Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 64 of 284
Found at i:22330069 original size:21 final size:21
Alignment explanation
Indices: 22330022--22330069 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
22330012 CATAATTTTC
22330022 ATTT-ATTTCACATTTCTACA
1 ATTTAATTTCACATTTCTACA
**
22330042 ACATAATTTACACATTTCT-CA
1 ATTTAATTT-CACATTTCTACA
22330063 ATTTAAT
1 ATTTAAT
22330070 CCCTATTTTG
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
20 2 0.09
21 11 0.50
22 9 0.41
ACGTcount: A:0.35, C:0.19, G:0.00, T:0.46
Consensus pattern (21 bp):
ATTTAATTTCACATTTCTACA
Found at i:22331726 original size:27 final size:27
Alignment explanation
Indices: 22331684--22331744 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
22331674 TAAAATAGCT
* *
22331684 CCAATTCCTAAAGGGTCGTAAGTAGTC
1 CCAATTCCCAAAGGGTCGTAAGCAGTC
* *
22331711 CCAATTCCCAATGGGTCGTAGGCAGTC
1 CCAATTCCCAAAGGGTCGTAAGCAGTC
22331738 CCAATTC
1 CCAATTC
22331745 TTTGACGATT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (27 bp):
CCAATTCCCAAAGGGTCGTAAGCAGTC
Found at i:22335456 original size:49 final size:49
Alignment explanation
Indices: 22335403--22335517 Score: 139
Period size: 47 Copynumber: 2.4 Consensus size: 49
22335393 TTGTGATGTG
* * *
22335403 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAA
* * * *
22335452 AGTG--TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAA
22335499 AGTGTATA-A-ATGTGATAAG
1 AGTGTATATATATGTGATAAG
22335518 TCCCGAAGGG
Statistics
Matches: 55, Mismatches: 9, Indels: 6
0.79 0.13 0.09
Matches are distributed among these distances:
47 48 0.87
48 1 0.02
49 6 0.11
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (49 bp):
AGTGTATATATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAA
Found at i:22335692 original size:37 final size:37
Alignment explanation
Indices: 22335636--22335714 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
22335626 CCGAGCTCTA
* * * *
22335636 AAGACCCGATGACTACGTGTGGGGATTTTGTTCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
22335673 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
22335710 AAGAC
1 AAGAC
22335715 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:22340342 original size:17 final size:17
Alignment explanation
Indices: 22340316--22340349 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
22340306 TTTAGGATAA
*
22340316 ATTTTGATTGATTTATG
1 ATTTTGATTGATATATG
*
22340333 ATTTTTATTGATATATG
1 ATTTTGATTGATATATG
22340350 TTGAATTAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.26, C:0.00, G:0.15, T:0.59
Consensus pattern (17 bp):
ATTTTGATTGATATATG
Found at i:22352375 original size:22 final size:22
Alignment explanation
Indices: 22352347--22352388 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
22352337 ATTTATTATA
22352347 TTTAGCAGCTCT-GCTGCGTTGT
1 TTTAGCAGCT-TGGCTGCGTTGT
22352369 TTTAGCAGCTTGGCTGCGTT
1 TTTAGCAGCTTGGCTGCGTT
22352389 TCTAGTGTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 1 0.05
22 18 0.95
ACGTcount: A:0.10, C:0.21, G:0.29, T:0.40
Consensus pattern (22 bp):
TTTAGCAGCTTGGCTGCGTTGT
Found at i:22359040 original size:15 final size:15
Alignment explanation
Indices: 22359020--22359050 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
22359010 AAATATGAAA
22359020 GATATGTTTTGGATT
1 GATATGTTTTGGATT
*
22359035 GATATGTTTTGTATT
1 GATATGTTTTGGATT
22359050 G
1 G
22359051 GAATTTTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.26, T:0.55
Consensus pattern (15 bp):
GATATGTTTTGGATT
Found at i:22360635 original size:87 final size:87
Alignment explanation
Indices: 22360484--22360651 Score: 327
Period size: 87 Copynumber: 1.9 Consensus size: 87
22360474 ATTATATTAA
22360484 GCCATCCGAAAATGGCTAATATGCTATGTGAAACTTTAGTTAAGTTTATGTGCATTTTGCATATT
1 GCCATCCGAAAATGGCTAATATGCTATGTGAAACTTTAGTTAAGTTTATGTGCATTTTGCATATT
22360549 GAAAATGGTTGGTGGTGTTTTG
66 GAAAATGGTTGGTGGTGTTTTG
*
22360571 GCCATCCGAAAATGGCTAATATGCTATGTGAAACTTTAGTTAAGTTTATGTGCATTTTGTATATT
1 GCCATCCGAAAATGGCTAATATGCTATGTGAAACTTTAGTTAAGTTTATGTGCATTTTGCATATT
22360636 GAAAATGGTTGGTGGT
66 GAAAATGGTTGGTGGT
22360652 TTTGGATATG
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
87 80 1.00
ACGTcount: A:0.27, C:0.10, G:0.24, T:0.39
Consensus pattern (87 bp):
GCCATCCGAAAATGGCTAATATGCTATGTGAAACTTTAGTTAAGTTTATGTGCATTTTGCATATT
GAAAATGGTTGGTGGTGTTTTG
Found at i:22373160 original size:37 final size:37
Alignment explanation
Indices: 22373085--22373160 Score: 116
Period size: 37 Copynumber: 2.1 Consensus size: 37
22373075 CCGTTACAAA
*
22373085 GTCCATGGTAACTCTTTCCCATTTCCACTTCGGCATT
1 GTCCATGGTAACTCTTTCCCATTTCCACTTCGACATT
* * *
22373122 GTCCATGGTAGCTCTTTCCCGTTTCCACTTCGATATT
1 GTCCATGGTAACTCTTTCCCATTTCCACTTCGACATT
22373159 GT
1 GT
22373161 AATTGGCTGC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.14, C:0.30, G:0.16, T:0.39
Consensus pattern (37 bp):
GTCCATGGTAACTCTTTCCCATTTCCACTTCGACATT
Found at i:22377453 original size:14 final size:14
Alignment explanation
Indices: 22377436--22377466 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
22377426 ATGTTTTATA
22377436 TTATAATATAACAT
1 TTATAATATAACAT
*
22377450 TTATAATATAATAT
1 TTATAATATAACAT
22377464 TTA
1 TTA
22377467 ATTTACTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (14 bp):
TTATAATATAACAT
Found at i:22381572 original size:66 final size:64
Alignment explanation
Indices: 22381443--22381587 Score: 166
Period size: 66 Copynumber: 2.2 Consensus size: 64
22381433 CACGGTCTCA
* * * *
22381443 CACACAGGCGTGTGACTGGCCGTGTGGTACAAGTCAGTATACCCCCTAATTGGCATACTGCCTAG
1 CACACAGGCGTGTGACTGGCCATGTGGCACAAGTCAGTATACCCCATAATTGGCATA-GGCCTAG
** * * *
22381508 CACATGGGCGTGTGACTTGGCCATGTTGCATAAGTCAGTATACCCTATAGATTTGGCAT-GGCCT
1 CACACAGGCGTGTGAC-TGGCCATGTGGCACAAGTCAGTATACCCCATA-A-TTGGCATAGGCCT
22381572 AG
63 AG
22381574 CACACAGGCGTGTG
1 CACACAGGCGTGTG
22381588 TACCCATTTT
Statistics
Matches: 66, Mismatches: 11, Indels: 5
0.80 0.13 0.06
Matches are distributed among these distances:
65 14 0.21
66 44 0.67
67 1 0.02
68 7 0.11
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.25
Consensus pattern (64 bp):
CACACAGGCGTGTGACTGGCCATGTGGCACAAGTCAGTATACCCCATAATTGGCATAGGCCTAG
Found at i:22384160 original size:29 final size:28
Alignment explanation
Indices: 22384118--22384194 Score: 109
Period size: 29 Copynumber: 2.7 Consensus size: 28
22384108 GTCTCGACAT
*
22384118 TTACTGGGCCGAAGCCTTTCGTTTAACGG
1 TTACTGGGCCGAAGCCTTT-GTTTAACGA
22384147 TTACTGGGCCGAAGCCATTTGTTTAACGA
1 TTACTGGGCCGAAGCC-TTTGTTTAACGA
* *
22384176 TTACTGGGCTGGAGCCTTT
1 TTACTGGGCCGAAGCCTTT
22384195 TCATAAATCA
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.18, C:0.22, G:0.27, T:0.32
Consensus pattern (28 bp):
TTACTGGGCCGAAGCCTTTGTTTAACGA
Found at i:22384507 original size:54 final size:54
Alignment explanation
Indices: 22384442--22384596 Score: 193
Period size: 54 Copynumber: 2.9 Consensus size: 54
22384432 CCCTCGATCA
* *
22384442 GTAATTTTATAAATCGAGGGTAAAATGGTAATTCTATAAATTGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATGGTAATTCTATAAATTGAGGGTAAAACG
** * *
22384496 GTAATTCTATAAATCGAGGGTAAAATGGTAACACTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAATGGTAATTCTATAAATTGAGGGTAAAACG
* * *** * *
22384550 ATAATTCTGTAAATCGAGGGTACTTTGGTAATTTTACAAATTGAGGG
1 GTAATTCTATAAATCGAGGGTAAAATGGTAATTCTATAAATTGAGGG
22384597 CATTTCAGTA
Statistics
Matches: 84, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 84 1.00
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (54 bp):
GTAATTCTATAAATCGAGGGTAAAATGGTAATTCTATAAATTGAGGGTAAAACG
Found at i:22384582 original size:27 final size:27
Alignment explanation
Indices: 22384442--22384571 Score: 188
Period size: 27 Copynumber: 4.8 Consensus size: 27
22384432 CCCTCGATCA
*
22384442 GTAATTTTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
*
22384469 GTAATTCTATAAATTGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
22384496 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
** * *
22384523 GTAACACTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAATG
* *
22384550 ATAATTCTGTAAATCGAGGGTA
1 GTAATTCTATAAATCGAGGGTA
22384572 CTTTGGTAAT
Statistics
Matches: 93, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 93 1.00
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAATG
Found at i:22387014 original size:25 final size:25
Alignment explanation
Indices: 22386980--22387099 Score: 145
Period size: 25 Copynumber: 4.8 Consensus size: 25
22386970 CTATTTTAAT
*
22386980 AACTAGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTTGATA
* *
22387005 AACTGGGGCAAA-TCCTTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTT-GATA
*
22387030 AACTGGGGCAAAGCCC-TTTTCAGTA
1 AACTGGGGCAAAGCCCTTTTTGA-TA
* * *
22387055 AACTGGGCCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTTGATA
22387080 AACTGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
22387100 ATCACTTCCT
Statistics
Matches: 80, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
24 7 0.09
25 68 0.85
26 5 0.06
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTTGATA
Found at i:22387043 original size:50 final size:51
Alignment explanation
Indices: 22386980--22387099 Score: 181
Period size: 50 Copynumber: 2.4 Consensus size: 51
22386970 CTATTTTAAT
* * * * *
22386980 AACTAGGGCAAAGCCCTTTTTGA-TAAACTGGGGCAAATCCTTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTTCAGTAAACTGGGCCAAAGCCCTTTTCGGTA
22387030 AACTGGGGCAAAGCCC-TTTTCAGTAAACTGGGCCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTTCAGTAAACTGGGCCAAAGCCCTTTTCGGTA
22387080 AACTGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
22387100 ATCACTTCCT
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
49 5 0.08
50 55 0.87
51 3 0.05
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (51 bp):
AACTGGGGCAAAGCCCTTTTTCAGTAAACTGGGCCAAAGCCCTTTTCGGTA
Found at i:22387342 original size:27 final size:27
Alignment explanation
Indices: 22387304--22387466 Score: 229
Period size: 27 Copynumber: 6.0 Consensus size: 27
22387294 TGGGCAAAAT
*
22387304 GGTAACTT-TACCCTACAAGGGTATCTC
1 GGTAA-TTCTACCCTACAAGGGTATTTC
*
22387331 GGTAATTCTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
*
22387358 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
22387385 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
22387412 GGTAATTTTACCCTACAGGGGTATTTA
1 GGTAATTCTACCCTACAAGGGTATTTC
*
22387439 GGTAATTCTACCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
22387466 G
1 G
22387467 ATATTTTACA
Statistics
Matches: 121, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
26 2 0.02
27 119 0.98
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:22387414 original size:81 final size:81
Alignment explanation
Indices: 22387312--22387469 Score: 253
Period size: 81 Copynumber: 2.0 Consensus size: 81
22387302 ATGGTAACTT
* *
22387312 TACCCTACAAGGGTATCTCGGTAATTCTACCCTACAAGGGTATTTTGGTATTTCTACCCTACAAG
1 TACCCTACAAGGGTATCTCGGTAATTCTACCCTACAAGGGTATTTAGGTAATTCTACCCTACAAG
22387377 GGTATTTCGATAATTC
66 GGTATTTCGATAATTC
* * * * *
22387393 TACCCTACAGGGGTATTTCGGTAATTTTACCCTACAGGGGTATTTAGGTAATTCTACCCTATAAG
1 TACCCTACAAGGGTATCTCGGTAATTCTACCCTACAAGGGTATTTAGGTAATTCTACCCTACAAG
22387458 GGTATTTCGATA
66 GGTATTTCGATA
22387470 TTTTACAAAT
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 70 1.00
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (81 bp):
TACCCTACAAGGGTATCTCGGTAATTCTACCCTACAAGGGTATTTAGGTAATTCTACCCTACAAG
GGTATTTCGATAATTC
Found at i:22387506 original size:27 final size:27
Alignment explanation
Indices: 22387459--22387635 Score: 117
Period size: 27 Copynumber: 6.6 Consensus size: 27
22387449 CCCTATAAGG
* *
22387459 GTATTTCGAT-ATTTTACAAATCGAGA
1 GTATTTTGATAATTTTACAAATCAAGA
* *
22387485 GTATTTTGATAATTTCACAAATCAAGG
1 GTATTTTGATAATTTTACAAATCAAGA
* * * *
22387512 GTATTTTGGTAATTTTAC-AAGCCAGTG
1 GTATTTTGATAATTTTACAAATCAAG-A
* * * *
22387539 GTATTTTGGTAATTTTACAAACCAGGG
1 GTATTTTGATAATTTTACAAATCAAGA
* * * *
22387566 GTATTTT-AGTAATTTTATAAACCAGGG
1 GTATTTTGA-TAATTTTACAAATCAAGA
* ** * *
22387593 GTATTTTGGTAATTTTACTGATCGAGG
1 GTATTTTGATAATTTTACAAATCAAGA
*
22387620 GTATTTTGGTAATTTT
1 GTATTTTGATAATTTT
22387636 GTAAACCAAG
Statistics
Matches: 126, Mismatches: 20, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
26 14 0.11
27 108 0.86
28 4 0.03
ACGTcount: A:0.29, C:0.09, G:0.20, T:0.42
Consensus pattern (27 bp):
GTATTTTGATAATTTTACAAATCAAGA
Found at i:22387544 original size:54 final size:54
Alignment explanation
Indices: 22387403--22387661 Score: 213
Period size: 54 Copynumber: 4.8 Consensus size: 54
22387393 TACCCTACAG
* ** * * **
22387403 GGGTATTTCGGTAATTTTACCCTA-CAGGGGTATTTAGGTAATTCTACCCTAT-AA
1 GGGTATTTTGGTAATTTTA-CAAACCAGGGGTATTTTGGTAATTTTA-CAAATCAA
* * * * * *
22387457 GGGTATTTCGAT-ATTTTACAAATC-GAGAGTATTTTGATAATTTCACAAATCAA
1 GGGTATTTTGGTAATTTTACAAACCAG-GGGTATTTTGGTAATTTTACAAATCAA
* * * *
22387510 GGGTATTTTGGTAATTTTACAAGCCAGTGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAATCAA
* * ** *
22387564 GGGTATTTTAGTAATTTTATAAACCAGGGGTATTTTGGTAATTTTACTGATCGA
1 GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAATCAA
** * **
22387618 GGGTATTTTGGTAATTTTGTAAACCAAGGGT-TTTCAGTAATTTT
1 GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTT
22387662 GTAAACTGAG
Statistics
Matches: 166, Mismatches: 34, Indels: 11
0.79 0.16 0.05
Matches are distributed among these distances:
52 6 0.04
53 44 0.27
54 115 0.69
55 1 0.01
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.40
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAATCAA
Found at i:22387579 original size:81 final size:81
Alignment explanation
Indices: 22387456--22387660 Score: 220
Period size: 81 Copynumber: 2.6 Consensus size: 81
22387446 CTACCCTATA
* * * * * *
22387456 AGGGTATTTCGAT-ATTTTACAAATCGAGAGTATTTT-GATAATTTCACAAATCAAGGGTATTTT
1 AGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAG-TAATTTCACAAACCAAGGGTATTTT
22387519 GGTAATTTTAC-AAGCC
65 GGTAATTTTACTAAGCC
* * * *
22387535 AGTGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTATAAACCAGGGGTATTTT
1 AG-GGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTCACAAACCAAGGGTATTTT
* * *
22387600 GGTAATTTTACTGATCG
65 GGTAATTTTACTAAGCC
** *
22387617 AGGGTATTTTGGTAATTTTGTAAACCAAGGGT-TTTCAGTAATTT
1 AGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTT
22387661 TGTAAACTGA
Statistics
Matches: 105, Mismatches: 17, Indels: 7
0.81 0.13 0.05
Matches are distributed among these distances:
79 2 0.02
80 20 0.19
81 78 0.74
82 5 0.05
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.40
Consensus pattern (81 bp):
AGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTCACAAACCAAGGGTATTTTG
GTAATTTTACTAAGCC
Found at i:22387647 original size:27 final size:27
Alignment explanation
Indices: 22387485--22387667 Score: 174
Period size: 27 Copynumber: 6.8 Consensus size: 27
22387475 CAAATCGAGA
* * * *
22387485 GTATTTTGATAATTTCACAAATCAAGG
1 GTATTTTGGTAATTTTATAAACCAAGG
* *
22387512 GTATTTTGGTAATTTTACAAGCC-AGTG
1 GTATTTTGGTAATTTTATAAACCAAG-G
* *
22387539 GTATTTTGGTAATTTTACAAACCAGGG
1 GTATTTTGGTAATTTTATAAACCAAGG
* *
22387566 GTATTTTAGTAATTTTATAAACCAGGG
1 GTATTTTGGTAATTTTATAAACCAAGG
* * *
22387593 GTATTTTGGTAATTTTACT-GATCGAGG
1 GTATTTTGGTAATTTTA-TAAACCAAGG
*
22387620 GTATTTTGGTAATTTTGTAAACCAAGG
1 GTATTTTGGTAATTTTATAAACCAAGG
** *
22387647 GT-TTTCAGTAATTTTGTAAAC
1 GTATTTTGGTAATTTTATAAAC
22387668 TGAGGGTAAA
Statistics
Matches: 133, Mismatches: 19, Indels: 9
0.83 0.12 0.06
Matches are distributed among these distances:
26 20 0.15
27 111 0.83
28 2 0.02
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (27 bp):
GTATTTTGGTAATTTTATAAACCAAGG
Found at i:22387937 original size:27 final size:27
Alignment explanation
Indices: 22387669--22387918 Score: 376
Period size: 27 Copynumber: 9.3 Consensus size: 27
22387659 TTTGTAAACT
* *
22387669 GAGGGTAAAACGGTAATTCTGTAAATC
1 GAGGGTAAAATGGTAATTCTATAAATC
*
22387696 GAGGGTAAAACGGTAATTCTATAAATC
1 GAGGGTAAAATGGTAATTCTATAAATC
22387723 GAGGGTAAAATGGTAATTCTATAAATC
1 GAGGGTAAAATGGTAATTCTATAAATC
* * *
22387750 GAGGGTAAAACGATAATTCTGTAAATC
1 GAGGGTAAAATGGTAATTCTATAAATC
*
22387777 GAGGGTAAAATGGGT-ATTCTGTAAATC
1 GAGGGTAAAAT-GGTAATTCTATAAATC
* *
22387804 GAGAGTAAAACGGTAATTCTATAAATC
1 GAGGGTAAAATGGTAATTCTATAAATC
*
22387831 GTGGGTAAAATGGTAATTCTATAAATC
1 GAGGGTAAAATGGTAATTCTATAAATC
*
22387858 GAGGGTAAAATGGTAACTCTATAAATC
1 GAGGGTAAAATGGTAATTCTATAAATC
*
22387885 GAGGGTAAAATGGTAATTCTGTAAATC
1 GAGGGTAAAATGGTAATTCTATAAATC
22387912 GAGGGTA
1 GAGGGTA
22387919 CTTTGGTAAT
Statistics
Matches: 204, Mismatches: 17, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
26 3 0.01
27 199 0.98
28 2 0.01
ACGTcount: A:0.39, C:0.09, G:0.24, T:0.28
Consensus pattern (27 bp):
GAGGGTAAAATGGTAATTCTATAAATC
Found at i:22392139 original size:21 final size:21
Alignment explanation
Indices: 22392115--22392157 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
22392105 ATCCCTAAGG
22392115 GGGGAGAGTTGTAACAGCCCT
1 GGGGAGAGTTGTAACAGCCCT
22392136 GGGGAGAGTTGTAACAGCCCT
1 GGGGAGAGTTGTAACAGCCCT
22392157 G
1 G
22392158 TTTTAGGTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.19, G:0.40, T:0.19
Consensus pattern (21 bp):
GGGGAGAGTTGTAACAGCCCT
Found at i:22395442 original size:42 final size:42
Alignment explanation
Indices: 22395394--22395476 Score: 166
Period size: 42 Copynumber: 2.0 Consensus size: 42
22395384 GTAATTTTTG
22395394 CCATAATGTGATTTTGGGCTGATTTGAATAGTATAATGGTTT
1 CCATAATGTGATTTTGGGCTGATTTGAATAGTATAATGGTTT
22395436 CCATAATGTGATTTTGGGCTGATTTGAATAGTATAATGGTT
1 CCATAATGTGATTTTGGGCTGATTTGAATAGTATAATGGTT
22395477 AAATAAGCTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.27, C:0.07, G:0.24, T:0.42
Consensus pattern (42 bp):
CCATAATGTGATTTTGGGCTGATTTGAATAGTATAATGGTTT
Found at i:22395893 original size:43 final size:41
Alignment explanation
Indices: 22395788--22395913 Score: 128
Period size: 43 Copynumber: 3.0 Consensus size: 41
22395778 TGACATTAGA
22395788 GATACTGAGATTGCGTGTAAGACCATATCTGGGATATGGCACC
1 GATAC-GAGATT-CGTGTAAGACCATATCTGGGATATGGCACC
* * * *
22395831 AATATGAGACTTCGTGTAAGACCATAGT-TGGGTTATTGGCATC
1 GATACGAGA-TTCGTGTAAGACCATA-TCTGGGATA-TGGCACC
* * *
22395874 GATACGAGATTACATGTAAGACCATATTTAGGATATGGCA
1 GATACGAGATT-CGTGTAAGACCATATCTGGGATATGGCA
22395914 TTGGTACGGT
Statistics
Matches: 69, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
42 32 0.46
43 37 0.54
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (41 bp):
GATACGAGATTCGTGTAAGACCATATCTGGGATATGGCACC
Found at i:22410920 original size:42 final size:42
Alignment explanation
Indices: 22410807--22410961 Score: 170
Period size: 42 Copynumber: 3.7 Consensus size: 42
22410797 TACCACACCA
* ** * *
22410807 ATGCCATATCCCAGATATGGTCTTACATGGGATCTCGTAACG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
* *
22410849 ATGCCAATAGCCCA-ATTATAGTCTTACACGAAATCTCATATCG
1 ATGCC-ATATCCCAGA-TATGGTCTTACACGAAATCTCATATCG
* * *
22410892 ATGGCATATCCCAGATATGGTCTTACACGAAGTCTAATAAT-G
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCAT-ATCG
*
22410934 ATGCCATATCCCAGATATGGTTTTACAC
1 ATGCCATATCCCAGATATGGTCTTACAC
22410962 ATAGTCTCGG
Statistics
Matches: 95, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
42 60 0.63
43 35 0.37
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
Found at i:22413738 original size:22 final size:22
Alignment explanation
Indices: 22413696--22413738 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
22413686 TTGCTTGTAG
*
22413696 AGTCTACTGAATTTGTTATTAA
1 AGTCTACTGAATTTGTGATTAA
22413718 AGTCTACTGAATTTGTGATTA
1 AGTCTACTGAATTTGTGATTA
22413739 GAGTATCGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.30, C:0.09, G:0.16, T:0.44
Consensus pattern (22 bp):
AGTCTACTGAATTTGTGATTAA
Found at i:22428484 original size:43 final size:42
Alignment explanation
Indices: 22428433--22428564 Score: 144
Period size: 43 Copynumber: 3.1 Consensus size: 42
22428423 ACATAGGATT
22428433 TCGATATGTGTTCTCGTGTAAGACCACGTCTGGGACATTGGCA
1 TCGATATGTGTT-TCGTGTAAGACCACGTCTGGGACATTGGCA
* * *
22428476 TCGATATGTGATTAT-GTGTAAGATCATGTCTGGGACATCGGCA
1 TCGATATGTG-TT-TCGTGTAAGACCACGTCTGGGACATTGGCA
* * * *
22428519 TCG-TATTTGATTCGTGTAGGACC-CTGTCTGGGACAGTGGCA
1 TCGATATGTGTTTCGTGTAAGACCAC-GTCTGGGACATTGGCA
22428560 TCGAT
1 TCGAT
22428565 TTATCGATAT
Statistics
Matches: 74, Mismatches: 11, Indels: 9
0.79 0.12 0.10
Matches are distributed among these distances:
40 1 0.01
41 26 0.35
42 6 0.08
43 38 0.51
44 3 0.04
ACGTcount: A:0.21, C:0.18, G:0.29, T:0.32
Consensus pattern (42 bp):
TCGATATGTGTTTCGTGTAAGACCACGTCTGGGACATTGGCA
Found at i:22428548 original size:41 final size:40
Alignment explanation
Indices: 22428446--22428566 Score: 129
Period size: 41 Copynumber: 2.9 Consensus size: 40
22428436 ATATGTGTTC
*
22428446 TCGTGTAAGACCAC-GTCTGGGACATTGGCATCGATATGTGAT
1 TCGTGTAAGACC-CTGTCTGGGACA-TGGCATCG-TATTTGAT
* * *
22428488 TATGTGTAAGATCATGTCTGGGACATCGGCATCGTATTTGAT
1 T-CGTGTAAGACCCTGTCTGGGACAT-GGCATCGTATTTGAT
*
22428530 TCGTGTAGGACCCTGTCTGGGACAGTGGCATCG-ATTT
1 TCGTGTAAGACCCTGTCTGGGACA-TGGCATCGTATTT
22428567 ATCGATATGT
Statistics
Matches: 67, Mismatches: 8, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
40 4 0.06
41 26 0.39
42 11 0.16
43 26 0.39
ACGTcount: A:0.21, C:0.18, G:0.29, T:0.31
Consensus pattern (40 bp):
TCGTGTAAGACCCTGTCTGGGACATGGCATCGTATTTGAT
Found at i:22432680 original size:31 final size:31
Alignment explanation
Indices: 22432642--22432704 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
22432632 CGTTTCACAC
*
22432642 TTCATATTTCATAACACTGGGCCGAAGCCTT
1 TTCATATTTCATAACACTAGGCCGAAGCCTT
**
22432673 TTCATATTTCATATTACTAGGCCGAAGCCTT
1 TTCATATTTCATAACACTAGGCCGAAGCCTT
22432704 T
1 T
22432705 ACTGTAAACG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.37
Consensus pattern (31 bp):
TTCATATTTCATAACACTAGGCCGAAGCCTT
Found at i:22433006 original size:25 final size:25
Alignment explanation
Indices: 22432926--22433766 Score: 1499
Period size: 25 Copynumber: 33.8 Consensus size: 25
22432916 TCTTTTAATG
*
22432926 ACTGGGGCA-AAGCCCTTT-TAATA
1 ACTGGGGCATAAGCCCTTTATCATA
*
22432949 ACTGGGGCATAAGCCCTTT-TAATA
1 ACTGGGGCATAAGCCCTTTATCATA
* *
22432973 ACTGAGGCATAAGTCCTTTATCATA
1 ACTGGGGCATAAGCCCTTTATCATA
22432998 ACTGGGGCATAAGCCCTTTATCATA
1 ACTGGGGCATAAGCCCTTTATCATA
*
22433023 ACTGGGGCGTAAGCCCTTTATCATA
1 ACTGGGGCATAAGCCCTTTATCATA
22433048 ACTGGGGCATAAGCCCTTTATCATA
1 ACTGGGGCATAAGCCCTTTATCATA
*
22433073 ACTGGGGCGTAAGCCCTTTATCATA
1 ACTGGGGCATAAGCCCTTTATCATA
22433098 ACTGGGGCATAAGCCCTTTATCATA
1 ACTGGGGCATAAGCCCTTTATCATA
*
22433123 ACTGGGGCGTAAGCCCTTTATCATA
1 ACTGGGGCATAAGCCCTTTATCATA
22433148 ACTGGGGCATAAGCCCTTTATCATA
1 ACTGGGGCATAAGCCCTTTATCATA
*
22433173 ACTGGGGCGTAAGCCCTTTATCATA
1 ACTGGGGCATAAGCCCTTTATCATA
22433198 ACTGGGGCATAAGCCCTTTATCATA
1 ACTGGGGCATAAGCCCTTTATCATA
*
22433223 ACTGGGGCGTAAGCCCTTTATCATA
1 ACTGGGGCATAAGCCCTTTATCATA
22433248 ACTGGGGCATAAGCCCTTTATCATA
1 ACTGGGGCATAAGCCCTTTATCATA
*
22433273 ACTGGGGCGTAAGCCCTTTATCATA
1 ACTGGGGCATAAGCCCTTTATCATA
22433298 ACTGGGGCATAAGCCCTTTATCATA
1 ACTGGGGCATAAGCCCTTTATCATA
*
22433323 ACTGGGGCGTAAGCCCTTTATCATA
1 ACTGGGGCATAAGCCCTTTATCATA
22433348 ACTGGGGCATAAGCCCTTTATCATA
1 ACTGGGGCATAAGCCCTTTATCATA
*
22433373 ACTGGGGCGTAAGCCCTTTATCATA
1 ACTGGGGCATAAGCCCTTTATCATA
22433398 ACTGGGGCATAAGCCCTTTATCATA
1 ACTGGGGCATAAGCCCTTTATCATA
*
22433423 ACTGGGGCGTAAGCCCTTTATCATA
1 ACTGGGGCATAAGCCCTTTATCATA
22433448 ACTGGGGCATAAGCCCTTTATCATA
1 ACTGGGGCATAAGCCCTTTATCATA
*
22433473 ACTGGGGCGTAAGCCCTTTATCATA
1 ACTGGGGCATAAGCCCTTTATCATA
22433498 ACTGGGGCATAAGCCCTTTATCATA
1 ACTGGGGCATAAGCCCTTTATCATA
*
22433523 ACTGGGGCGTAAGCCCTTTATCATA
1 ACTGGGGCATAAGCCCTTTATCATA
22433548 ACTGGGGCATAAGCCCTTTATCATA
1 ACTGGGGCATAAGCCCTTTATCATA
*
22433573 ACTGGGGCGTAAGCCCTTTATCATA
1 ACTGGGGCATAAGCCCTTTATCATA
22433598 ACTGGGGCATAAGCCCTTTATCATA
1 ACTGGGGCATAAGCCCTTTATCATA
*
22433623 ACTGGGGCGTAAGCCCTTTATCATA
1 ACTGGGGCATAAGCCCTTTATCATA
22433648 ACTGGGGCATAAGCCCTTTATCATA
1 ACTGGGGCATAAGCCCTTTATCATA
*
22433673 ACTGGGGCGTAAGCCCTTTATCATA
1 ACTGGGGCATAAGCCCTTTATCATA
22433698 ACTGGGGCATAAGCCCTTTATCATA
1 ACTGGGGCATAAGCCCTTTATCATA
22433723 ACTGGGGCATAAGCCCTTTATCATA
1 ACTGGGGCATAAGCCCTTTATCATA
22433748 ACTGGGGCATAAGCCCTTT
1 ACTGGGGCATAAGCCCTTT
22433767 TACACTTCCT
Statistics
Matches: 783, Mismatches: 33, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
23 9 0.01
24 31 0.04
25 743 0.95
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (25 bp):
ACTGGGGCATAAGCCCTTTATCATA
Found at i:22433842 original size:20 final size:20
Alignment explanation
Indices: 22433817--22433883 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
22433807 TTATGAATAC
22433817 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
22433837 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
22433857 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
22433877 ACCATGT
1 ATCATGT
22433884 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:22433848 original size:11 final size:11
Alignment explanation
Indices: 22433817--22433872 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
22433807 TTATGAATAC
22433817 ATCATGTGCAT
1 ATCATGTGCAT
*
22433828 ATCA--TACAT
1 ATCATGTGCAT
22433837 ATCATGTGCAT
1 ATCATGTGCAT
*
22433848 ATCA--TACAT
1 ATCATGTGCAT
*
22433857 GTCATGTGCAT
1 ATCATGTGCAT
22433868 ATCAT
1 ATCAT
22433873 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:22441504 original size:31 final size:31
Alignment explanation
Indices: 22441466--22441528 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
22441456 CGTTTCACAC
22441466 TTCATATTTCATAACACTGGGCCGAAGCCTT
1 TTCATATTTCATAACACTGGGCCGAAGCCTT
**
22441497 TTCATATTTCATATTACTGGGCCGAAGCCTT
1 TTCATATTTCATAACACTGGGCCGAAGCCTT
22441528 T
1 T
22441529 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.37
Consensus pattern (31 bp):
TTCATATTTCATAACACTGGGCCGAAGCCTT
Found at i:22441764 original size:25 final size:25
Alignment explanation
Indices: 22441713--22441818 Score: 126
Period size: 25 Copynumber: 4.2 Consensus size: 25
22441703 AGCATAGCTT
*
22441713 CTTTATCATATAACTGGAGGCCT-AGCC
1 CTTTAT-A-ATAACTGG-GGCATAAGCC
22441740 TCTTT-TAATAACTGGGGCATAAGCC
1 -CTTTATAATAACTGGGGCATAAGCC
* *
22441765 CTTTATCATAACTGGGGCGTAAGCC
1 CTTTATAATAACTGGGGCATAAGCC
*
22441790 CTTTATCATAACTGGGGCATAAGCC
1 CTTTATAATAACTGGGGCATAAGCC
22441815 CTTT
1 CTTT
22441819 TACACTTCCT
Statistics
Matches: 72, Mismatches: 4, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
24 8 0.11
25 58 0.81
26 1 0.01
27 1 0.01
28 4 0.06
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (25 bp):
CTTTATAATAACTGGGGCATAAGCC
Found at i:22441803 original size:50 final size:51
Alignment explanation
Indices: 22441713--22441818 Score: 146
Period size: 50 Copynumber: 2.1 Consensus size: 51
22441703 AGCATAGCTT
22441713 CTTTATCATATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCATAAGCC
1 CTTTATCA-ATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCATAAGCC
* *
22441765 CTTTATC-ATAACTGG-GGCGTAAGCC-CTTTATCATAACTGGGGCATAAGCC
1 CTTTATCAATAACTGGAGGCCT-AGCCTCTTT-TAATAACTGGGGCATAAGCC
22441815 CTTT
1 CTTT
22441819 TACACTTCCT
Statistics
Matches: 50, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
49 8 0.16
50 35 0.70
52 7 0.14
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (51 bp):
CTTTATCAATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCATAAGCC
Found at i:22441898 original size:20 final size:20
Alignment explanation
Indices: 22441870--22441908 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
22441860 TATGAATACA
22441870 TCATGTGCATATCATACATG
1 TCATGTGCATATCATACATG
*
22441890 TCATTTGCATATCATACAT
1 TCATGTGCATATCATACAT
22441909 ACCATGTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (20 bp):
TCATGTGCATATCATACATG
Found at i:22450763 original size:39 final size:40
Alignment explanation
Indices: 22450668--22450851 Score: 200
Period size: 40 Copynumber: 4.7 Consensus size: 40
22450658 TTGAATGATG
* *
22450668 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-ACTGACCAA-
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* *
22450707 TCCGGACTAAGAT-CCGAAGGCATTTGTACGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
* *
22450747 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
22450786 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
22450825 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
22450852 AACGAGGAGC
Statistics
Matches: 125, Mismatches: 13, Indels: 13
0.83 0.09 0.09
Matches are distributed among these distances:
39 57 0.46
40 67 0.54
41 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:22450803 original size:79 final size:80
Alignment explanation
Indices: 22450668--22450851 Score: 216
Period size: 79 Copynumber: 2.3 Consensus size: 80
22450658 TTGAATGATG
*
22450668 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAACTGACCAATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAACTGACAAATCCGGACTAAGATCCGAAGGCATTT
22450732 GTACGAGATACTA-A
66 GTACGAGATACTATA
* * * **
22450746 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAACTGAC-AAATCCGGACTAAGAT-CCGAAGGCA
* *
22450808 TTTGTGCGAGTTACTATA
63 TTTGTACGAGATACTATA
* *
22450826 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
22450852 AACGAGGAGC
Statistics
Matches: 90, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
78 14 0.16
79 61 0.68
80 15 0.17
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAACTGACAAATCCGGACTAAGATCCGAAGGCATTT
GTACGAGATACTATA
Found at i:22450873 original size:79 final size:79
Alignment explanation
Indices: 22450720--22450874 Score: 190
Period size: 79 Copynumber: 2.0 Consensus size: 79
22450710 GGACTAAGAT
* ** *
22450720 CCGAAGGCATTTGTACGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTACGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
22450785 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* * *
22450799 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGC
1 CCGAAGGCATTTGTACGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-C
*
22450862 TATATCC-GGTTAA
63 TAAATCCGGGTTAA
22450875 ATTCAGAAGG
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
78 2 0.03
79 38 0.58
80 25 0.38
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTACGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
ATCCGGGTTAAGTC
Found at i:22456323 original size:16 final size:16
Alignment explanation
Indices: 22456302--22456334 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
22456292 CTATCAAAAA
22456302 TAACCCAGATTGCATC
1 TAACCCAGATTGCATC
22456318 TAACCCAGATTGCATC
1 TAACCCAGATTGCATC
22456334 T
1 T
22456335 TTCTTGCTCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.30, G:0.12, T:0.27
Consensus pattern (16 bp):
TAACCCAGATTGCATC
Found at i:22467499 original size:13 final size:13
Alignment explanation
Indices: 22467483--22467507 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22467473 CCTGTCACAC
22467483 GCCCGTGTCCTTG
1 GCCCGTGTCCTTG
22467496 GCCCGTGTCCTT
1 GCCCGTGTCCTT
22467508 CACACGGCCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.40, G:0.28, T:0.32
Consensus pattern (13 bp):
GCCCGTGTCCTTG
Found at i:22468589 original size:46 final size:45
Alignment explanation
Indices: 22468464--22468624 Score: 137
Period size: 46 Copynumber: 3.5 Consensus size: 45
22468454 GCCGATGCCG
* * ** *
22468464 TGTCCCAGACAAGGTCTTACACTGGCTTATATCTCAAGTCGAAGC-CA
1 TGTCCCAGAC-ATGTCTTACACTGGCTTACATCTTGAG-C-CAGCGCA
* *
22468511 TGTCCCAGACATGTCTTGCACTGAC-TATCATCTTGTAGCCAGCGCA
1 TGTCCCAGACATGTCTTACACTGGCTTA-CATCTTG-AGCCAGCGCA
* * * *
22468557 TGTCCCAGACATGTCTTACACTGGCTTACATCTCGAGGCTGATGCA
1 TGTCCCAGACATGTCTTACACTGGCTTACATCTTGAGCCAG-CGCA
* *
22468603 TGTCCCAAACATGTATTACACT
1 TGTCCCAGACATGTCTTACACT
22468625 AGCACTCATC
Statistics
Matches: 94, Mismatches: 15, Indels: 11
0.78 0.12 0.09
Matches are distributed among these distances:
45 9 0.10
46 71 0.76
47 14 0.15
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.28
Consensus pattern (45 bp):
TGTCCCAGACATGTCTTACACTGGCTTACATCTTGAGCCAGCGCA
Found at i:22468635 original size:46 final size:45
Alignment explanation
Indices: 22468554--22468680 Score: 139
Period size: 46 Copynumber: 2.7 Consensus size: 45
22468544 TGTAGCCAGC
* * *
22468554 GCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAGG-CTGAT
1 GCATGTCCCAGACATGTCTTACACTAGCCT-CATCTCAAGGTC-GAT
* * *
22468600 GCATGTCCCAAACATGTATTACACTAGCACTCATCTCAATGTCGAT
1 GCATGTCCCAGACATGTCTTACACTAGC-CTCATCTCAAGGTCGAT
22468646 GCCATGTCCCAGACATGGTCTTACACTAGCTCTCA
1 G-CATGTCCCAGACAT-GTCTTACACTAGC-CTCA
22468681 CAAATGCCCC
Statistics
Matches: 68, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
46 37 0.54
47 15 0.22
48 16 0.24
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (45 bp):
GCATGTCCCAGACATGTCTTACACTAGCCTCATCTCAAGGTCGAT
Found at i:22486037 original size:26 final size:26
Alignment explanation
Indices: 22486008--22486058 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
22485998 TACAAATTGA
22486008 TAATGGGTTAGGTAAATGTTCCATGT
1 TAATGGGTTAGGTAAATGTTCCATGT
22486034 TAATGGGTTAGGTAAATGTTCCATG
1 TAATGGGTTAGGTAAATGTTCCATG
22486059 ATCGGAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.27, C:0.08, G:0.27, T:0.37
Consensus pattern (26 bp):
TAATGGGTTAGGTAAATGTTCCATGT
Found at i:22492601 original size:17 final size:17
Alignment explanation
Indices: 22492581--22492615 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
22492571 AATTAAGGTA
*
22492581 TAGTTAGAATAATGGTT
1 TAGTCAGAATAATGGTT
22492598 TAGTCAGAATAATGGTT
1 TAGTCAGAATAATGGTT
22492615 T
1 T
22492616 TGAGACCACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.34, C:0.03, G:0.23, T:0.40
Consensus pattern (17 bp):
TAGTCAGAATAATGGTT
Found at i:22496391 original size:22 final size:19
Alignment explanation
Indices: 22496366--22496407 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
22496356 TGATAATCAT
22496366 TAATATATAATTATATCTATTA
1 TAATATAT-ATTA-AT-TATTA
22496388 TAATATATATTAATTATTA
1 TAATATATATTAATTATTA
22496407 T
1 T
22496408 CAACTTTGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 2 0.10
21 4 0.20
22 8 0.40
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (19 bp):
TAATATATATTAATTATTA
Found at i:22496598 original size:40 final size:40
Alignment explanation
Indices: 22496552--22496634 Score: 166
Period size: 40 Copynumber: 2.1 Consensus size: 40
22496542 GAATTAGAAC
22496552 TTAGAATATATTAATTATTAATTTGTTCTAAGAATTCTAA
1 TTAGAATATATTAATTATTAATTTGTTCTAAGAATTCTAA
22496592 TTAGAATATATTAATTATTAATTTGTTCTAAGAATTCTAA
1 TTAGAATATATTAATTATTAATTTGTTCTAAGAATTCTAA
22496632 TTA
1 TTA
22496635 AACTCTTACT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.48
Consensus pattern (40 bp):
TTAGAATATATTAATTATTAATTTGTTCTAAGAATTCTAA
Found at i:22499282 original size:5 final size:5
Alignment explanation
Indices: 22499269--22499313 Score: 54
Period size: 5 Copynumber: 8.6 Consensus size: 5
22499259 ATGCTCATGA
* *
22499269 AAAAA AAAAG AAAAAG AAAAG AAAAG AAAAAG AACAG AAAAG AAA
1 AAAAG AAAAG -AAAAG AAAAG AAAAG -AAAAG AAAAG AAAAG AAA
22499314 GCATATGCGC
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
5 25 0.71
6 10 0.29
ACGTcount: A:0.82, C:0.02, G:0.16, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:22499283 original size:11 final size:11
Alignment explanation
Indices: 22499267--22499302 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
22499257 AAATGCTCAT
22499267 GAAAAAAAAAA
1 GAAAAAAAAAA
*
22499278 GAAAAAGAAAA
1 GAAAAAAAAAA
*
22499289 GAAAAGAAAAA
1 GAAAAAAAAAA
22499300 GAA
1 GAA
22499303 CAGAAAAGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (11 bp):
GAAAAAAAAAA
Found at i:22499288 original size:16 final size:16
Alignment explanation
Indices: 22499269--22499313 Score: 72
Period size: 16 Copynumber: 2.8 Consensus size: 16
22499259 ATGCTCATGA
*
22499269 AAAAAAAAAGAAAAAG
1 AAAAGAAAAGAAAAAG
22499285 AAAAGAAAAGAAAAAG
1 AAAAGAAAAGAAAAAG
*
22499301 AACAGAAAAGAAA
1 AAAAGAAAAGAAA
22499314 GCATATGCGC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.82, C:0.02, G:0.16, T:0.00
Consensus pattern (16 bp):
AAAAGAAAAGAAAAAG
Found at i:22499307 original size:11 final size:11
Alignment explanation
Indices: 22499267--22499313 Score: 53
Period size: 11 Copynumber: 4.4 Consensus size: 11
22499257 AAATGCTCAT
*
22499267 GAAAAAAAAAA
1 GAAAAAGAAAA
22499278 GAAAAAGAAAA
1 GAAAAAGAAAA
22499289 G-AAAAGAAAA
1 GAAAAAGAAAA
*
22499299 -AGAACAGAAAA
1 GA-AAAAGAAAA
22499310 GAAA
1 GAAA
22499314 GCATATGCGC
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
10 9 0.29
11 21 0.68
12 1 0.03
ACGTcount: A:0.81, C:0.02, G:0.17, T:0.00
Consensus pattern (11 bp):
GAAAAAGAAAA
Found at i:22500052 original size:9 final size:10
Alignment explanation
Indices: 22500009--22500053 Score: 56
Period size: 10 Copynumber: 4.3 Consensus size: 10
22499999 ACATGTTGAA
22500009 TTTTACTTAAT
1 TTTTA-TTAAT
22500020 TTTATAATTAAT
1 TTT-T-ATTAAT
22500032 TTTTATTAAT
1 TTTTATTAAT
22500042 TTTTATT-AT
1 TTTTATTAAT
22500051 TTT
1 TTT
22500054 CGATAGATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
9 5 0.16
10 13 0.41
11 4 0.12
12 9 0.28
13 1 0.03
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (10 bp):
TTTTATTAAT
Found at i:22508435 original size:56 final size:56
Alignment explanation
Indices: 22508349--22508480 Score: 176
Period size: 56 Copynumber: 2.4 Consensus size: 56
22508339 TGGCATCGTT
* * * *
22508349 ATATGTGTGCAATTAAGACAACATTTTATACGTT-GACATCGATATGTGACTTCGAA
1 ATATGTGTGCGAGTAAGACCACATTTTATACGTTAG-CATCGATATGTGACTCCGAA
* * *
22508405 ATATGTGTGCGAGTAAGACCACGTTTTATACGTTAGCATTGATATGTGACTCCGAT
1 ATATGTGTGCGAGTAAGACCACATTTTATACGTTAGCATCGATATGTGACTCCGAA
*
22508461 CTATGTGTGCGAGTAAGACC
1 ATATGTGTGCGAGTAAGACC
22508481 CTATCTGGGA
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
56 66 0.99
57 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.33
Consensus pattern (56 bp):
ATATGTGTGCGAGTAAGACCACATTTTATACGTTAGCATCGATATGTGACTCCGAA
Found at i:22510198 original size:40 final size:40
Alignment explanation
Indices: 22510105--22510321 Score: 246
Period size: 40 Copynumber: 5.5 Consensus size: 40
22510095 AAGCCAGGTA
* * *
22510105 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
22510143 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
22510183 CCTTCGGGACTTAGCCCGGATGTAATAACTGGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* ** *
22510223 CCTTCGGGACTTAGCTCGGACGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
22510263 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAG-AGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA-CAAATG
22510303 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
22510322 TTATCATCCG
Statistics
Matches: 157, Mismatches: 17, Indels: 8
0.86 0.09 0.04
Matches are distributed among these distances:
38 12 0.08
39 18 0.11
40 127 0.81
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:22512814 original size:96 final size:96
Alignment explanation
Indices: 22512650--22512826 Score: 354
Period size: 96 Copynumber: 1.8 Consensus size: 96
22512640 TTTTACTTTC
22512650 ACCGAGCTCGGTCCAAAACAATGGTGTACGGCATTTACGACCGTACAAAGCCTCGTAAGGTGCCA
1 ACCGAGCTCGGTCCAAAACAATGGTGTACGGCATTTACGACCGTACAAAGCCTCGTAAGGTGCCA
22512715 TCTTAATACTTGATTGTTACGACCGTACAAA
66 TCTTAATACTTGATTGTTACGACCGTACAAA
22512746 ACCGAGCTCGGTCCAAAACAATGGTGTACGGCATTTACGACCGTACAAAGCCTCGTAAGGTGCCA
1 ACCGAGCTCGGTCCAAAACAATGGTGTACGGCATTTACGACCGTACAAAGCCTCGTAAGGTGCCA
22512811 TCTTAATACTTGATTG
66 TCTTAATACTTGATTG
22512827 AAAACTGTTG
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
96 81 1.00
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.24
Consensus pattern (96 bp):
ACCGAGCTCGGTCCAAAACAATGGTGTACGGCATTTACGACCGTACAAAGCCTCGTAAGGTGCCA
TCTTAATACTTGATTGTTACGACCGTACAAA
Found at i:22518435 original size:41 final size:41
Alignment explanation
Indices: 22518341--22518533 Score: 234
Period size: 40 Copynumber: 4.8 Consensus size: 41
22518331 GGATATAGCT
* * *
22518341 ACTCGCTC-AATGCCTTCGGGACATAGCCCGG-ATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATCTAGTA
* * *
22518380 ACTCGCACAAATGCCTTCAGGACTTAGCCCGGAATGTAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATCTAGTA
* *
22518421 ACTCGCACAAATGCCTTCGGGACTTAGCCC-GAAACTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATCTAGTA
* * *
22518461 ACTAGCGCAAATGCCTTCGGGACTTAGCCCGGAA-CTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATCTAGTA
22518501 ACTAGCGCA-AAATGCCTTCGGGACTTAGCCCGG
1 ACT--CGCACAAATGCCTTCGGGACTTAGCCCGG
22518534 TTATCATCCA
Statistics
Matches: 135, Mismatches: 14, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
39 7 0.05
40 64 0.47
41 62 0.46
42 2 0.01
ACGTcount: A:0.27, C:0.30, G:0.23, T:0.21
Consensus pattern (41 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATCTAGTA
Found at i:22518484 original size:81 final size:79
Alignment explanation
Indices: 22518341--22518532 Score: 235
Period size: 81 Copynumber: 2.4 Consensus size: 79
22518331 GGATATAGCT
* * * *
22518341 ACTCGCTC-AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCAGGACTT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCC-GAAATAGTAACTAGCACAAATGCCTTCAGGACTT
*
22518405 AGCCCGGAATGTAATA
65 AGCCCGGAA-CTAATA
* * *
22518421 ACTCGCACAAATGCCTTCGGGACTTAGCCCGAAACTAGTCACTAGCGCAAATGCCTTCGGGACTT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGAAA-TAGTAACTAGCACAAATGCCTTCAGGACTT
* *
22518486 AGCCCGGAACTAGTC
65 AGCCCGGAACTAATA
22518501 ACTAGCGCA-AAATGCCTTCGGGACTTAGCCCG
1 ACT--CGCACAAATGCCTTCGGGACTTAGCCCG
22518533 GTTATCATCC
Statistics
Matches: 98, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
80 16 0.16
81 78 0.80
82 4 0.04
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (79 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGAAATAGTAACTAGCACAAATGCCTTCAGGACTTA
GCCCGGAACTAATA
Found at i:22520629 original size:29 final size:29
Alignment explanation
Indices: 22520587--22520646 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
22520577 CACTATCATC
22520587 TGTCTTCGGTATTTTTATAAATGAACTTT
1 TGTCTTCGGTATTTTTATAAATGAACTTT
22520616 TGTCTTCGGTATTTTTATAAATGAACTTT
1 TGTCTTCGGTATTTTTATAAATGAACTTT
22520645 TG
1 TG
22520647 AATCTATGTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.23, C:0.10, G:0.15, T:0.52
Consensus pattern (29 bp):
TGTCTTCGGTATTTTTATAAATGAACTTT
Found at i:22527941 original size:54 final size:54
Alignment explanation
Indices: 22527867--22527996 Score: 122
Period size: 54 Copynumber: 2.4 Consensus size: 54
22527857 ATTATTGAAA
* * *
22527867 TACCCTCGACTTGTA-A-AATTACCAAAGTACCCCCGATTTACATAATTA-TCGTTT
1 TACCCTCGA-TT-TACAGAATTACCAAAGTACCACCGATTTACAGAATTACT-ATTT
**** * *
22527921 TACCCTCGATTTACAGAATTACCGTTTTACCATCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCAAAGTACCACCGATTTACAGAATTACTATTT
*
22527975 TACCCTTGATTTACAGAATTAC
1 TACCCTCGATTTACAGAATTAC
22527997 TGGTTTACCC
Statistics
Matches: 63, Mismatches: 10, Indels: 6
0.80 0.13 0.08
Matches are distributed among these distances:
52 2 0.03
53 3 0.05
54 57 0.90
55 1 0.02
ACGTcount: A:0.31, C:0.23, G:0.09, T:0.37
Consensus pattern (54 bp):
TACCCTCGATTTACAGAATTACCAAAGTACCACCGATTTACAGAATTACTATTT
Found at i:22528022 original size:27 final size:27
Alignment explanation
Indices: 22527894--22528014 Score: 154
Period size: 27 Copynumber: 4.5 Consensus size: 27
22527884 ATTACCAAAG
* *
22527894 TACCCCCGATTTACATAATTA-TCGTTT
1 TACCCTCGATTTACAGAATTACT-GTTT
*
22527921 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* * *
22527948 TACCATCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
22527975 TACCCTTGATTTACAGAATTACTGGTT
1 TACCCTCGATTTACAGAATTACTGTTT
22528002 TACCCTCGATTTA
1 TACCCTCGATTTA
22528015 TAAAATTATT
Statistics
Matches: 80, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
27 80 1.00
ACGTcount: A:0.27, C:0.22, G:0.10, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:22528032 original size:27 final size:27
Alignment explanation
Indices: 22528002--22528247 Score: 166
Period size: 27 Copynumber: 9.1 Consensus size: 27
22527992 ATTACTGGTT
**
22528002 TACCCTCGATTTATAAAATTATTAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* * * *
22528029 TACCATTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
*
22528056 TACCCTCGA-TCAGTAAAATTACCAAAA
1 TACCCTCGATTTA-TAAAATTACCAAAA
* * * *
22528083 TACCCT-GGTCTGA-AAAATTGCTAAAA
1 TACCCTCGAT-TTATAAAATTACCAAAA
* * *
22528109 TACCC-CTGGTTTGTAAAATTACCAACA
1 TACCCTC-GATTTATAAAATTACCAAAA
* *
22528136 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTATAAAATTACCAAAA
* * * *
22528163 TACCACT-GGTTTGTGAAATTACCGAAA
1 TACC-CTCGATTTATAAAATTACCAAAA
* *
22528190 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
*
22528217 TACCC-CTGATTTACAAAATTA-CAGAAA
1 TACCCTC-GATTTATAAAATTACCA-AAA
22528244 TACC
1 TACC
22528248 TTTGACTTTC
Statistics
Matches: 173, Mismatches: 34, Indels: 24
0.75 0.15 0.10
Matches are distributed among these distances:
26 25 0.14
27 145 0.84
28 3 0.02
ACGTcount: A:0.41, C:0.22, G:0.09, T:0.29
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACCAAAA
Found at i:22528042 original size:54 final size:54
Alignment explanation
Indices: 22527928--22528051 Score: 149
Period size: 54 Copynumber: 2.3 Consensus size: 54
22527918 TTTTACCCTC
* * *** *
22527928 GATTTACAGAATTACCGTTTTACCATCGATTTATAGAATTACTATTTTACCCTT
1 GATTTACAGAATTACCGGTTTACCATCGATTTATAAAATTACTAAAATACCATT
* * *
22527982 GATTTACAGAATTACTGGTTTACCCTCGATTTATAAAATTATTAAAATACCATT
1 GATTTACAGAATTACCGGTTTACCATCGATTTATAAAATTACTAAAATACCATT
* *
22528036 GGTTTACAAAATTACC
1 GATTTACAGAATTACC
22528052 AAAATACCCT
Statistics
Matches: 58, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 58 1.00
ACGTcount: A:0.34, C:0.17, G:0.10, T:0.40
Consensus pattern (54 bp):
GATTTACAGAATTACCGGTTTACCATCGATTTATAAAATTACTAAAATACCATT
Found at i:22528087 original size:81 final size:80
Alignment explanation
Indices: 22528002--22528304 Score: 220
Period size: 81 Copynumber: 3.7 Consensus size: 80
22527992 ATTACTGGTT
*
22528002 TACCCTCGATTTATAAAATTATTAAAATACCATTGGTTTACAAAATTACCAAAATACCCTCGA-T
1 TACCCT-GATTTATAAAATTACTAAAATACCATTGGTTTACAAAATTACCAAAATACCC-CGAGT
*
22528066 CAGTAAAATTACCAAAA
64 TAGTAAAATTACCAAAA
* * * ** ** * *
22528083 TACCCTGGTCTGA-AAAATTGCTAAAATACCCCTGGTTTGTAAAATTACCAACATACCCCTAGTT
1 TACCCTGAT-TTATAAAATTACTAAAATACCATTGGTTTACAAAATTACCAAAATACCCCGAGTT
*
22528147 TGTAAAATTACCAAAA
65 AGTAAAATTACCAAAA
* * * ** * *** ** *
22528163 TACCACTGGTTTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATT
1 TACC-CTGATTTATAAAATTACTAAAATACCATTGGTTTACAAAATTACCAAAATACCCC-GAGT
*
22528228 TA-CAAAATTA-CAGAAA
64 TAGTAAAATTACCA-AAA
* * **
22528244 TACCTTTGACTTTCTAAAAATTA-TAGAAATACCATTGGTTTACAAAATTACTGAAATACCC
1 TACC-CTGA-TTTAT-AAAATTACTA-AAATACCATTGGTTTACAAAATTACCAAAATACCC
22528305 TTGGTTTGTC
Statistics
Matches: 171, Mismatches: 42, Indels: 16
0.75 0.18 0.07
Matches are distributed among these distances:
79 2 0.01
80 63 0.37
81 66 0.39
82 7 0.04
83 33 0.19
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (80 bp):
TACCCTGATTTATAAAATTACTAAAATACCATTGGTTTACAAAATTACCAAAATACCCCGAGTTA
GTAAAATTACCAAAA
Found at i:22528127 original size:80 final size:81
Alignment explanation
Indices: 22528016--22528222 Score: 222
Period size: 80 Copynumber: 2.6 Consensus size: 81
22528006 CTCGATTTAT
* ** **
22528016 AAAATTATTAAAATACCATTGGTTTACAAAATTACCAAAATACCCTCGA-TCAGTAAAATTACCA
1 AAAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCC-CGAGTCAGTAAAATTACCA
22528080 AAATACC-CTGGTCTGA
65 AAATACCACTGGTCTGA
* * * **
22528096 AAAATTGCTAAAATACCCCTGGTTTGTAAAATTACCAACATACCCCTAGTTTGTAAAATTACCAA
1 AAAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCGAGTCAGTAAAATTACCAA
* *
22528161 AATACCACTGGTTTGT
66 AATACCACTGGTCTGA
* ** **
22528177 GAAATTACCGAAATA-CCCTCAATTTGTAAAATTACCAAAATACCCC
1 AAAATTACTAAAATACCCCT-GGTTTGTAAAATTACCAAAATACCCC
22528223 TGATTTACAA
Statistics
Matches: 105, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
79 2 0.02
80 62 0.59
81 41 0.39
ACGTcount: A:0.41, C:0.22, G:0.09, T:0.28
Consensus pattern (81 bp):
AAAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCGAGTCAGTAAAATTACCAA
AATACCACTGGTCTGA
Found at i:22528172 original size:54 final size:52
Alignment explanation
Indices: 22528043--22528247 Score: 205
Period size: 54 Copynumber: 3.8 Consensus size: 52
22528033 ATTGGTTTAC
** * * *
22528043 AAAATTACCAAAATA-CCCTCGATCAGTAAAATTACCAAAATACCCTGGTCTGA
1 AAAATTACCAAAATACCCCT-GATTTGTAAAATTACC-AAATACCCTAGTTTGT
* * *
22528096 AAAATTGCTAAAATACCCCTGGTTTGTAAAATTACCAACATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTGATTTGTAAAATTACCAA-ATA-CCCTAGTTTGT
* * * *
22528150 AAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAATACCCTCAATTTGT
1 AAAATTACCAAAATACCCCTGATTTGTAAAATTACC-AAATACCCT-AGTTTGT
** *
22528204 AAAATTACCAAAATACCCCTGATTTACAAAATTACAGAAATACC
1 AAAATTACCAAAATACCCCTGATTTGTAAAATTAC-CAAATACC
22528248 TTTGACTTTC
Statistics
Matches: 127, Mismatches: 19, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
52 2 0.02
53 33 0.26
54 90 0.71
55 2 0.02
ACGTcount: A:0.41, C:0.22, G:0.09, T:0.27
Consensus pattern (52 bp):
AAAATTACCAAAATACCCCTGATTTGTAAAATTACCAAATACCCTAGTTTGT
Found at i:22528299 original size:27 final size:27
Alignment explanation
Indices: 22528226--22528311 Score: 86
Period size: 27 Copynumber: 3.1 Consensus size: 27
22528216 ATACCCCTGA
* * *
22528226 TTTACAAAATTACAGAAATACCTTTGAC
1 TTTACAAAATTACTGAAATACCATTG-G
22528254 TTT-CTAAAAATTA-TAGAAATACCATTGG
1 TTTAC--AAAATTACT-GAAATACCATTGG
*
22528282 TTTACAAAATTACTGAAATACCCTTGG
1 TTTACAAAATTACTGAAATACCATTGG
22528309 TTT
1 TTT
22528312 GTCGATTTTC
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
27 23 0.47
28 7 0.14
29 19 0.39
ACGTcount: A:0.40, C:0.15, G:0.09, T:0.36
Consensus pattern (27 bp):
TTTACAAAATTACTGAAATACCATTGG
Found at i:22528392 original size:26 final size:27
Alignment explanation
Indices: 22528365--22528455 Score: 121
Period size: 27 Copynumber: 3.4 Consensus size: 27
22528355 ACCACTATTA
*
22528365 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* *
22528392 GATAAAGTGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* * *
22528419 GGTAAAGTGACCGTATA-CCCCTGTAT
1 GGTAAAATGACCGTAAAGCCCCTGTAG
22528445 GGTAAAATGAC
1 GGTAAAATGAC
22528456 GAATATGCCC
Statistics
Matches: 57, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
26 18 0.32
27 39 0.68
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:22529308 original size:25 final size:25
Alignment explanation
Indices: 22529274--22529356 Score: 150
Period size: 25 Copynumber: 3.4 Consensus size: 25
22529264 AAAGGGGTAC
22529274 GCCCCAGTTTATCGAAATGGGCTTT
1 GCCCCAGTTTATCGAAATGGGCTTT
22529299 GCCCCAGTTTATCGAAATGGGCTTT
1 GCCCCAGTTTATCGAAATGGGCTTT
*
22529324 GCCCCAGTTTATC-AAAAGGGCTTT
1 GCCCCAGTTTATCGAAATGGGCTTT
22529348 GCCCCAGTT
1 GCCCCAGTT
22529357 ATTAAAAGAG
Statistics
Matches: 57, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
24 19 0.33
25 38 0.67
ACGTcount: A:0.20, C:0.27, G:0.23, T:0.30
Consensus pattern (25 bp):
GCCCCAGTTTATCGAAATGGGCTTT
Found at i:22529369 original size:24 final size:24
Alignment explanation
Indices: 22529274--22529369 Score: 131
Period size: 25 Copynumber: 3.9 Consensus size: 24
22529264 AAAGGGGTAC
*
22529274 GCCCCAGTTTATCGAAATGGGCTTT
1 GCCCCAGTTTATC-AAAAGGGCTTT
*
22529299 GCCCCAGTTTATCGAAATGGGCTTT
1 GCCCCAGTTTATC-AAAAGGGCTTT
22529324 GCCCCAGTTTATCAAAAGGGCTTT
1 GCCCCAGTTTATCAAAAGGGCTTT
*
22529348 GCCCCAG-TTATTAAAAGAGGCT
1 GCCCCAGTTTATCAAAAG-GGCT
22529370 AGGCCTCTAA
Statistics
Matches: 68, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
23 9 0.13
24 21 0.31
25 38 0.56
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.29
Consensus pattern (24 bp):
GCCCCAGTTTATCAAAAGGGCTTT
Found at i:22529619 original size:31 final size:31
Alignment explanation
Indices: 22529574--22529745 Score: 263
Period size: 31 Copynumber: 5.5 Consensus size: 31
22529564 CCGTTTACAG
* *
22529574 TAAGGCTTTGGCCCAGTGATATAATTTATGA
1 TAAGGCTTCGGCCCAGTGATATGATTTATGA
* * **
22529605 AAAGGCTTCAGCCCAAAGATATGATTTATGA
1 TAAGGCTTCGGCCCAGTGATATGATTTATGA
22529636 TAAGGCTTCGGCCCAGTGATATGATTTATGA
1 TAAGGCTTCGGCCCAGTGATATGATTTATGA
*
22529667 TAAGGCTTCGGCCCGGTGATATGATTTATGA
1 TAAGGCTTCGGCCCAGTGATATGATTTATGA
*
22529698 TAAGGCTTCAGCCCAGTGATATGATTTATGA
1 TAAGGCTTCGGCCCAGTGATATGATTTATGA
*
22529729 AAAGGCTTCGGCCCAGT
1 TAAGGCTTCGGCCCAGT
22529746 ACCCGTTAAA
Statistics
Matches: 126, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 126 1.00
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.30
Consensus pattern (31 bp):
TAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:22532194 original size:27 final size:27
Alignment explanation
Indices: 22532026--22532494 Score: 168
Period size: 27 Copynumber: 17.3 Consensus size: 27
22532016 CCAATTATTG
**
22532026 AAATACCCTCG-TCTTGTAAAATTACCA
1 AAATACCCTCGAT-TTACAAAATTACCA
* * * *
22532053 AAGTACCCCCGATTTACATAATTACCG
1 AAATACCCTCGATTTACAAAATTACCA
*** * * * *
22532080 TTTTACCCTCAATTTACAGAATTAACG
1 AAATACCCTCGATTTACAAAATTACCA
*** * * *
22532107 TTTTACCCTCGATTTATAGAATTACTA
1 AAATACCCTCGATTTACAAAATTACCA
*** * *
22532134 TTTTACCC-CTGATTTACAGAATTACTA
1 AAATACCCTC-GATTTACAAAATTACCA
*** *
22532161 TTTTACCCTCGATTTACAAAATTACTA
1 AAATACCCTCGATTTACAAAATTACCA
* *
22532188 AAATACCCTTGGTTTACAAAATTACCA
1 AAATACCCTCGATTTACAAAATTACCA
* *
22532215 AAATACCCTCGA-TCAGTAAAATTACCA
1 AAATACCCTCGATTTA-CAAAATTACCA
* ** * *
22532242 AAATACCCTAG-TTTGTAAAATTGCTA
1 AAATACCCTCGATTTACAAAATTACCA
*
22532268 AAATACCC-CTGGTTT-CTAAAATTACCA
1 AAATACCCTC-GATTTAC-AAAATTACCA
* **
22532295 AAATACCC-CTAGTTTGTAAAATTACCA
1 AAATACCCTCGA-TTTACAAAATTACCA
* * * *** *
22532322 AAAAACAACT-GGTTTGTGAAATTACCG
1 AAATAC-CCTCGATTTACAAAATTACCA
* **
22532349 AAATACCCTCAATTTGTAAAATTACCA
1 AAATACCCTCGATTTACAAAATTACCA
*
22532376 AAATACCC-CTGATTTACAAAATTACAA
1 AAATACCCTC-GATTTACAAAATTACCA
* * *
22532403 AAATACCTTTGACTTT-CTAAAAATTA-TA
1 AAATACCCTCGA-TTTAC--AAAATTACCA
* * * **
22532431 GAAATACCATTGGTTTACAAAATTACTG
1 -AAATACCCTCGATTTACAAAATTACCA
* * * *
22532459 AAATACCCTTGGTTTATAAATTTACCA
1 AAATACCCTCGATTTACAAAATTACCA
*
22532486 AAACACCCT
1 AAATACCCT
22532495 TGTAGGGTGA
Statistics
Matches: 351, Mismatches: 70, Indels: 42
0.76 0.15 0.09
Matches are distributed among these distances:
26 24 0.07
27 298 0.85
28 11 0.03
29 18 0.05
ACGTcount: A:0.38, C:0.22, G:0.08, T:0.32
Consensus pattern (27 bp):
AAATACCCTCGATTTACAAAATTACCA
Found at i:22532222 original size:54 final size:54
Alignment explanation
Indices: 22532164--22532494 Score: 226
Period size: 54 Copynumber: 6.1 Consensus size: 54
22532154 ATTACTATTT
* *
22532164 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAA
* * * * * *
22532218 TACCCTCGA-TCAGTAAAATTACCAAAATACCC-TAGTTTGTAAAATTGCTAAAA
1 TACCCTCGATTTA-CAAAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAA
* * * *
22532271 TACCC-CTGGTTT-CTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAA
1 TACCCTC-GATTTAC-AAAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAA
* * * *** * *** *
22532325 AACAACT-GGTTTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAA
1 TAC-CCTCGATTTACAAAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAA
* * * * *
22532379 TACCC-CTGATTTACAAAATTACAAAAATACCTTTGACTTTCTAAAAATTA-TAGAAA
1 TACCCTC-GATTTACAAAATTACCAAAATACCCTTG-GTTTAT-AAAATTACCA-AAA
* * * ** *
22532435 TACCATTGGTTTACAAAATTACTGAAATACCCTTGGTTTATAAATTTACCAAAA
1 TACCCTCGATTTACAAAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAA
*
22532489 CACCCT
1 TACCCT
22532495 TGTAGGGTGA
Statistics
Matches: 215, Mismatches: 47, Indels: 30
0.74 0.16 0.10
Matches are distributed among these distances:
52 1 0.00
53 43 0.20
54 122 0.57
55 11 0.05
56 38 0.18
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (54 bp):
TACCCTCGATTTACAAAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAA
Found at i:22532222 original size:81 final size:80
Alignment explanation
Indices: 22532043--22532321 Score: 185
Period size: 81 Copynumber: 3.5 Consensus size: 80
22532033 CTCGTCTTGT
* * * * *
22532043 AAAATTACCAAAGTACCCCCGATTTACATAATTACCGTTTTACCCTCAATTTACAGAATTAACGT
1 AAAATTACCAAAATACCCCTGATTTACA-AATTACCATTTTACCCTCGATTTACAAAATT-AC-T
** * * *
22532108 --TTTACCCTCGATTTAT
63 AAAATACCCTTGGTTTAC
* * *** *
22532124 AGAATTACTATTTTACCCCTGATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTACTAA
1 AAAATTACCAAAATACCCCTGATTTACA-AATTACCATTTTACCCTCGATTTACAAAATTACTAA
22532189 AATACCCTTGGTTTAC
65 AATACCCTTGGTTTAC
* *** * ** *
22532205 AAAATTACCAAAATA-CCCTCGATCAGTA-AAATTACCAAAATACCCTAG-TTTGTAAAATTGCT
1 AAAATTACCAAAATACCCCT-GAT--TTACAAATTACCATTTTACCCTCGATTTACAAAATTACT
*
22532267 AAAATACCCCTGGTTT-C
63 AAAATACCCTTGGTTTAC
*
22532284 TAAAATTACCAAAATACCCCTAGTTTGTA-AAATTACCA
1 -AAAATTACCAAAATACCCCT-GATT-TACAAATTACCA
22532322 AAAAACAACT
Statistics
Matches: 156, Mismatches: 34, Indels: 17
0.75 0.16 0.08
Matches are distributed among these distances:
79 2 0.01
80 58 0.37
81 93 0.60
82 1 0.01
83 2 0.01
ACGTcount: A:0.37, C:0.23, G:0.08, T:0.33
Consensus pattern (80 bp):
AAAATTACCAAAATACCCCTGATTTACAAATTACCATTTTACCCTCGATTTACAAAATTACTAAA
ATACCCTTGGTTTAC
Found at i:22532378 original size:81 final size:81
Alignment explanation
Indices: 22532178--22532385 Score: 208
Period size: 80 Copynumber: 2.6 Consensus size: 81
22532168 CTCGATTTAC
* * ** *
22532178 AAAATTACTAAAATACCCTTGGTTTAC-AAAATTACCAAAATA-CCCTCGATCAGTAAAATTACC
1 AAAATTACCAAAATACCCCTAATTT-CTAAAATTACCAAAATACCCCTAGATCAGTAAAATTACC
* *
22532241 AAAATACCCTAGTTTGT
65 AAAAAACACTAGTTTGT
* * ** **
22532258 AAAATTGCTAAAATACCCCTGGTTTCTAAAATTACCAAAATACCCCTAG-TTTGTAAAATTACCA
1 AAAATTACCAAAATACCCCTAATTTCTAAAATTACCAAAATACCCCTAGATCAGTAAAATTACCA
*
22532322 AAAAACAACTGGTTTGT
66 AAAAAC-ACTAGTTTGT
* * *
22532339 GAAATTACCGAAATA-CCCTCAATTTGTAAAATTACCAAAATACCCCT
1 AAAATTACCAAAATACCCCT-AATTTCTAAAATTACCAAAATACCCCT
22532386 GATTTACAAA
Statistics
Matches: 109, Mismatches: 15, Indels: 7
0.83 0.11 0.05
Matches are distributed among these distances:
79 1 0.01
80 60 0.55
81 48 0.44
ACGTcount: A:0.42, C:0.22, G:0.08, T:0.28
Consensus pattern (81 bp):
AAAATTACCAAAATACCCCTAATTTCTAAAATTACCAAAATACCCCTAGATCAGTAAAATTACCA
AAAAACACTAGTTTGT
Found at i:22532557 original size:27 final size:27
Alignment explanation
Indices: 22532513--22532601 Score: 101
Period size: 27 Copynumber: 3.3 Consensus size: 27
22532503 GAAATGACTA
**
22532513 AAATACCCCTATTA-GGTAAAAAGACCGT
1 AAATA-CCCTA-TAGGGTAAAGTGACCGT
22532541 AAATACCCTATAGGGTAAAGTGACCGT
1 AAATACCCTATAGGGTAAAGTGACCGT
** *
22532568 AAAGCCCCTGTAGGGTAAAGTGACCGT
1 AAATACCCTATAGGGTAAAGTGACCGT
22532595 -AATACCC
1 AAATACCC
22532602 CTGTACGGTA
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
26 7 0.13
27 41 0.77
28 5 0.09
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.20
Consensus pattern (27 bp):
AAATACCCTATAGGGTAAAGTGACCGT
Found at i:22532602 original size:27 final size:27
Alignment explanation
Indices: 22532535--22532618 Score: 109
Period size: 27 Copynumber: 3.1 Consensus size: 27
22532525 TAGGTAAAAA
*
22532535 GACCGTAAATA-CCCTATAGGGTAAAGT
1 GACCGT-AATACCCCTGTAGGGTAAAGT
22532562 GACCGTAA-AGCCCCTGTAGGGTAAAGT
1 GACCGTAATA-CCCCTGTAGGGTAAAGT
* *
22532589 GACCGTAATACCCCTGTACGGTAAAAT
1 GACCGTAATACCCCTGTAGGGTAAAGT
22532616 GAC
1 GAC
22532619 GAATATGCCC
Statistics
Matches: 51, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
25 1 0.02
26 2 0.04
27 47 0.92
28 1 0.02
ACGTcount: A:0.33, C:0.23, G:0.24, T:0.20
Consensus pattern (27 bp):
GACCGTAATACCCCTGTAGGGTAAAGT
Found at i:22533561 original size:248 final size:248
Alignment explanation
Indices: 22533116--22533610 Score: 927
Period size: 248 Copynumber: 2.0 Consensus size: 248
22533106 TTTTGGGCCT
*
22533116 AAAAGCCCGAATTTGATAAAGTGGGTTAATGATCATTGTTTAAACACTCGAAAATATTGATAATT
1 AAAAGCCCGAATTTAATAAAGTGGGTTAATGATCATTGTTTAAACACTCGAAAATATTGATAATT
*
22533181 GTTGATGAACATGGAAAAGCCTGATATTTGGTAAAATTACAAAATTACCCTTATAATGTGAAAAA
66 GTTGATGAACATGGAAAACCCTGATATTTGGTAAAATTACAAAATTACCCTTATAATGTGAAAAA
*
22533246 TGACTGTTTTGCCCTTGTGGGCAAGTGACTGACTTGGACTGTGTGGTTGACGGATTTGATTGTGA
131 TGACTGTTTTGCCATTGTGGGCAAGTGACTGACTTGGACTGTGTGGTTGACGGATTTGATTGTGA
22533311 ATATATGTTGGTGATATGAATGACTTGACTGTGATTTTTTTATTCAAATATGC
196 ATATATGTTGGTGATATGAATGACTTGACTGTGATTTTTTTATTCAAATATGC
* *
22533364 AAAAGCTCGAATTTAATAAAGTGGGTTAATGATCATTGTTTAAACACTCGGAAATATTGATAATT
1 AAAAGCCCGAATTTAATAAAGTGGGTTAATGATCATTGTTTAAACACTCGAAAATATTGATAATT
* *
22533429 GTTGATGAACGTGGAAAACCCTGATATTTGGTAAAATTACGAAATTACCCTTATAATGTGAAAAA
66 GTTGATGAACATGGAAAACCCTGATATTTGGTAAAATTACAAAATTACCCTTATAATGTGAAAAA
22533494 TGACTGTTTTGCCATTGTGGGCAAGTGACTGACTTGGACTGTGTGGTTGACGGATTTGATTGTGA
131 TGACTGTTTTGCCATTGTGGGCAAGTGACTGACTTGGACTGTGTGGTTGACGGATTTGATTGTGA
22533559 ATATATGTTGGTGATATGAATGACTTGACTGTGATTTTTTTATTCAAATATG
196 ATATATGTTGGTGATATGAATGACTTGACTGTGATTTTTTTATTCAAATATG
22533611 GGCATGACAT
Statistics
Matches: 240, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
248 240 1.00
ACGTcount: A:0.32, C:0.11, G:0.22, T:0.36
Consensus pattern (248 bp):
AAAAGCCCGAATTTAATAAAGTGGGTTAATGATCATTGTTTAAACACTCGAAAATATTGATAATT
GTTGATGAACATGGAAAACCCTGATATTTGGTAAAATTACAAAATTACCCTTATAATGTGAAAAA
TGACTGTTTTGCCATTGTGGGCAAGTGACTGACTTGGACTGTGTGGTTGACGGATTTGATTGTGA
ATATATGTTGGTGATATGAATGACTTGACTGTGATTTTTTTATTCAAATATGC
Found at i:22533713 original size:25 final size:25
Alignment explanation
Indices: 22533674--22533764 Score: 139
Period size: 25 Copynumber: 3.7 Consensus size: 25
22533664 AGGAAGTGCT
**
22533674 AAAAGGGCTACGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
22533699 AAAAGGGCTTTGCCCCAGTTTTCCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
22533724 AAAAGGGCTTTGCCCCAGTTTATC-
1 AAAAGGGCTTTGCCCCAGTTTACCG
22533748 AAAAGGGCTTTGCCCCA
1 AAAAGGGCTTTGCCCCA
22533765 ATTATTAAAA
Statistics
Matches: 61, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
24 17 0.28
25 44 0.72
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:22533775 original size:24 final size:23
Alignment explanation
Indices: 22533699--22533780 Score: 92
Period size: 24 Copynumber: 3.4 Consensus size: 23
22533689 CAGTTTACCG
*
22533699 AAAAGGGCTTTGCCCCAGTTTTCCG
1 AAAAGGGCTTTGCCCCAGTTTT--A
*
22533724 AAAAGGGCTTTGCCCCAGTTTATC
1 AAAAGGGCTTTGCCCCAGTTT-TA
*
22533748 AAAAGGGCTTTGCCCCAATTATTA
1 AAAAGGGCTTTGCCCCAGTT-TTA
*
22533772 AAAAAGGCT
1 AAAAGGGCT
22533781 AGGCCTCTAG
Statistics
Matches: 51, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
24 28 0.55
25 22 0.43
26 1 0.02
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (23 bp):
AAAAGGGCTTTGCCCCAGTTTTA
Found at i:22533777 original size:49 final size:50
Alignment explanation
Indices: 22533674--22533778 Score: 133
Period size: 49 Copynumber: 2.1 Consensus size: 50
22533664 AGGAAGTGCT
* **
22533674 AAAAGGGCTACGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTTCCG
1 AAAAGGGCTACGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAATTTTCAA
** *
22533724 AAAAGGGCTTTGCCCCAGTTTATC-AAAAGGGCTTTGCCCCAATTATT-AA
1 AAAAGGGCTACGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAATT-TTCAA
22533773 AAAAGG
1 AAAAGG
22533779 CTAGGCCTCT
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
49 25 0.52
50 23 0.48
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.24
Consensus pattern (50 bp):
AAAAGGGCTACGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAATTTTCAA
Found at i:22533984 original size:31 final size:31
Alignment explanation
Indices: 22533949--22534058 Score: 166
Period size: 31 Copynumber: 3.5 Consensus size: 31
22533939 CGTTTATAGT
22533949 AAAGGCTTCAGCCCAGTGATATGATTTATGA
1 AAAGGCTTCAGCCCAGTGATATGATTTATGA
* * *
22533980 AAAGGCATCGGCCCAGAGATATGATTTATGA
1 AAAGGCTTCAGCCCAGTGATATGATTTATGA
* *
22534011 TAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCAGCCCAGTGATATGATTTATGA
*
22534042 AAAGGCTTCAACCCAGT
1 AAAGGCTTCAGCCCAGT
22534059 ACCCGTTAAA
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 70 1.00
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (31 bp):
AAAGGCTTCAGCCCAGTGATATGATTTATGA
Found at i:22535734 original size:21 final size:21
Alignment explanation
Indices: 22535710--22535752 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
22535700 CTAACTATAT
22535710 ATGCTGGAATGAAATACGTGA
1 ATGCTGGAATGAAATACGTGA
* *
22535731 ATGCTGGACTGAAATATGTGA
1 ATGCTGGAATGAAATACGTGA
22535752 A
1 A
22535753 CATATATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.37, C:0.09, G:0.28, T:0.26
Consensus pattern (21 bp):
ATGCTGGAATGAAATACGTGA
Found at i:22535986 original size:56 final size:56
Alignment explanation
Indices: 22535920--22536056 Score: 220
Period size: 56 Copynumber: 2.4 Consensus size: 56
22535910 GACCATGGAA
* **
22535920 TCGATATATGTGTGCGAGTAAGATCATGTTTTATACGTTGGCATCGATATGTGACT
1 TCGATATATGTGTGCGAGTAAGACCACATTTTATACGTTGGCATCGATATGTGACT
22535976 TCGATATATGTGTGCGAGTAAGACCACATTTTATACGTTGGCATCGATATGTGACT
1 TCGATATATGTGTGCGAGTAAGACCACATTTTATACGTTGGCATCGATATGTGACT
* **
22536032 CCGATATATGTGTATGAGTAAGACC
1 TCGATATATGTGTGCGAGTAAGACC
22536057 CAGTCCGGGG
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 75 1.00
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.34
Consensus pattern (56 bp):
TCGATATATGTGTGCGAGTAAGACCACATTTTATACGTTGGCATCGATATGTGACT
Found at i:22548743 original size:42 final size:42
Alignment explanation
Indices: 22548665--22548800 Score: 141
Period size: 43 Copynumber: 3.2 Consensus size: 42
22548655 ATTTGGGATG
* *
22548665 TTGGCATCGACT-TATGATTTACGTGTAAGACAATGTCTAGGACA
1 TTGGCATCGA-TATTTGA-TTACGTGTAAGACCATGTCT-GGACA
* *
22548709 TTGGCATCG-TATTTGCTTTCGTGTAAGACCATGTCTGGTACA
1 TTGGCATCGATATTTGATTACGTGTAAGACCATGTCTGG-ACA
* * * *
22548751 GTGGGATCGATATTTGATTACATGTAAGACCACGTCTGGGACA
1 TTGGCATCGATATTTGATTACGTGTAAGACCATGTCT-GGACA
22548794 TTGGCAT
1 TTGGCAT
22548801 TGTACGAGCT
Statistics
Matches: 76, Mismatches: 12, Indels: 9
0.78 0.12 0.09
Matches are distributed among these distances:
41 2 0.03
42 29 0.38
43 34 0.45
44 11 0.14
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (42 bp):
TTGGCATCGATATTTGATTACGTGTAAGACCATGTCTGGACA
Found at i:22559225 original size:43 final size:41
Alignment explanation
Indices: 22559068--22559226 Score: 124
Period size: 43 Copynumber: 3.7 Consensus size: 41
22559058 TATGTGTTTT
* *
22559068 CATGTAAGACCACATCTCA-GACGTTGGCATCGACTTATGATTTA
1 CATGTAAGACCACGTCT-AGGACATTGGCATCGA-TT-TGA-TTA
* * * *
22559112 CATGTAAGACCATGTATGGGACATTGGCATCGCATTTGATTT
1 CATGTAAGACCACGTCTAGGACATTGGCATCG-ATTTGATTA
** * * *
22559154 TGTGTAAGACC-CTGTCTAAGATAGTGGCATCGATATCTGATTA
1 CATGTAAGACCAC-GTCTAGGACATTGGCATCGAT-T-TGATTA
*
22559197 CAAGTAAGACCACGTCTAGGACATTGGCAT
1 CATGTAAGACCACGTCTAGGACATTGGCAT
22559227 TGTACGAGCT
Statistics
Matches: 88, Mismatches: 21, Indels: 13
0.72 0.17 0.11
Matches are distributed among these distances:
41 2 0.02
42 26 0.30
43 30 0.34
44 29 0.33
45 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (41 bp):
CATGTAAGACCACGTCTAGGACATTGGCATCGATTTGATTA
Found at i:22560817 original size:47 final size:47
Alignment explanation
Indices: 22560746--22561331 Score: 1000
Period size: 47 Copynumber: 12.5 Consensus size: 47
22560736 CCCTTCGGGA
* * * *
22560746 CTTATCACATTTATACACTTTCACATCCATCACGTT-GGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTAGG-CATTCGGC
*
22560793 CCTATCACATATATACACTTTCACATTCATCACATTAGGCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTAGGCATTCGGC
22560840 CTTATCACATATATACACTTTCACATTCATCACATTAGGCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTAGGCATTCGGC
22560887 CTTATCACATATATACACTTTCACATTCATCACATTAGGCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTAGGCATTCGGC
* * *
22560934 CTTATCACATATATACACTTTCACATTCATCTCA-TCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTAGG-CATTCGGC
* *
22560981 CTTATCACATATATACACTTTCACATTCATCACA-TCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTAGG-CATTCGGC
22561028 CTTATCACATATATACACTTTCACATTCATCACATTAGGCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTAGGCATTCGGC
22561075 CTTATCACATATATACACTTTCACATTCATCACATTAGGCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTAGGCATTCGGC
22561122 CTTATCACATATATACACTTTCACATTCATCACATTAGGCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTAGGCATTCGGC
22561169 CTTATCACATATATACACTTTCACATTCATCACATTAGGCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTAGGCATTCGGC
22561216 CTTATCACATATATACACTTTCACATTCATCACATTAGGCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTAGGCATTCGGC
* *
22561263 CTTATCACATATATACACTTTCACATTCATCACA-TCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTAGG-CATTCGGC
22561310 CTTATCACATATATACACTTTC
1 CTTATCACATATATACACTTTC
22561332 CAATTAATAA
Statistics
Matches: 521, Mismatches: 14, Indels: 8
0.96 0.03 0.01
Matches are distributed among these distances:
46 6 0.01
47 510 0.98
48 5 0.01
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTAGGCATTCGGC
Found at i:22560849 original size:22 final size:22
Alignment explanation
Indices: 22560821--22560943 Score: 88
Period size: 22 Copynumber: 5.3 Consensus size: 22
22560811 TTTCACATTC
22560821 ATCACATTAGGCATTCGGCCTT
1 ATCACATTAGGCATTCGGCCTT
** * *
22560843 ATCACATATATACACTTTC-ACATT
1 ATCACAT-TAGGCA--TTCGGCCTT
22560867 CATCACATTAGGCATTCGGCCTT
1 -ATCACATTAGGCATTCGGCCTT
** * *
22560890 ATCACATATATACACTTTC-ACATT
1 ATCACAT-TAGGCA--TTCGGCCTT
22560914 CATCACATTAGGCATTCGGCCTT
1 -ATCACATTAGGCATTCGGCCTT
22560937 ATCACAT
1 ATCACAT
22560944 ATATACACTT
Statistics
Matches: 75, Mismatches: 16, Indels: 20
0.68 0.14 0.18
Matches are distributed among these distances:
22 27 0.36
23 14 0.19
24 14 0.19
25 20 0.27
ACGTcount: A:0.29, C:0.28, G:0.10, T:0.33
Consensus pattern (22 bp):
ATCACATTAGGCATTCGGCCTT
Found at i:22564114 original size:40 final size:40
Alignment explanation
Indices: 22564081--22565152 Score: 1844
Period size: 40 Copynumber: 26.8 Consensus size: 40
22564071 CCAGCATGAT
* * * * *
22564081 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
* ** * *
22564121 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
*
22564161 TGCTCTTCG-GAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGAG-ACTTAGCCCGGATACATCACTAGCACGAA
*
22564201 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
* * ** * *
22564241 TGCTCTTTGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
*
22564281 TGCTCTTCG-GAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGAG-ACTTAGCCCGGATACATCACTAGCACGAA
22564321 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
22564361 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
22564401 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
22564441 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
22564481 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
22564521 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
22564561 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
22564601 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
22564641 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
22564681 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
22564721 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
22564761 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
22564801 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
22564841 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
22564881 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
22564921 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
*
22564961 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
* * ** * *
22565001 TGCTCTTTGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
22565041 TGCTCTTCG-GAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGAG-ACTTAGCCCGGATACATCACTAGCACGAA
*
22565081 TGCTCTTCGAGACTCAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
*
22565121 TGCTCTTCGGGACTTAGCCCGGATACATCACT
1 TGCTCTTCGAGACTTAGCCCGGATACATCACT
22565153 CTCAATTCTC
Statistics
Matches: 983, Mismatches: 43, Indels: 12
0.95 0.04 0.01
Matches are distributed among these distances:
39 3 0.00
40 977 0.99
41 3 0.00
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:22566605 original size:47 final size:47
Alignment explanation
Indices: 22566527--22566939 Score: 727
Period size: 47 Copynumber: 8.7 Consensus size: 47
22566517 CCCTTCGGGA
* * * * * *
22566527 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
22566574 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
22566621 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
22566668 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
22566715 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
22566762 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
22566809 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
22566856 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
22566905 CTTATCACATATATACACTTTCACATTCATCACAT
1 CTTATCACATATATACACTTTCACATTCATCACAT
22566940 AGAATCCTAA
Statistics
Matches: 352, Mismatches: 12, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
47 306 0.87
49 46 0.13
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:22567300 original size:42 final size:43
Alignment explanation
Indices: 22567235--22567348 Score: 133
Period size: 43 Copynumber: 2.7 Consensus size: 43
22567225 ATCACACTTA
22567235 TGATTTACGTGTAAGACCATGTCTGGGACA-TCGACATCG-TATT
1 TGATTT-CGTGTAAGACCATGTCTGGGACAGT-GACATCGATATT
* * *
22567278 TGATTTCGTGTAAGACCCTGTCTGGGATAGTGGCATCGATATT
1 TGATTTCGTGTAAGACCATGTCTGGGACAGTGACATCGATATT
* * **
22567321 TGATTACATGTAAGACCACATCTGGGAC
1 TGATTTCGTGTAAGACCATGTCTGGGAC
22567349 GTTGGCATTG
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
42 27 0.45
43 33 0.55
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (43 bp):
TGATTTCGTGTAAGACCATGTCTGGGACAGTGACATCGATATT
Found at i:22567355 original size:43 final size:42
Alignment explanation
Indices: 22567239--22567361 Score: 124
Period size: 43 Copynumber: 2.9 Consensus size: 42
22567229 CACTTATGAT
* * * *
22567239 TTACGTGTAAGACCATGTCTGGGACATCGACATCGTATTTGA
1 TTACGTGTAAGACCACGTCTGGGACGTTGGCATCGTATTTGA
* *
22567281 TTTCGTGTAAGACC-CTGTCTGGGATAG-TGGCATCGATATTTGA
1 TTACGTGTAAGACCAC-GTCTGGGA-CGTTGGCATCG-TATTTGA
* * *
22567324 TTACATGTAAGACCACATCTGGGACGTTGGCATTGTAT
1 TTACGTGTAAGACCACGTCTGGGACGTTGGCATCGTAT
22567362 GAACTTTCTG
Statistics
Matches: 65, Mismatches: 11, Indels: 10
0.76 0.13 0.12
Matches are distributed among these distances:
42 31 0.48
43 33 0.51
44 1 0.02
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (42 bp):
TTACGTGTAAGACCACGTCTGGGACGTTGGCATCGTATTTGA
Found at i:22572778 original size:6 final size:6
Alignment explanation
Indices: 22572769--22572801 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
22572759 AATAAAATTG
*
22572769 AAATGA AAATAA AAATAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAA
22572802 GATAAGAGGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:22576761 original size:27 final size:27
Alignment explanation
Indices: 22576723--22576787 Score: 121
Period size: 27 Copynumber: 2.4 Consensus size: 27
22576713 TGTTGATAAG
22576723 GTGGCTGTTGAAAAACATGAGGATTTT
1 GTGGCTGTTGAAAAACATGAGGATTTT
22576750 GTGGCTGTTGAAAAACATGAGGATTTT
1 GTGGCTGTTGAAAAACATGAGGATTTT
*
22576777 GTGGCTTTTGA
1 GTGGCTGTTGA
22576788 TTCCCTTGAC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.26, C:0.08, G:0.31, T:0.35
Consensus pattern (27 bp):
GTGGCTGTTGAAAAACATGAGGATTTT
Found at i:22578294 original size:31 final size:32
Alignment explanation
Indices: 22578259--22578331 Score: 121
Period size: 31 Copynumber: 2.3 Consensus size: 32
22578249 AATAACTATC
*
22578259 TTTTTATTATTTAACCTATAAATAAAGAT-GG
1 TTTTTATTATTTAACCTAGAAATAAAGATGGG
22578290 TTTTTATTATTTAACCTAGAAATAAAGATGGG
1 TTTTTATTATTTAACCTAGAAATAAAGATGGG
22578322 TTGTTTATTA
1 TT-TTTATTA
22578332 AACTGATTAA
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
31 28 0.72
32 4 0.10
33 7 0.18
ACGTcount: A:0.36, C:0.05, G:0.12, T:0.47
Consensus pattern (32 bp):
TTTTTATTATTTAACCTAGAAATAAAGATGGG
Found at i:22583506 original size:40 final size:40
Alignment explanation
Indices: 22583434--22583514 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 40
22583424 TCGGCATTTG
*** * *
22583434 AAGAATCACCTTGGACCTTGGACTGTTATTAATAAGTATT
1 AAGAATCACCTTGGACCACAGAATATTATTAATAAGTATT
*
22583474 AAGAATCACCTTGGACCACAGAATATTCTTAATAAGTATT
1 AAGAATCACCTTGGACCACAGAATATTATTAATAAGTATT
22583514 A
1 A
22583515 TTAAGTCTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (40 bp):
AAGAATCACCTTGGACCACAGAATATTATTAATAAGTATT
Found at i:22589013 original size:27 final size:27
Alignment explanation
Indices: 22588983--22589051 Score: 84
Period size: 27 Copynumber: 2.6 Consensus size: 27
22588973 ATATATATTG
* * *
22588983 CACATAGGGGTAAAACAGTCATCTTAC
1 CACATAAGGGCAAAACAATCATCTTAC
* *
22589010 CACATAAGGGCAAAATAATCATTTTAC
1 CACATAAGGGCAAAACAATCATCTTAC
*
22589037 CACATAAGGACAAAA
1 CACATAAGGGCAAAA
22589052 TAGTCATTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.45, C:0.20, G:0.14, T:0.20
Consensus pattern (27 bp):
CACATAAGGGCAAAACAATCATCTTAC
Found at i:22589052 original size:27 final size:27
Alignment explanation
Indices: 22589001--22589062 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
22588991 GGTAAAACAG
* *
22589001 TCATCTTACCACATAAGGGCAAAATAA
1 TCATTTTACCACATAAGGACAAAATAA
*
22589028 TCATTTTACCACATAAGGACAAAATAG
1 TCATTTTACCACATAAGGACAAAATAA
22589055 TCATTTTA
1 TCATTTTA
22589063 TCAATTAGGG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.42, C:0.19, G:0.10, T:0.29
Consensus pattern (27 bp):
TCATTTTACCACATAAGGACAAAATAA
Found at i:22589611 original size:36 final size:36
Alignment explanation
Indices: 22589566--22589637 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
22589556 TTTGAACCAG
*
22589566 CCACGAGGAGAGATCTGTTCACTCTATGCCAACTAA
1 CCACGAGGAGAGATCTGTCCACTCTATGCCAACTAA
22589602 CCACGAGGAGAGATCTGTCCACTCTATGCCAACTAA
1 CCACGAGGAGAGATCTGTCCACTCTATGCCAACTAA
22589638 AGACATTTTC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (36 bp):
CCACGAGGAGAGATCTGTCCACTCTATGCCAACTAA
Found at i:22589894 original size:30 final size:31
Alignment explanation
Indices: 22589837--22589894 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 31
22589827 TAAGATGAAT
* *
22589837 GGATAACAAGAAGAGAGTGTTCAGAAAGAGA
1 GGATAACAAGAAAAGAGTATTCAGAAAGAGA
* *
22589868 GGATAA-AAGAAAAGTGTATTCGGAAAG
1 GGATAACAAGAAAAGAGTATTCAGAAAG
22589895 TAAATAAAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
30 17 0.74
31 6 0.26
ACGTcount: A:0.48, C:0.05, G:0.31, T:0.16
Consensus pattern (31 bp):
GGATAACAAGAAAAGAGTATTCAGAAAGAGA
Found at i:22591643 original size:18 final size:18
Alignment explanation
Indices: 22591620--22591655 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
22591610 ATAAAAAGAA
22591620 AAACAAAATGTTTTGGTT
1 AAACAAAATGTTTTGGTT
22591638 AAACAAAATGTTTTGGTT
1 AAACAAAATGTTTTGGTT
22591656 CATCTTCTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.06, G:0.17, T:0.39
Consensus pattern (18 bp):
AAACAAAATGTTTTGGTT
Found at i:22592994 original size:45 final size:44
Alignment explanation
Indices: 22592930--22593088 Score: 214
Period size: 45 Copynumber: 3.6 Consensus size: 44
22592920 CGCACAGTAT
22592930 TATTCGGGCTTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
1 TATTCGGGC-TTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
22592975 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
1 TATTCGGG-CTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
* * * *
22593020 TATACGGGCTTTCTAGCCTAGCGGGCTATAATGCCGGTGAAATGA-
1 TATTCGGGCTTT-GAGCCTAGCAGGCTATAATGCCGGTGAGAT-AC
* *
22593065 TA-TCGAGCTTCGAGCCTAGCAGGC
1 TATTCGGGCTTTGAGCCTAGCAGGC
22593089 GAAATACCAG
Statistics
Matches: 102, Mismatches: 9, Indels: 8
0.86 0.08 0.07
Matches are distributed among these distances:
43 11 0.11
44 10 0.10
45 79 0.77
46 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (44 bp):
TATTCGGGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
Found at i:22598543 original size:28 final size:27
Alignment explanation
Indices: 22598511--22598569 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 27
22598501 AGTTAACTCC
* *
22598511 AAAAGAAGCTTTTC-TGGCTATCTTTGTT
1 AAAAGAAG-TCTTCATGGCTATCTCTG-T
22598539 AAAAGAAGTCTTCATGGCTATCTCTGT
1 AAAAGAAGTCTTCATGGCTATCTCTGT
22598566 AAAA
1 AAAA
22598570 CTAAGCCTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 9 0.32
28 19 0.68
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Consensus pattern (27 bp):
AAAAGAAGTCTTCATGGCTATCTCTGT
Found at i:22604098 original size:43 final size:42
Alignment explanation
Indices: 22603933--22604099 Score: 133
Period size: 43 Copynumber: 3.9 Consensus size: 42
22603923 CATAAGCTCG
* * *
22603933 TACAATGCC-ATATCCCAGATATGGTCTTACATGTTAA--CACA
1 TACAATGCCAATATCCCAAACATGGTCTTACACG-TAATCCA-A
* * * ** * *
22603974 TATCGATGCCACTATCCCAAACAAGGTCTTACACAAAATCGAT
1 TA-CAATGCCAATATCCCAAACATGGTCTTACACGTAATCCAA
* * *
22604017 TGACAATGCTAATGTCCCAGACATGGTCTTACACGTAATCTCAA
1 T-ACAATGCCAATATCCCAAACATGGTCTTACACGTAATC-CAA
* *
22604061 TACAATGCCAATGTCCCAAACATGGTCTTACATGTAATC
1 TACAATGCCAATATCCCAAACATGGTCTTACACGTAATC
22604100 ACATCTCGAT
Statistics
Matches: 97, Mismatches: 23, Indels: 10
0.75 0.18 0.08
Matches are distributed among these distances:
41 2 0.02
42 8 0.08
43 83 0.86
44 4 0.04
ACGTcount: A:0.34, C:0.26, G:0.13, T:0.27
Consensus pattern (42 bp):
TACAATGCCAATATCCCAAACATGGTCTTACACGTAATCCAA
Found at i:22605178 original size:13 final size:13
Alignment explanation
Indices: 22605160--22605184 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22605150 ACAAACAATA
22605160 AAATTTTCACACG
1 AAATTTTCACACG
22605173 AAATTTTCACAC
1 AAATTTTCACAC
22605185 ATATCACATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:22624526 original size:86 final size:86
Alignment explanation
Indices: 22624303--22624528 Score: 226
Period size: 86 Copynumber: 2.6 Consensus size: 86
22624293 TACTCGGAAT
* * * *
22624303 CACATAAAGCACA-TACAATGCC-ATATCCCAGATATGGTCTTACATGTTATCAC-ATATCGACG
1 CACA-AAATCACACTACAATGCCAATGTCCCAGA-ATGGTCTTACATGTAATCACAATATCAACG
* *
22624365 CCACTATCCTAGACAGGGTCTTA
64 CCAATATCCCAGACAGGGTCTTA
* * * * * * * *
22624388 CACGAAATCAAACAACGATGCTAATGTCCCAGAATTGGTCTTACAAGAAATCACAATA-CAATGC
1 CACAAAATCACACTACAATGCCAATGTCCCAGAA-TGGTCTTACATGTAATCACAATATCAACGC
* *
22624452 CAATGTCCCAGACATGGTCTTA
65 CAATATCCCAGACAGGGTCTTA
* *
22624474 TACAAAATCACACTACAATGCCAATGTCCCAGACATGGTCTTAGATGTAATCACA
1 CACAAAATCACACTACAATGCCAATGTCCCAGA-ATGGTCTTACATGTAATCACA
22624529 TCTCGGTAAC
Statistics
Matches: 111, Mismatches: 25, Indels: 9
0.77 0.17 0.06
Matches are distributed among these distances:
84 6 0.05
85 10 0.09
86 91 0.82
87 4 0.04
ACGTcount: A:0.36, C:0.26, G:0.14, T:0.24
Consensus pattern (86 bp):
CACAAAATCACACTACAATGCCAATGTCCCAGAATGGTCTTACATGTAATCACAATATCAACGCC
AATATCCCAGACAGGGTCTTA
Found at i:22624528 original size:43 final size:42
Alignment explanation
Indices: 22624312--22624516 Score: 191
Period size: 43 Copynumber: 4.8 Consensus size: 42
22624302 TCACATAAAG
* * * **
22624312 CACATACAATGCC-ATATCCCAGATATGGTCTTACATGTTAT
1 CACATACAATGCCAATGTCCCAGACATGGTCTTACACGAAAT
* * * * * *
22624353 CACATATCGACGCCACTATCCTAGACAGGGTCTTACACGAAAT
1 CACATA-CAATGCCAATGTCCCAGACATGGTCTTACACGAAAT
* * *
22624396 CAAACA-ACGATGCTAATGTCCCAGA-ATTGGTCTTACAAGAAAT
1 C--ACATACAATGCCAATGTCCCAGACA-TGGTCTTACACGAAAT
* *
22624439 CACAATACAATGCCAATGTCCCAGACATGGTCTTATACAAAAT
1 CAC-ATACAATGCCAATGTCCCAGACATGGTCTTACACGAAAT
22624482 CACACTACAATGCCAATGTCCCAGACATGGTCTTA
1 CACA-TACAATGCCAATGTCCCAGACATGGTCTTA
22624517 GATGTAATCA
Statistics
Matches: 134, Mismatches: 21, Indels: 16
0.78 0.12 0.09
Matches are distributed among these distances:
41 8 0.06
42 8 0.06
43 113 0.84
44 2 0.01
45 3 0.02
ACGTcount: A:0.35, C:0.26, G:0.14, T:0.24
Consensus pattern (42 bp):
CACATACAATGCCAATGTCCCAGACATGGTCTTACACGAAAT
Found at i:22628189 original size:42 final size:41
Alignment explanation
Indices: 22628123--22628277 Score: 141
Period size: 42 Copynumber: 3.7 Consensus size: 41
22628113 TGTGTTATAA
* * *
22628123 TGTAAGACCATATC-AGGGATATGGCGTTGATATGAGACTTCG
1 TGTAAGACCACATCTA-GGACATGGCATTGATATGAGA-TTCG
*
22628165 TGTAAGACCACATCTAGGACATGGCATTGAAATGAGATTTCG
1 TGTAAGACCACATCTAGGACATGGCATTGATATGAGA-TTCG
* * * * * * * *
22628207 TATAAGACCATATCTGGGATATGGCATCGATGTGAGATCCAA
1 TGTAAGACCACATCTAGGACATGGCATTGATATGAGATTC-G
* *
22628249 TGTAAGACCACGTTTAGGACATGGCATTG
1 TGTAAGACCACATCTAGGACATGGCATTG
22628278 GCATCTTATT
Statistics
Matches: 90, Mismatches: 21, Indels: 4
0.78 0.18 0.03
Matches are distributed among these distances:
41 2 0.02
42 87 0.97
43 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.27
Consensus pattern (41 bp):
TGTAAGACCACATCTAGGACATGGCATTGATATGAGATTCG
Found at i:22630889 original size:194 final size:194
Alignment explanation
Indices: 22630553--22630944 Score: 685
Period size: 194 Copynumber: 2.0 Consensus size: 194
22630543 AACGTTTATA
* * *
22630553 GTAGCCAGCTAGTCCTAGAAAATTGCAGACTTCGGATACATTTTTCAGAGGCTTCCAATCTATTA
1 GTAGCCAGCTAGTCCTAGAAAACTACAGACTTCGGATACATTTGTCAGAGGCTTCCAATCTATTA
22630618 TTGCAGAAATCTTACTCGGGTCAACACGAATACCCGCAGCTGAAACTATATGCCCCAAAAAACCA
66 TTGCAGAAATCTTACTCGGGTCAACACGAATACCCGCAGCTGAAACTATATGCCCCAAAAAACCA
*
22630683 ACCTCAGGCAGCCAAAATTCACATTTGCTAAATTTTGCATACAACTGCTTATCTCGCAGAGTCT
131 ACCTCAGGCAGCCAAAATTCACATTTGCTAAATTTTGCATACAACTACTTATCTCGCAGAGTCT
*
22630747 GTAGCCAGCTAGTCCTAGAAAACTACAGACTTCGGATACATTTGTCGGAGGCTTCCAATCTATTA
1 GTAGCCAGCTAGTCCTAGAAAACTACAGACTTCGGATACATTTGTCAGAGGCTTCCAATCTATTA
** * *
22630812 TTGCAGAAATCTTACTCGGGTCAACTTGAATACCGGCAGCTGAAACTATATGCCCCAGAAAACCA
66 TTGCAGAAATCTTACTCGGGTCAACACGAATACCCGCAGCTGAAACTATATGCCCCAAAAAACCA
* *
22630877 ACCTCGGGCAGCCAAAATTCATATTTGCTAAATTTTGCATACAACTACTTATCTCGCAGAGTCT
131 ACCTCAGGCAGCCAAAATTCACATTTGCTAAATTTTGCATACAACTACTTATCTCGCAGAGTCT
22630941 GTAG
1 GTAG
22630945 TACAATTCTC
Statistics
Matches: 187, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
194 187 1.00
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (194 bp):
GTAGCCAGCTAGTCCTAGAAAACTACAGACTTCGGATACATTTGTCAGAGGCTTCCAATCTATTA
TTGCAGAAATCTTACTCGGGTCAACACGAATACCCGCAGCTGAAACTATATGCCCCAAAAAACCA
ACCTCAGGCAGCCAAAATTCACATTTGCTAAATTTTGCATACAACTACTTATCTCGCAGAGTCT
Found at i:22637299 original size:48 final size:48
Alignment explanation
Indices: 22637223--22637470 Score: 343
Period size: 48 Copynumber: 5.2 Consensus size: 48
22637213 TTACACAATG
** * * *
22637223 TCTCATATCGATGCCAATATCATATCCCAGATATCGTCTTACATGGGA
1 TCTCATATCGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
* * *
22637271 TCTCATATCGATGCCAATGCCATGTCCCAGGCATGGTCTTATATGGAA
1 TCTCATATCGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
*
22637319 TCTCATATCGATGCCAATCCCATGTCCCAGACATGGTCTTACATGGGA
1 TCTCATATCGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
* * * * *
22637367 TCTCATATCGGTGCCAATGCCATGTCCCAAACATAGTCTTAAATGGAA
1 TCTCATATCGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
* *
22637415 TCTCATATCGATGCCAATGCTATGTCCTAGACATGGTCTTACATGGGA
1 TCTCATATCGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
*
22637463 TCTAATAT
1 TCTCATAT
22637471 AACCGTAATG
Statistics
Matches: 174, Mismatches: 26, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 174 1.00
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (48 bp):
TCTCATATCGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
Found at i:22642666 original size:30 final size:30
Alignment explanation
Indices: 22642632--22642691 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
22642622 ATTTCATACG
*
22642632 AACTTTGGAAAAATTACACTTTTTCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
22642662 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
22642692 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.38
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:22642950 original size:66 final size:66
Alignment explanation
Indices: 22642874--22643006 Score: 248
Period size: 66 Copynumber: 2.0 Consensus size: 66
22642864 TCTGACATAT
*
22642874 ATTTAAAACCCCATATTTTATCATAAAACATCAAAATACACAAATTTCACCAATGGGTATTTTTC
1 ATTTAAAACCCCATATTCTATCATAAAACATCAAAATACACAAATTTCACCAATGGGTATTTTTC
22642939 C
66 C
*
22642940 ATTTAAAACCCCATATTCTATCATAAAACATCAAAATACACAAATTTCACCTATGGGTATTTTTC
1 ATTTAAAACCCCATATTCTATCATAAAACATCAAAATACACAAATTTCACCAATGGGTATTTTTC
22643005 C
66 C
22643006 A
1 A
22643007 AATATAAACC
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.41, C:0.22, G:0.05, T:0.33
Consensus pattern (66 bp):
ATTTAAAACCCCATATTCTATCATAAAACATCAAAATACACAAATTTCACCAATGGGTATTTTTC
C
Found at i:22649488 original size:46 final size:46
Alignment explanation
Indices: 22649416--22649548 Score: 203
Period size: 46 Copynumber: 2.9 Consensus size: 46
22649406 NNNNNNNNNN
*
22649416 TTCGTATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGACA
1 TTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGACA
* * * * *
22649462 TTTGCATCCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCG
1 TTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGACA
*
22649508 TTCGCATCCATAAGTGAACTCGGACTCAACTCAACGGGTTC
1 TTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAGTTC
22649549 GGATGCTCAA
Statistics
Matches: 78, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 78 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (46 bp):
TTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGACA
Found at i:22649827 original size:34 final size:34
Alignment explanation
Indices: 22649786--22649854 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
22649776 CATTAATAAC
*
22649786 TTAAAAATAACATTTATGCTACATTATTTACACA
1 TTAAAAATAACATTTACGCTACATTATTTACACA
22649820 TTAAAAATAACATTTACGCTACATTATTTACACA
1 TTAAAAATAACATTTACGCTACATTATTTACACA
22649854 T
1 T
22649855 GAACTTACCT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.43, C:0.16, G:0.03, T:0.38
Consensus pattern (34 bp):
TTAAAAATAACATTTACGCTACATTATTTACACA
Found at i:22652426 original size:17 final size:17
Alignment explanation
Indices: 22652387--22652426 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
22652377 AAAACCCCTG
* *
22652387 CAAAAATTAGATTTTCG
1 CAAAATTTAGATTTTCA
22652404 CAAAATTTAGATTTTCA
1 CAAAATTTAGATTTTCA
22652421 CAAAAT
1 CAAAAT
22652427 ACCTACATTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.45, C:0.12, G:0.07, T:0.35
Consensus pattern (17 bp):
CAAAATTTAGATTTTCA
Found at i:22656287 original size:15 final size:15
Alignment explanation
Indices: 22656267--22656297 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
22656257 AAATAAACAC
22656267 TTAAACTTGACTATA
1 TTAAACTTGACTATA
22656282 TTAAACTTGACTATA
1 TTAAACTTGACTATA
22656297 T
1 T
22656298 GACTAATTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.13, G:0.06, T:0.42
Consensus pattern (15 bp):
TTAAACTTGACTATA
Found at i:22661215 original size:19 final size:19
Alignment explanation
Indices: 22661188--22661227 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
22661178 CGTGTATCCC
*
22661188 CTATATTTTGAAAAAATTT
1 CTATATTTTCAAAAAATTT
* *
22661207 CTATGTTTTCCAAAAATTT
1 CTATATTTTCAAAAAATTT
22661226 CT
1 CT
22661228 TAACTTATCG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.35, C:0.12, G:0.05, T:0.47
Consensus pattern (19 bp):
CTATATTTTCAAAAAATTT
Found at i:22665261 original size:40 final size:41
Alignment explanation
Indices: 22665206--22665308 Score: 122
Period size: 40 Copynumber: 2.5 Consensus size: 41
22665196 TTATCTAAGT
22665206 ATCGCACACGT-AGTGCCACATATAGCCGAAGCTAT-TCCAA
1 ATCGCACAC-TAAGTGCCACATATAGCCGAAGCTATCTCCAA
* * * * *
22665246 TTCGCACACTAAGTGCTATATATAGCCGAAGGTATCTCGAA
1 ATCGCACACTAAGTGCCACATATAGCCGAAGCTATCTCCAA
22665287 AT-GCACACTAAGTGCCAACATA
1 ATCGCACACTAAGTGCC-ACATA
22665309 CTTGACTCAT
Statistics
Matches: 52, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
39 1 0.02
40 42 0.81
41 9 0.17
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.22
Consensus pattern (41 bp):
ATCGCACACTAAGTGCCACATATAGCCGAAGCTATCTCCAA
Found at i:22665776 original size:29 final size:29
Alignment explanation
Indices: 22665712--22665777 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
22665702 TTTTCATCTA
* *
22665712 TTTCACAATTTAACCCCTCAATTTACACT
1 TTTCTCAATTTAACCCCTCAATATACACT
* * *
22665741 TTTCTCAATTTAATCCCT-AATATGCATT
1 TTTCTCAATTTAACCCCTCAATATACACT
22665769 TTTACTCAA
1 TTT-CTCAA
22665778 AATCACTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 10 0.32
29 21 0.68
ACGTcount: A:0.30, C:0.26, G:0.02, T:0.42
Consensus pattern (29 bp):
TTTCTCAATTTAACCCCTCAATATACACT
Done.