGAT ACAT AA- AA- AAT GAT -AT AAT
1 AAT AAT AAT AAT AAT AAT A-AT A-AT A-AT AAT AAT AAT AAT AAT AAT
30688940 AAT AAT AA
1 AAT AAT AA
30688948 ACTAAGGAAT
Statistics
Matches: 89, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
2 7 0.08
3 73 0.82
4 9 0.10
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:30690210 original size:23 final size:21
Alignment explanation
Indices: 30690158--30690215 Score: 71
Period size: 23 Copynumber: 2.6 Consensus size: 21
30690148 GGGTTTGTAA
* *
30690158 ATTGGGCTCAGGTAGTTTTAGG
1 ATTGGGCT-AGGTTGGTTTAGG
30690180 ATTGGGCTAGGTTGGTTTAGGG
1 ATTGGGCTAGGTTGGTTTA-GG
30690202 TATTGGGCTAGGTT
1 -ATTGGGCTAGGTT
30690216 AGTTGGGTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
21 9 0.28
22 10 0.31
23 13 0.41
ACGTcount: A:0.16, C:0.07, G:0.40, T:0.38
Consensus pattern (21 bp):
ATTGGGCTAGGTTGGTTTAGG
Found at i:30690986 original size:72 final size:71
Alignment explanation
Indices: 30690756--30691585 Score: 1221
Period size: 72 Copynumber: 11.6 Consensus size: 71
30690746 TGGCATGTGA
* * * * *
30690756 TCTTGA-GCCCAACTCATTTCTCGCAATATGAATTGACTCTTTAAAAACAAAAACT-AAAGATAC
1 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-T-TTTGAAAACAGAAATTGAAA-ATAC
30690819 CTCAACATGTG
63 CTCAAC--GTG
* * *
30690830 AAC-TGAGGCTCAACTCACTTT-TCGCAATATGAGTTGATTGTTTTGACAACAGAAATTGAAATT
1 -TCTTGAGGCTCAACTCA-TTTCTCGCAATATGAGTTGA---TTTTGAAAACAGAAATTGAAAAT
*
30690893 ACCTCAGCGTG
61 ACCTCAACGTG
** *
30690904 TCCCGAGGCTCAACTCATGTCTCGCAATATGAGTTGATTTTGAAAAGCAGAAATTGAAAATACCT
1 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAA-CAGAAATTGAAAATACCT
*
30690969 CAATGTG
65 CAACGTG
* * *
30690976 TCTTGAGGCTCAACTCATTTCTCGTAATATGGGTTGAATTTTGAAAACAGAAATTGAAATTACCT
1 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG-ATTTTGAAAACAGAAATTGAAAATACCT
*
30691041 CAATGTG
65 CAACGTG
*
30691048 TCTTGAGGCTCAACTCATTTCTCG-AATATGA-TTGAATTTGAAAACAGAAATTGAAAATACCTC
1 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAACAGAAATTGAAAATACCTC
30691111 AACGTG
66 AACGTG
*
30691117 TCTTGAGGCTCAACTCA-TTCTCGCAATA-GAGTTGATTTTGAAAACAGAAATTG-AAATATCTC
1 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAACAGAAATTGAAAATACCTC
30691179 AACGTG
66 AACGTG
30691185 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCT
1 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG-ATTTTGAAAACAGAAATTGAAAATACCT
30691250 CAACGTG
65 CAACGTG
*
30691257 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAACAGAAATTGAAATTACCTC
1 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAACAGAAATTGAAAATACCTC
30691322 AACGTG
66 AACGTG
*
30691328 TCTTGAGGCTCAACTCATTTCTCG-AATATGAGTTGAATTTTGAAAAGTAGAAATTGAAAATACC
1 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG-ATTTTGAAAA-CAGAAATTGAAAATACC
30691392 TCAACGTG
64 TCAACGTG
*
30691400 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAAAAATTGAAAATACC
1 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG-ATTTTGAAAA-CAGAAATTGAAAATACC
30691465 TCAACGTG
64 TCAACGTG
*
30691473 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCT
1 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG-ATTTTGAAAACAGAAATTGAAAATACCT
30691538 CAACGTG
65 CAACGTG
30691545 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTT
1 TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTT
30691586 CCTTGGAAAG
Statistics
Matches: 700, Mismatches: 37, Indels: 40
0.90 0.05 0.05
Matches are distributed among these distances:
68 39 0.06
69 85 0.12
70 20 0.03
71 106 0.15
72 257 0.37
73 106 0.15
74 35 0.05
75 25 0.04
76 23 0.03
77 4 0.01
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.31
Consensus pattern (71 bp):
TCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAACAGAAATTGAAAATACCTC
AACGTG
Found at i:30692481 original size:1 final size:1
Alignment explanation
Indices: 30692436--30692464 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
30692426 CTGATCCCCC
30692436 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
30692465 CCCTTTTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:30718698 original size:27 final size:27
Alignment explanation
Indices: 30718667--30718844 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
30718657 TAAATTGTAC
30718667 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
30718694 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
30718720 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
30718748 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
30718776 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
30718803 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
30718830 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
30718845 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:30718781 original size:82 final size:81
Alignment explanation
Indices: 30718668--30718823 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
30718658 AAATTGTACA
* *
30718668 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
30718732 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
30718749 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
30718814 TGCGAGTTGA
65 TGCGAATTGA
30718824 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:30718835 original size:82 final size:81
Alignment explanation
Indices: 30718664--30718844 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
30718654 GATTAAATTG
* *
30718664 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
30718729 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
30718745 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
30718809 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
30718827 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
30718845 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:30722190 original size:3 final size:3
Alignment explanation
Indices: 30722182--30722248 Score: 61
Period size: 3 Copynumber: 22.7 Consensus size: 3
30722172 TGTGTTCAAA
*
30722182 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -GT AGAT AGAT ACAT AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT A-AT A-AT AAT
*
30722228 AA- AAT GAT -AT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AA
30722249 ACTAAGGAAT
Statistics
Matches: 56, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
2 7 0.12
3 40 0.71
4 9 0.16
ACGTcount: A:0.63, C:0.01, G:0.06, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:30723086 original size:15 final size:15
Alignment explanation
Indices: 30723039--30723086 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
30723029 TTTTTTGAAC
* *
30723039 AAAAAAATGAAAATA
1 AAAAAAAAGGAAATA
*
30723054 AAAAATAAA-GAAACA
1 AAAAA-AAAGGAAATA
30723069 AAAAAAAAGGAAATA
1 AAAAAAAAGGAAATA
30723084 AAA
1 AAA
30723087 TTCAACCTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
14 3 0.11
15 22 0.81
16 2 0.07
ACGTcount: A:0.81, C:0.02, G:0.08, T:0.08
Consensus pattern (15 bp):
AAAAAAAAGGAAATA
Found at i:30723517 original size:23 final size:21
Alignment explanation
Indices: 30723465--30723522 Score: 71
Period size: 23 Copynumber: 2.6 Consensus size: 21
30723455 GGGTTTGTAA
* *
30723465 ATTGGGCTCAGGTAGTTTTAGG
1 ATTGGGCT-AGGTTGGTTTAGG
30723487 ATTGGGCTAGGTTGGTTTAGGG
1 ATTGGGCTAGGTTGGTTTA-GG
30723509 TATTGGGCTAGGTT
1 -ATTGGGCTAGGTT
30723523 AGTTGGGTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
21 9 0.28
22 10 0.31
23 13 0.41
ACGTcount: A:0.16, C:0.07, G:0.40, T:0.38
Consensus pattern (21 bp):
ATTGGGCTAGGTTGGTTTAGG
Found at i:30725046 original size:40 final size:40
Alignment explanation
Indices: 30725014--30725236 Score: 272
Period size: 40 Copynumber: 5.6 Consensus size: 40
30725004 CCAGCATGAT
* * * * *
30725014 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATATATCACTAGCACGAA
***
30725054 TGCTCTTCGGGGTTTAG-CACGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTC-CGGATATATCACTAGCACGAA
*
30725094 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATATATCACTAGCACGAA
*
30725134 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATATATCACTAGCACGAA
*
30725174 TGCTCTTCGGAACTTAGTCCGGATATGGTCACTTAGCAC-AA
1 TGCTCTTCGGAACTTAGTCCGGATAT-ATCAC-TAGCACGAA
* * *
30725215 AGC-CTTCGGGACTTAGCCCGGA
1 TGCTCTTCGGAACTTAGTCCGGA
30725237 CATCATTCAA
Statistics
Matches: 165, Mismatches: 14, Indels: 8
0.88 0.07 0.04
Matches are distributed among these distances:
39 1 0.01
40 149 0.90
41 9 0.05
42 6 0.04
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCCGGATATATCACTAGCACGAA
Found at i:30725587 original size:29 final size:29
Alignment explanation
Indices: 30725548--30725626 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
30725538 CTTAATAATC
*
30725548 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
30725578 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
30725607 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
30725627 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:30726979 original size:37 final size:37
Alignment explanation
Indices: 30726929--30727081 Score: 261
Period size: 37 Copynumber: 4.1 Consensus size: 37
30726919 TTATTACGAA
* * * *
30726929 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
30726966 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
*
30727003 GTCTTACCCGGATAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
30727040 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
30727077 GTCTT
1 GTCTT
30727082 TAGAGCTCGG
Statistics
Matches: 110, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 110 1.00
ACGTcount: A:0.26, C:0.33, G:0.19, T:0.22
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
Found at i:30727375 original size:49 final size:47
Alignment explanation
Indices: 30727200--30727424 Score: 319
Period size: 47 Copynumber: 4.7 Consensus size: 47
30727190 CCCTTCGAGA
* * * * *
30727200 CTTATCACATTTATACACTTTCACATCCATCACGTCGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
30727247 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30727294 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30727341 CTTATCACATGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACA--TATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
30727390 CTTATCTCATATATGCA-TGTTCACA-TCTATCACAT
1 CTTATCACATATATACACT-TTCACATTC-ATCACAT
30727425 AGAATCCTAA
Statistics
Matches: 163, Mismatches: 11, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
46 3 0.02
47 114 0.70
49 46 0.28
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:30727395 original size:96 final size:94
Alignment explanation
Indices: 30727200--30727424 Score: 319
Period size: 96 Copynumber: 2.4 Consensus size: 94
30727190 CCCTTCGAGA
* * * * *
30727200 CTTATCACATTTATACACTTTCACATCCATCACGTCGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCACATATATACAC
30727265 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
* *
30727294 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATGTATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCACA--TATATAC
30727359 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
30727390 CTTATCTCATATATGCA-TGTTCACA-TCTATCACAT
1 CTTATCACATATATACACT-TTCACATTC-ATCACAT
30727425 AGAATCCTAA
Statistics
Matches: 118, Mismatches: 9, Indels: 6
0.89 0.07 0.05
Matches are distributed among these distances:
94 49 0.42
95 3 0.03
96 66 0.56
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:30731332 original size:57 final size:58
Alignment explanation
Indices: 30731257--30731374 Score: 157
Period size: 57 Copynumber: 2.1 Consensus size: 58
30731247 CATTTTCAAA
* * *
30731257 TCATTTTCATTTTCGAGAAAACCACATTCATTTTCAAATGATT-CTATTTCTCTATTT
1 TCATTTTCATTTTCGAGAAAACCACAATAATTTTCAAATGATTCCTATTTCTCCATTT
* * * * *
30731314 TCATTTTTATTTTGGAGAAAACCATAATAATTTTCAAGTGTTTCCTATTTCTCCATTT
1 TCATTTTCATTTTCGAGAAAACCACAATAATTTTCAAATGATTCCTATTTCTCCATTT
30731372 TCA
1 TCA
30731375 CCATCTCTAT
Statistics
Matches: 52, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
57 36 0.69
58 16 0.31
ACGTcount: A:0.28, C:0.18, G:0.07, T:0.47
Consensus pattern (58 bp):
TCATTTTCATTTTCGAGAAAACCACAATAATTTTCAAATGATTCCTATTTCTCCATTT
Found at i:30733494 original size:9 final size:9
Alignment explanation
Indices: 30733480--30733510 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
30733470 GTTAAACGAA
30733480 TCGAGTTAT
1 TCGAGTTAT
*
30733489 TCGAGTTAA
1 TCGAGTTAT
30733498 TCGAGTTAT
1 TCGAGTTAT
30733507 TCGA
1 TCGA
30733511 ATCAACTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:30733579 original size:9 final size:9
Alignment explanation
Indices: 30733562--30733598 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
30733552 TGAGTTTTCG
30733562 AATTCGAAT
1 AATTCGAAT
*
30733571 AACTCGAAT
1 AATTCGAAT
30733580 AATTCGAAT
1 AATTCGAAT
30733589 AATTCGAAT
1 AATTCGAAT
30733598 A
1 A
30733599 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:30733681 original size:30 final size:31
Alignment explanation
Indices: 30733647--30733707 Score: 99
Period size: 30 Copynumber: 2.0 Consensus size: 31
30733637 AAACTTTTTT
30733647 ACTTT-TCCCTCAAAACTTTTACTCCT-TCCC
1 ACTTTCTCCC-CAAAACTTTTACTCCTCTCCC
30733677 ACTTTCTCCCCAAAACTTTTACTCCTCTCCC
1 ACTTTCTCCCCAAAACTTTTACTCCTCTCCC
30733708 CTCCCAACCC
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
30 21 0.72
31 8 0.28
ACGTcount: A:0.20, C:0.43, G:0.00, T:0.38
Consensus pattern (31 bp):
ACTTTCTCCCCAAAACTTTTACTCCTCTCCC
Found at i:30735975 original size:42 final size:42
Alignment explanation
Indices: 30735912--30736022 Score: 123
Period size: 42 Copynumber: 2.6 Consensus size: 42
30735902 CAAGTTTATA
* * *
30735912 CTTCGATTTATCCGATTATGCACTTACATGACAATATATTTG
1 CTTCGGTTTATCTGATAATGCACTTACATGACAATATATTTG
* * * *
30735954 CTTCGGTTTATCTGATGATGCACTTACGTGCCAGTATATTTG
1 CTTCGGTTTATCTGATAATGCACTTACATGACAATATATTTG
* ** *
30735996 TTTCGGTACATCTGATAAGGCACTTAC
1 CTTCGGTTTATCTGATAATGCACTTAC
30736023 GTGCCGGTAT
Statistics
Matches: 58, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 58 1.00
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.39
Consensus pattern (42 bp):
CTTCGGTTTATCTGATAATGCACTTACATGACAATATATTTG
Found at i:30736023 original size:42 final size:42
Alignment explanation
Indices: 30735931--30736040 Score: 123
Period size: 42 Copynumber: 2.6 Consensus size: 42
30735921 ATCCGATTAT
* * * ** * *
30735931 GCACTTACATGACAATATATTTGCTTCGGTTTATCTGATGAT
1 GCACTTACGTGCCAGTATATTTGCTTCGGTACATCTGATAAG
*
30735973 GCACTTACGTGCCAGTATATTTGTTTCGGTACATCTGATAAG
1 GCACTTACGTGCCAGTATATTTGCTTCGGTACATCTGATAAG
*
30736015 GCACTTACGTGCCGGTATGA-TTGCTT
1 GCACTTACGTGCCAGTAT-ATTTGCTT
30736041 AAGTTTATTT
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
42 56 0.98
43 1 0.02
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.37
Consensus pattern (42 bp):
GCACTTACGTGCCAGTATATTTGCTTCGGTACATCTGATAAG
Found at i:30745170 original size:19 final size:19
Alignment explanation
Indices: 30745146--30745183 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
30745136 CACACATAGT
*
30745146 CTGTTTTGAAAGTATAAAC
1 CTGTTTTAAAAGTATAAAC
30745165 CTGTTTTAAAAGTATAAAC
1 CTGTTTTAAAAGTATAAAC
30745184 TATCGTTGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (19 bp):
CTGTTTTAAAAGTATAAAC
Found at i:30752326 original size:106 final size:105
Alignment explanation
Indices: 30752135--30752329 Score: 264
Period size: 106 Copynumber: 1.8 Consensus size: 105
30752125 GATACAAGGT
*
30752135 TCCCGATTGGTTGTGATCCTGCATGTGTTGTGGACACACCACAACTCTGATGAGCATCCCAATAT
1 TCCCGATTGGTTGTGATCCTACATGTGTTGTGGACACACCACAACTCTGATGAGCATCCCAATAT
* * *
30752200 TTGGCTCTTATAAGCTTCCCGTTAATAGCTCTTTGGAGCA
66 ATGGCTCTCAGAAGCTTCCCGTTAATAGCTCTTTGGAGCA
** * * * * *
30752240 TCCCGATTTGGTTGTGATCCTACATGTGTTGTGGACACACCGTAGCTTTTATGAGCGTCCCGATA
1 TCCCGA-TTGGTTGTGATCCTACATGTGTTGTGGACACACCACAACTCTGATGAGCATCCCAATA
* *
30752305 TATGGCTCTCCGGAGCTTCCCGTTA
65 TATGGCTCTCAGAAGCTTCCCGTTA
30752330 TATGGTTCTT
Statistics
Matches: 76, Mismatches: 13, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
105 6 0.08
106 70 0.92
ACGTcount: A:0.19, C:0.25, G:0.23, T:0.33
Consensus pattern (105 bp):
TCCCGATTGGTTGTGATCCTACATGTGTTGTGGACACACCACAACTCTGATGAGCATCCCAATAT
ATGGCTCTCAGAAGCTTCCCGTTAATAGCTCTTTGGAGCA
Found at i:30752386 original size:25 final size:25
Alignment explanation
Indices: 30752317--30752502 Score: 111
Period size: 25 Copynumber: 7.6 Consensus size: 25
30752307 TGGCTCTCCG
* * *
30752317 GAGCTTCCCG-TTATATGGTTCTTAC
1 GAGCTTCCCGATAAT-TGGATCTTAT
* *
30752342 GAGCTT-CCTATTA-TGGATCTTAT
1 GAGCTTCCCGATAATTGGATCTTAT
*
30752365 GAGCTTTCCGATAATTGGATCTT-T
1 GAGCTTCCCGATAATTGGATCTTAT
* * * *
30752389 GGTGTTTCCCGATAACTGGCTCTTAT
1 -GAGCTTCCCGATAATTGGATCTTAT
* * *
30752415 GAGCTTCTCGATTAA-TAGCTCTCTA-
1 GAGCTTCCCGA-TAATTGGATCT-TAT
30752440 GAGCTTCCCGAT-ATTGGATCGTT-T
1 GAGCTTCCCGATAATTGGATC-TTAT
* * *
30752464 GAACTTCCCGAT-ATTGGCTCGTAT
1 GAGCTTCCCGATAATTGGATCTTAT
*
30752488 GAGCTTCCCGTTAAT
1 GAGCTTCCCGATAAT
30752503 GGCTCTCCGG
Statistics
Matches: 127, Mismatches: 22, Indels: 24
0.73 0.13 0.14
Matches are distributed among these distances:
23 16 0.13
24 43 0.34
25 62 0.49
26 6 0.05
ACGTcount: A:0.19, C:0.22, G:0.20, T:0.38
Consensus pattern (25 bp):
GAGCTTCCCGATAATTGGATCTTAT
Found at i:30752505 original size:24 final size:24
Alignment explanation
Indices: 30752394--30752558 Score: 91
Period size: 24 Copynumber: 6.7 Consensus size: 24
30752384 TCTTTGGTGT
* *
30752394 TTCCCGATAACTGGCTCTTATGAGC
1 TTCCCGTTAA-TGGCTCGTATGAGC
* * *
30752419 TTCTCGATTAATAGCTC-TCTAGAGC
1 TTCCCG-TTAATGGCTCGTAT-GAGC
* * * * *
30752444 TTCCCGATATTGGATCGTTTGAAC
1 TTCCCGTTAATGGCTCGTATGAGC
* *
30752468 TTCCCGATATTGGCTCGTATGAGC
1 TTCCCGTTAATGGCTCGTATGAGC
**
30752492 TTCCCGTTAATGGCTC-TCCGGAGC
1 TTCCCGTTAATGGCTCGT-ATGAGC
* * **
30752516 TTCCTGTTACATGGATCACATGAGC
1 TTCCCGTTA-ATGGCTCGTATGAGC
*
30752541 TTCCTGTTATATGGCTCG
1 TTCCCGTTA-ATGGCTCG
30752559 AAATAGCTTC
Statistics
Matches: 108, Mismatches: 26, Indels: 12
0.74 0.18 0.08
Matches are distributed among these distances:
23 1 0.01
24 58 0.54
25 46 0.43
26 3 0.03
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (24 bp):
TTCCCGTTAATGGCTCGTATGAGC
Found at i:30752540 original size:25 final size:24
Alignment explanation
Indices: 30752486--30752554 Score: 75
Period size: 25 Copynumber: 2.8 Consensus size: 24
30752476 ATTGGCTCGT
* * *
30752486 ATGAGCTTCCCGTTAATGGCTCTC
1 ATGAGCTTCCTGTTAATGGATCAC
**
30752510 CGGAGCTTCCTGTTACATGGATCAC
1 ATGAGCTTCCTGTTA-ATGGATCAC
30752535 ATGAGCTTCCTGTTATATGG
1 ATGAGCTTCCTGTTA-ATGG
30752555 CTCGAAATAG
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
24 12 0.33
25 24 0.67
ACGTcount: A:0.19, C:0.25, G:0.23, T:0.33
Consensus pattern (24 bp):
ATGAGCTTCCTGTTAATGGATCAC
Found at i:30752544 original size:73 final size:73
Alignment explanation
Indices: 30752394--30752558 Score: 161
Period size: 73 Copynumber: 2.2 Consensus size: 73
30752384 TCTTTGGTGT
* * * * *
30752394 TTCCCGATAACTGGCTCTTATGAGCTTCTCGATTAATAGCTCTCTAGAGCTTCCCGATATTGGAT
1 TTCCCGAT-ATTGGCTCGTATGAGCTTCCCGATTAATAGCTCTCCAGAGCTTCCCGATAATGGAT
***
30752459 CGTTTGAAC
65 CACATGAAC
* * * *
30752468 TTCCCGATATTGGCTCGTATGAGCTTCCCG-TTAATGGCTCTCCGGAGCTTCCTGTTACATGGAT
1 TTCCCGATATTGGCTCGTATGAGCTTCCCGATTAATAGCTCTCCAGAGCTTCCCGATA-ATGGAT
*
30752532 CACATGAGC
65 CACATGAAC
* *
30752541 TTCCTGTTATATGGCTCG
1 TTCCCGATAT-TGGCTCG
30752559 AAATAGCTTC
Statistics
Matches: 74, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
72 22 0.30
73 37 0.50
74 15 0.20
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (73 bp):
TTCCCGATATTGGCTCGTATGAGCTTCCCGATTAATAGCTCTCCAGAGCTTCCCGATAATGGATC
ACATGAAC
Found at i:30752566 original size:25 final size:25
Alignment explanation
Indices: 30752512--30752579 Score: 75
Period size: 25 Copynumber: 2.7 Consensus size: 25
30752502 TGGCTCTCCG
*
30752512 GAGCTTCCTGTTACATGGATCACAT
1 GAGCTTCCTGTTACATGGATCAAAT
* *
30752537 GAGCTTCCTGTTATATGGCTCGAAAT
1 GAGCTTCCTGTTACATGGATC-AAAT
*
30752563 -AGCTTCTTGTTTACATG
1 GAGCTTCCTG-TTACATG
30752580 TTTTCAAGAG
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
25 27 0.75
26 9 0.25
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.37
Consensus pattern (25 bp):
GAGCTTCCTGTTACATGGATCAAAT
Found at i:30755506 original size:39 final size:40
Alignment explanation
Indices: 30755405--30755628 Score: 264
Period size: 40 Copynumber: 5.7 Consensus size: 40
30755395 TTGAATGATG
* *
30755405 TCCGGGCTAAGTCCCGAAGGC-TTTATGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
30755444 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
30755485 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
30755524 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTATTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
30755563 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
30755602 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
30755629 AACGAGGAGC
Statistics
Matches: 164, Mismatches: 13, Indels: 14
0.86 0.07 0.07
Matches are distributed among these distances:
39 74 0.45
40 77 0.47
41 12 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:30755580 original size:79 final size:81
Alignment explanation
Indices: 30755405--30755628 Score: 273
Period size: 79 Copynumber: 2.8 Consensus size: 81
30755395 TTGAATGATG
* * * *
30755405 TCCGGGCTAAGTCCCGAAGGC-TTTATGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATATCCGGGCTAAGACCCGAAGGCA
*
30755467 TTTGTGCGAGATACTAAT
64 TTTGTGCGAGATACTAAA
30755485 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT-TCCGGGCTAAG-CCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
* *
30755547 TGTGCGAGTTATTAAA
66 TGTGCGAGATACTAAA
* * * * *
30755563 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
30755627 TG
66 TG
30755629 AACGAGGAGC
Statistics
Matches: 127, Mismatches: 11, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
78 36 0.28
79 54 0.43
80 36 0.28
81 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:30755650 original size:79 final size:79
Alignment explanation
Indices: 30755405--30755661 Score: 215
Period size: 79 Copynumber: 3.3 Consensus size: 79
30755395 TTGAATGATG
* * * * *
30755405 TCCGGGCTAAGTCCCGAAGGC-TTTATGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
** *
30755467 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* *
30755485 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** * *
30755549 TGCGAGTTATTAAA
66 AACGAGTGACTAAA
* *
30755563 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATT
*
30755627 TGAACGAG-GAGCTATA
64 TGAACGAGTGA-CTAAA
* *
30755643 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
30755662 TACGTGATTT
Statistics
Matches: 151, Mismatches: 18, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
77 1 0.01
78 35 0.23
79 68 0.45
80 46 0.30
81 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:30767115 original size:70 final size:70
Alignment explanation
Indices: 30767002--30767140 Score: 242
Period size: 70 Copynumber: 2.0 Consensus size: 70
30766992 CTTTCCCCTA
30767002 ATTCAAGTCCGGTTGATTCTTTTCTTGATCTAAATAGTAATTTAACTCAATTAAGTATTCCAAAT
1 ATTCAAGTCCGGTTGATTCTTTTCTTGATCTAAATAGTAATTTAACTCAATTAAGTATTCCAAAT
30767067 AGTCG
66 AGTCG
** * *
30767072 ATTCAAGTTTGGTTGATTCTTTTCTTGATCTAAATAGTAATTTAGCTTAATTAAGTATTCCAAAT
1 ATTCAAGTCCGGTTGATTCTTTTCTTGATCTAAATAGTAATTTAACTCAATTAAGTATTCCAAAT
30767137 AGTC
66 AGTC
30767141 AAAAATCATT
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
70 65 1.00
ACGTcount: A:0.31, C:0.14, G:0.13, T:0.42
Consensus pattern (70 bp):
ATTCAAGTCCGGTTGATTCTTTTCTTGATCTAAATAGTAATTTAACTCAATTAAGTATTCCAAAT
AGTCG
Found at i:30771628 original size:3 final size:3
Alignment explanation
Indices: 30771620--30771666 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
30771610 ATTAACCTAA
30771620 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
30771667 AAGTTGGAAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:30774263 original size:2 final size:2
Alignment explanation
Indices: 30774256--30774284 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
30774246 GTCATAATAT
30774256 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
30774285 TTATATGTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:30780821 original size:24 final size:25
Alignment explanation
Indices: 30780760--30780872 Score: 111
Period size: 25 Copynumber: 4.6 Consensus size: 25
30780750 ATGAGCTGTA
*
30780760 AACGGTAAGCTCCTCCGAGCTAAAT
1 AACGGTAAGCTCATCCGAGCTAAAT
* *
30780785 AACAGTAAGCTCATCTGAGCTAAAT
1 AACGGTAAGCTCATCCGAGCTAAAT
* * * *
30780810 AA-GGTAAGCTCATACGAGTTGAGT
1 AACGGTAAGCTCATCCGAGCTAAAT
* * * *
30780834 AATGGTAAGCTCATACGAGCTGAGT
1 AACGGTAAGCTCATCCGAGCTAAAT
*
30780859 ATCGGTAAGCTCAT
1 AACGGTAAGCTCAT
30780873 AATAGTTGAA
Statistics
Matches: 75, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
24 18 0.24
25 57 0.76
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.24
Consensus pattern (25 bp):
AACGGTAAGCTCATCCGAGCTAAAT
Found at i:30781032 original size:19 final size:22
Alignment explanation
Indices: 30780999--30781049 Score: 63
Period size: 20 Copynumber: 2.4 Consensus size: 22
30780989 TGATGATTAC
*
30780999 ACAATTCACAAACATA-TAAT-T
1 ACAATTTA-AAACATATTAATGT
30781020 -CAATTTAAAACATATTAATGT
1 ACAATTTAAAACATATTAATGT
30781041 ACAATTTAA
1 ACAATTTAA
30781050 TTACATGAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 7 0.27
20 10 0.38
21 1 0.04
22 8 0.31
ACGTcount: A:0.51, C:0.14, G:0.02, T:0.33
Consensus pattern (22 bp):
ACAATTTAAAACATATTAATGT
Found at i:30781048 original size:22 final size:20
Alignment explanation
Indices: 30781008--30781049 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 20
30780998 CACAATTCAC
30781008 AAACATATAATT-CAATTTA
1 AAACATATAATTACAATTTA
30781027 AAACATATTAATGTACAATTTA
1 AAACATA-TAAT-TACAATTTA
30781049 A
1 A
30781050 TTACATGAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.35
20 4 0.20
21 1 0.05
22 8 0.40
ACGTcount: A:0.52, C:0.10, G:0.02, T:0.36
Consensus pattern (20 bp):
AAACATATAATTACAATTTA
Found at i:30783316 original size:27 final size:27
Alignment explanation
Indices: 30783276--30783703 Score: 446
Period size: 27 Copynumber: 15.9 Consensus size: 27
30783266 ATCTGCACCA
30783276 AAATA-CCCTCATAGGGTAAAATGACCG
1 AAATACCCCT-ATAGGGTAAAATGACCG
*
30783303 AAATACCCCTATAGGATAAAATGACCG
1 AAATACCCCTATAGGGTAAAATGACCG
*
30783330 AAATA-CCCTCATAGGGTAAAATAACCG
1 AAATACCCCT-ATAGGGTAAAATGACCG
* *
30783357 AAATA-CCCTATAGGTTAAAATGACTG
1 AAATACCCCTATAGGGTAAAATGACCG
*
30783383 AATTA-CCCTCATAGGGTAAAATGACCG
1 AAATACCCCT-ATAGGGTAAAATGACCG
* * *
30783410 AATTACCCCCATAGGGTAAAATGATCG
1 AAATACCCCTATAGGGTAAAATGACCG
* * * *
30783437 AATTACCCCCATAAGGTAAAATGATC-
1 AAATACCCCTATAGGGTAAAATGACCG
* *
30783463 AAATTACCCCTATAGGGTAAAATAATCG
1 AAA-TACCCCTATAGGGTAAAATGACCG
* ***
30783491 AAATACCCCCATAAAATAAAATGACCG
1 AAATACCCCTATAGGGTAAAATGACCG
* *
30783518 AAATACCCCCATAGGGTAAAATGATCG
1 AAATACCCCTATAGGGTAAAATGACCG
30783545 AAATA-CCCTCATAGGGTAAAATGACC-
1 AAATACCCCT-ATAGGGTAAAATGACCG
30783571 AAATTA-CCCTCATAGGGT-AAATGACCG
1 AAA-TACCCCT-ATAGGGTAAAATGACCG
* *
30783598 AATTACCTCC-ATAAGGTAAAATGACCG
1 AAATACC-CCTATAGGGTAAAATGACCG
* * * * *
30783625 AATTACCCCCATAAGGTGAAATAACCG
1 AAATACCCCTATAGGGTAAAATGACCG
*
30783652 AAATACCCCTATAGGGTAAAATGATCG
1 AAATACCCCTATAGGGTAAAATGACCG
30783679 AAATACCTCC-ATAGGGTAAAATGAC
1 AAATACC-CCTATAGGGTAAAATGAC
30783704 TGTTAAACCC
Statistics
Matches: 348, Mismatches: 39, Indels: 28
0.84 0.09 0.07
Matches are distributed among these distances:
26 52 0.15
27 282 0.81
28 14 0.04
ACGTcount: A:0.42, C:0.22, G:0.16, T:0.21
Consensus pattern (27 bp):
AAATACCCCTATAGGGTAAAATGACCG
Found at i:30783358 original size:54 final size:54
Alignment explanation
Indices: 30783276--30783703 Score: 494
Period size: 54 Copynumber: 8.0 Consensus size: 54
30783266 ATCTGCACCA
*
30783276 AAATACCCTCATAGGGTAAAATGACCGAAATACCCCTATAGGATAAAATGACCG
1 AAATACCCTCATAGGGTAAAATGACCGAAATACCCCTATAGGGTAAAATGACCG
* * *
30783330 AAATACCCTCATAGGGTAAAATAACCGAAATA-CCCTATAGGTTAAAATGACTG
1 AAATACCCTCATAGGGTAAAATGACCGAAATACCCCTATAGGGTAAAATGACCG
* * * *
30783383 AATTACCCTCATAGGGTAAAATGACCGAATTACCCCCATAGGGTAAAATGATCG
1 AAATACCCTCATAGGGTAAAATGACCGAAATACCCCTATAGGGTAAAATGACCG
* * * * * *
30783437 AATTACCCCCATAAGGTAAAATGATC-AAATTACCCCTATAGGGTAAAATAATCG
1 AAATACCCTCATAGGGTAAAATGACCGAAA-TACCCCTATAGGGTAAAATGACCG
* *** * *
30783491 AAATACCCCCATAAAATAAAATGACCGAAATACCCCCATAGGGTAAAATGATCG
1 AAATACCCTCATAGGGTAAAATGACCGAAATACCCCTATAGGGTAAAATGACCG
30783545 AAATACCCTCATAGGGTAAAATGACC-AAATTA-CCCTCATAGGGT-AAATGACCG
1 AAATACCCTCATAGGGTAAAATGACCGAAA-TACCCCT-ATAGGGTAAAATGACCG
* * * * * * *
30783598 AATTA-CCTCCATAAGGTAAAATGACCGAATTACCCCCATAAGGTGAAATAACCG
1 AAATACCCT-CATAGGGTAAAATGACCGAAATACCCCTATAGGGTAAAATGACCG
*
30783652 AAATACCC-CTATAGGGTAAAATGATCGAAATACCTCC-ATAGGGTAAAATGAC
1 AAATACCCTC-ATAGGGTAAAATGACCGAAATACC-CCTATAGGGTAAAATGAC
30783704 TGTTAAACCC
Statistics
Matches: 321, Mismatches: 41, Indels: 24
0.83 0.11 0.06
Matches are distributed among these distances:
52 3 0.01
53 93 0.29
54 218 0.68
55 7 0.02
ACGTcount: A:0.42, C:0.22, G:0.16, T:0.21
Consensus pattern (54 bp):
AAATACCCTCATAGGGTAAAATGACCGAAATACCCCTATAGGGTAAAATGACCG
Found at i:30783701 original size:188 final size:186
Alignment explanation
Indices: 30783276--30783703 Score: 626
Period size: 188 Copynumber: 2.3 Consensus size: 186
30783266 ATCTGCACCA
* *
30783276 AAATA-CCCTCATAGGGTAAAATGACCGAAATACCCCTATAGGATAAAATGACCGAAATACCCTC
1 AAATACCCCT-ATAGGGTAAAATGATCGAAATACCCC-ATAGGATAAAATGACCGAAATACCCCC
* **
30783340 ATAGGGTAAAATAACCGAAATACCCTATAGGTTAAAATGACTGAATTACCCTCATAGGGTAAAAT
64 ATAGGGTAAAATAACCGAAATACCCTATAGGGTAAAATGACCAAATTACCCTCATAGGGTAAAAT
* * * *
30783405 GACCGAATTACCCCCATAGGGTAAAATGATCGAATTACCCCCATAAGGTAAAATGATC
129 GACCGAATTACCCCCATAAGGTAAAATGACCGAATTACCCCCATAAGGTAAAATAACC
* **
30783463 AAATTACCCCTATAGGGTAAAATAATCGAAATACCCCCATAAAATAAAATGACCGAAATACCCCC
1 AAA-TACCCCTATAGGGTAAAATGATCGAAATA-CCCCATAGGATAAAATGACCGAAATACCCCC
* *
30783528 ATAGGGTAAAATGATCGAAATACCCTCATAGGGTAAAATGACCAAATTACCCTCATAGGGT-AAA
64 ATAGGGTAAAATAACCGAAATACCCT-ATAGGGTAAAATGACCAAATTACCCTCATAGGGTAAAA
* *
30783592 TGACCGAATTACCTCCATAAGGTAAAATGACCGAATTACCCCCATAAGGTGAAATAACC
128 TGACCGAATTACCCCCATAAGGTAAAATGACCGAATTACCCCCATAAGGTAAAATAACC
*
30783651 GAAATACCCCTATAGGGTAAAATGATCGAAATACCTCCATAGGGTAAAATGAC
1 -AAATACCCCTATAGGGTAAAATGATCGAAATACC-CCATAGGATAAAATGAC
30783704 TGTTAAACCC
Statistics
Matches: 215, Mismatches: 20, Indels: 11
0.87 0.08 0.04
Matches are distributed among these distances:
187 5 0.02
188 168 0.78
189 42 0.20
ACGTcount: A:0.42, C:0.22, G:0.16, T:0.21
Consensus pattern (186 bp):
AAATACCCCTATAGGGTAAAATGATCGAAATACCCCATAGGATAAAATGACCGAAATACCCCCAT
AGGGTAAAATAACCGAAATACCCTATAGGGTAAAATGACCAAATTACCCTCATAGGGTAAAATGA
CCGAATTACCCCCATAAGGTAAAATGACCGAATTACCCCCATAAGGTAAAATAACC
Found at i:30784108 original size:28 final size:28
Alignment explanation
Indices: 30784068--30784156 Score: 153
Period size: 28 Copynumber: 3.2 Consensus size: 28
30784058 ACTATACCGA
30784068 TACTGTATTGGGCTAAGGCCCACATTGT
1 TACTGTATTGGGCTAAGGCCCACATTGT
30784096 TACTGTATTGGGCTAAGGCCCACATTGT
1 TACTGTATTGGGCTAAGGCCCACATTGT
* *
30784124 TACTGTATTGGGCTAAGGTCCACACTG-
1 TACTGTATTGGGCTAAGGCCCACATTGT
30784151 TACTGT
1 TACTGT
30784157 TACTGAATAG
Statistics
Matches: 59, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
27 6 0.10
28 53 0.90
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.33
Consensus pattern (28 bp):
TACTGTATTGGGCTAAGGCCCACATTGT
Found at i:30784170 original size:33 final size:33
Alignment explanation
Indices: 30784093--30784184 Score: 86
Period size: 28 Copynumber: 2.9 Consensus size: 33
30784083 AGGCCCACAT
* *
30784093 TGTTACTGTATTGGGCTAAGGCCCACA---T--
1 TGTTACTGAATAGGGCTAAGGCCCACACTGTAC
* * *
30784121 TGTTACTGTATTGGGCTAAGGTCCACACTGTAC
1 TGTTACTGAATAGGGCTAAGGCCCACACTGTAC
* *
30784154 TGTTACTGAATAGGGCTCAGGCCCAGACTGT
1 TGTTACTGAATAGGGCTAAGGCCCACACTGT
30784185 CACTACTTGT
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
28 26 0.49
31 1 0.02
33 26 0.49
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (33 bp):
TGTTACTGAATAGGGCTAAGGCCCACACTGTAC
Found at i:30786488 original size:18 final size:19
Alignment explanation
Indices: 30786465--30786500 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
30786455 TATGTATGAA
30786465 ATATGTTT-GAATTAATTT
1 ATATGTTTAGAATTAATTT
*
30786483 ATATGTTTAGATTTAATT
1 ATATGTTTAGAATTAATT
30786501 AAGATTTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.33, C:0.00, G:0.11, T:0.56
Consensus pattern (19 bp):
ATATGTTTAGAATTAATTT
Found at i:30788897 original size:24 final size:24
Alignment explanation
Indices: 30788886--30788935 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
30788876 ATTTTGTCCC
30788886 TATCTCAATATTCAATTTCAACCA
1 TATCTCAATATTCAATTTCAACCA
30788910 TATCTCAATATTCAATTTCAACCA
1 TATCTCAATATTCAATTTCAACCA
30788934 TA
1 TA
30788936 CCATTTGAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.38, C:0.24, G:0.00, T:0.38
Consensus pattern (24 bp):
TATCTCAATATTCAATTTCAACCA
Found at i:30799366 original size:45 final size:45
Alignment explanation
Indices: 30799278--30799393 Score: 128
Period size: 45 Copynumber: 2.6 Consensus size: 45
30799268 CTACGCGTAC
*
30799278 CGGGTACCATTGATTATAAAGGTGGTTGTTGTGTGCTATTTCCAT
1 CGGGTACCATTGATTATAAAGGTGGTTGTTATGTGCTATTTCCAT
* * *
30799323 CGGGTACTATTGATTATGAAGGTGGTT-TCTATGTGCTGA-TTCCAC
1 CGGGTACCATTGATTATAAAGGTGGTTGT-TATGTGCT-ATTTCCAT
* * * *
30799368 CGAGTATCATTGACTATAAGGGTGGT
1 CGGGTACCATTGATTATAAAGGTGGT
30799394 GCTATGTTCT
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
44 1 0.02
45 57 0.97
46 1 0.02
ACGTcount: A:0.22, C:0.14, G:0.28, T:0.37
Consensus pattern (45 bp):
CGGGTACCATTGATTATAAAGGTGGTTGTTATGTGCTATTTCCAT
Found at i:30801770 original size:21 final size:21
Alignment explanation
Indices: 30801746--30801787 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
30801736 TTTATCAAGA
30801746 TAAATATTA-TAAATTTAATAC
1 TAAATATTATTAAA-TTAATAC
*
30801767 TAAATCTTATTAAATTAATAC
1 TAAATATTATTAAATTAATAC
30801788 AATATTTATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (21 bp):
TAAATATTATTAAATTAATAC
Found at i:30802892 original size:50 final size:47
Alignment explanation
Indices: 30802833--30803019 Score: 239
Period size: 50 Copynumber: 3.9 Consensus size: 47
30802823 GGCAGTGAGT
*
30802833 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCACAGATTGAGGA
1 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-GA--GAGGA
* *
30802883 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCACGGACAGAGGA
1 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-G--AGAGGA
* * * * *
30802933 GAGTCAGTGTAAGACCATGTCTAGGACATGGCATCGGCTCGAGATGA
1 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGAGAGGA
*
30802980 GTGCCAGTGTAAGACCTTGTCTGGGACATGGCATCGGCAC
1 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC
30803020 CGATATGTGA
Statistics
Matches: 119, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
47 40 0.34
49 1 0.01
50 77 0.65
52 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.33, T:0.21
Consensus pattern (47 bp):
GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGAGAGGA
Found at i:30803013 original size:97 final size:99
Alignment explanation
Indices: 30802837--30803019 Score: 280
Period size: 97 Copynumber: 1.9 Consensus size: 99
30802827 GTGAGTGTGC
* *
30802837 CAGTGTAAGACCATGTCTGGGACATGGCATCAGCACAGATTGAGGAGTGCTAGTGTAAGACCATG
1 CAGTGTAAGACCATGTCTAGGACATGGCATCAGCACAGA-TGAGGAGTGCCAGTGTAAGACCATG
*
30802902 TCTGGGACATGGCATTGGCACGGACAGAGGAGAGT
65 TCTGGGACATGGCATCGGCACGGACAGAGGAGAGT
* * * *
30802937 CAGTGTAAGACCATGTCTAGGACATGGCATCGGCTC-GA-GATGAGTGCCAGTGTAAGACCTTGT
1 CAGTGTAAGACCATGTCTAGGACATGGCATCAGCACAGATGAGGAGTGCCAGTGTAAGACCATGT
30803000 CTGGGACATGGCATCGGCAC
66 CTGGGACATGGCATCGGCAC
30803020 CGATATGTGA
Statistics
Matches: 76, Mismatches: 7, Indels: 3
0.88 0.08 0.03
Matches are distributed among these distances:
97 41 0.54
99 2 0.03
100 33 0.43
ACGTcount: A:0.26, C:0.20, G:0.33, T:0.21
Consensus pattern (99 bp):
CAGTGTAAGACCATGTCTAGGACATGGCATCAGCACAGATGAGGAGTGCCAGTGTAAGACCATGT
CTGGGACATGGCATCGGCACGGACAGAGGAGAGT
Found at i:30808572 original size:19 final size:19
Alignment explanation
Indices: 30808548--30808586 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
30808538 TTCAACAAAA
30808548 CTAAATCACAAAATAATTG
1 CTAAATCACAAAATAATTG
30808567 CTAAATCACAAAATAATTG
1 CTAAATCACAAAATAATTG
30808586 C
1 C
30808587 AACTCTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.51, C:0.18, G:0.05, T:0.26
Consensus pattern (19 bp):
CTAAATCACAAAATAATTG
Found at i:30814571 original size:37 final size:37
Alignment explanation
Indices: 30814519--30814599 Score: 126
Period size: 37 Copynumber: 2.2 Consensus size: 37
30814509 CCCTGTCTAG
* *
30814519 CCCTACACTCTTGTGGGGATTAAATCGATCCACCCAT
1 CCCTACACTCCTGTGGGGATTAAATCGACCCACCCAT
*
30814556 CCCTACACTCCTGTGGGGATTAGATCGACCCACCCAT
1 CCCTACACTCCTGTGGGGATTAAATCGACCCACCCAT
*
30814593 ACCTACA
1 CCCTACA
30814600 TGCGGCACTA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.25, C:0.36, G:0.16, T:0.23
Consensus pattern (37 bp):
CCCTACACTCCTGTGGGGATTAAATCGACCCACCCAT
Found at i:30814816 original size:26 final size:27
Alignment explanation
Indices: 30814781--30814833 Score: 90
Period size: 26 Copynumber: 2.0 Consensus size: 27
30814771 ACCATAGCAC
30814781 AAATCAGTCATTTACCCTCGAGGGGCA
1 AAATCAGTCATTTACCCTCGAGGGGCA
*
30814808 AAAT-AGTCATTTACCCTCTAGGGGCA
1 AAATCAGTCATTTACCCTCGAGGGGCA
30814834 TTACGGTCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 21 0.84
27 4 0.16
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.25
Consensus pattern (27 bp):
AAATCAGTCATTTACCCTCGAGGGGCA
Found at i:30816900 original size:24 final size:23
Alignment explanation
Indices: 30816854--30816902 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 23
30816844 AATAAAAAGG
**
30816854 ATATTTATACTAACAAATGCTAA
1 ATATTTATACTAACAAAAACTAA
*
30816877 ATATATTATACTAATAAAAACTAA
1 ATAT-TTATACTAACAAAAACTAA
30816901 AT
1 AT
30816903 CTTCTAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.53, C:0.10, G:0.02, T:0.35
Consensus pattern (23 bp):
ATATTTATACTAACAAAAACTAA
Found at i:30821156 original size:25 final size:24
Alignment explanation
Indices: 30821128--30821176 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
30821118 AATAACAAGG
* *
30821128 ATAT-TTATTCTAATAAATGCTAA
1 ATATATTATACTAATAAAAGCTAA
*
30821151 ATATATTATACTTATAAAAGCTAA
1 ATATATTATACTAATAAAAGCTAA
30821175 AT
1 AT
30821177 CTTCTAGACG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.47, C:0.08, G:0.04, T:0.41
Consensus pattern (24 bp):
ATATATTATACTAATAAAAGCTAA
Found at i:30821513 original size:22 final size:22
Alignment explanation
Indices: 30821488--30821536 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
30821478 TTTCATGGTA
30821488 TTATTCAATTAGGCAATGGATT
1 TTATTCAATTAGGCAATGGATT
30821510 TTATTCAATTAGGCAATGGATT
1 TTATTCAATTAGGCAATGGATT
30821532 TTATT
1 TTATT
30821537 GTTGATTCTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.31, C:0.08, G:0.16, T:0.45
Consensus pattern (22 bp):
TTATTCAATTAGGCAATGGATT
Found at i:30833139 original size:17 final size:17
Alignment explanation
Indices: 30833117--30833149 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
30833107 GTTAGTGCAC
*
30833117 ATTGTCATTGCATTTTT
1 ATTGTCATTACATTTTT
30833134 ATTGTCATTACATTTT
1 ATTGTCATTACATTTT
30833150 ACTGTTAGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.58
Consensus pattern (17 bp):
ATTGTCATTACATTTTT
Found at i:30844377 original size:10 final size:9
Alignment explanation
Indices: 30844307--30844385 Score: 56
Period size: 9 Copynumber: 8.7 Consensus size: 9
30844297 CTTCCCTATT
30844307 TTTATTTTA
1 TTTATTTTA
30844316 TTTA-TTTA
1 TTTATTTTA
*
30844324 GTTA-TTTA
1 TTTATTTTA
* * *
30844332 ATTAATTAA
1 TTTATTTTA
30844341 TTTATTTCT-
1 TTTATTT-TA
*
30844350 TTTATTCTA
1 TTTATTTTA
30844359 GCTTTATTTTA
1 --TTTATTTTA
30844370 TATTATTTTA
1 T-TTATTTTA
30844380 TTTATT
1 TTTATT
30844386 CTAGTTAGTA
Statistics
Matches: 56, Mismatches: 8, Indels: 12
0.74 0.11 0.16
Matches are distributed among these distances:
8 15 0.27
9 24 0.43
10 9 0.16
11 8 0.14
ACGTcount: A:0.25, C:0.04, G:0.03, T:0.68
Consensus pattern (9 bp):
TTTATTTTA
Found at i:30844602 original size:3 final size:3
Alignment explanation
Indices: 30844596--30844666 Score: 63
Period size: 3 Copynumber: 23.7 Consensus size: 3
30844586 TTTTATTCTG
* * *
30844596 TTA TTA TTC TTA TTA TTA TTA TTT TCTA TTA TTA TTC TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA
* * * *
30844642 TT- TTC TTA GTC TTA GTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
30844667 TTTTGTATTT
Statistics
Matches: 53, Mismatches: 13, Indels: 4
0.76 0.19 0.06
Matches are distributed among these distances:
2 2 0.04
3 49 0.92
4 2 0.04
ACGTcount: A:0.24, C:0.07, G:0.03, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:30844626 original size:25 final size:25
Alignment explanation
Indices: 30844597--30844668 Score: 94
Period size: 25 Copynumber: 3.0 Consensus size: 25
30844587 TTTATTCTGT
30844597 TATTATTCTTATTATTATTATTTTC
1 TATTATTCTTATTATTATTATTTTC
* *
30844622 TATTATTATTCTTATTATTATTTTC
1 TATTATTCTTATTATTATTATTTTC
* *
30844647 --TTAGTCTTAGTATTATTATTTT
1 TATTATTCTTATTATTATTATTTT
30844669 TTGTATTTTC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
23 18 0.44
25 23 0.56
ACGTcount: A:0.24, C:0.07, G:0.03, T:0.67
Consensus pattern (25 bp):
TATTATTCTTATTATTATTATTTTC
Found at i:30844640 original size:48 final size:46
Alignment explanation
Indices: 30844588--30844683 Score: 113
Period size: 48 Copynumber: 2.0 Consensus size: 46
30844578 ATTACTTTTT
* * *
30844588 TTATTCTGTTATTATTCTTATTATTATTATTTTCTAT-TATTATTCTTA
1 TTATTATGTTATTAGTCTTAGTATTATTATTTT-T-TGTATT-TTCTTA
* *
30844636 TTATTATTTTCTTAGTCTTAGTATTATTATTTTTTGTATTTTCTTA
1 TTATTATGTTATTAGTCTTAGTATTATTATTTTTTGTATTTTCTTA
30844682 TT
1 TT
30844684 GCTTCTTTCA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
46 9 0.21
47 5 0.12
48 28 0.67
ACGTcount: A:0.21, C:0.07, G:0.04, T:0.68
Consensus pattern (46 bp):
TTATTATGTTATTAGTCTTAGTATTATTATTTTTTGTATTTTCTTA
Found at i:30846100 original size:24 final size:25
Alignment explanation
Indices: 30846070--30846126 Score: 73
Period size: 27 Copynumber: 2.3 Consensus size: 25
30846060 TTTTATTTGC
30846070 TTTTCTTTTTA-TG-TCTATTTTTA
1 TTTTCTTTTTAGTGTTCTATTTTTA
*
30846093 TTATTCTTTTTAGTTGTTTTATTTTTA
1 TT-TTCTTTTTAG-TGTTCTATTTTTA
30846120 TTTTCTT
1 TTTTCTT
30846127 AGACTTATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
23 2 0.07
24 9 0.31
26 7 0.24
27 11 0.38
ACGTcount: A:0.12, C:0.07, G:0.05, T:0.75
Consensus pattern (25 bp):
TTTTCTTTTTAGTGTTCTATTTTTA
Found at i:30850316 original size:15 final size:17
Alignment explanation
Indices: 30850294--30850332 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
30850284 TGTTCTAGAT
30850294 TAGAAAAGA-AAAA-AA
1 TAGAAAAGATAAAAGAA
*
30850309 TTGAAAAGATAAAAGAA
1 TAGAAAAGATAAAAGAA
30850326 TAGAAAA
1 TAGAAAA
30850333 AAATTTATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 8 0.40
16 4 0.20
17 8 0.40
ACGTcount: A:0.72, C:0.00, G:0.15, T:0.13
Consensus pattern (17 bp):
TAGAAAAGATAAAAGAA
Found at i:30854396 original size:7 final size:7
Alignment explanation
Indices: 30854363--30854405 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
30854353 GCCTGTACCA
30854363 TAAACCC
1 TAAACCC
*
30854370 TAAAACC
1 TAAACCC
*
30854377 TAAAACAC
1 T-AAACCC
30854385 TAAACCC
1 TAAACCC
30854392 TAAACCC
1 TAAACCC
*
30854399 CAAACCC
1 TAAACCC
30854406 CCTTTGTGAC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
7 25 0.83
8 5 0.17
ACGTcount: A:0.49, C:0.40, G:0.00, T:0.12
Consensus pattern (7 bp):
TAAACCC
Done.