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 222 of 284
Found at i:73932224 original size:18 final size:19
Alignment explanation
Indices: 73932170--73932227 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
73932160 AAATTACAAA
*
73932170 AAAAATTTAAAATAATTT-T
1 AAAAATTCAAAAT-ATTTAT
73932189 CAAAAATTCAAAATATTTAT
1 -AAAAATTCAAAATATTTAT
*
73932209 AAAAATTCCAAA-ATTTAT
1 AAAAATTCAAAATATTTAT
73932227 A
1 A
73932228 TTTTTTAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
18 7 0.20
19 15 0.43
20 13 0.37
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (19 bp):
AAAAATTCAAAATATTTAT
Found at i:73939201 original size:39 final size:40
Alignment explanation
Indices: 73939123--73939261 Score: 221
Period size: 39 Copynumber: 3.5 Consensus size: 40
73939113 TTCGGATGAC
73939123 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
73939163 ATCCGGGCTAAGTCCCGAAGGCA-TTGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
* *
73939202 ATCCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTG-CTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACTAT
*
73939242 ATCC-GGCTAAATCCCGAAGG
1 ATCCGGGCTAAGTCCCGAAGG
73939262 TACTTGGGTT
Statistics
Matches: 93, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
39 52 0.56
40 39 0.42
41 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
Found at i:73940839 original size:16 final size:16
Alignment explanation
Indices: 73940820--73940858 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
73940810 CACTGGCATA
73940820 AAGCCTGCTAGGCAAT
1 AAGCCTGCTAGGCAAT
73940836 AAGCCTGCTAGGCAAT
1 AAGCCTGCTAGGCAAT
73940852 AAGCCTG
1 AAGCCTG
73940859 ATATCATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.31, C:0.26, G:0.26, T:0.18
Consensus pattern (16 bp):
AAGCCTGCTAGGCAAT
Found at i:73940844 original size:57 final size:58
Alignment explanation
Indices: 73940780--73940900 Score: 176
Period size: 58 Copynumber: 2.1 Consensus size: 58
73940770 ACTGACACAG
* *
73940780 AGCCTGCTAGGTAATAAACCTGAT-TCA-ATACACTGGCAT-AAAGCCTGCTAGGCAATA
1 AGCCTGCTAGGCAATAAACCTGATATCATATAC-C-AGCATCAAAGCCTGCTAGGCAATA
*
73940837 AGCCTGCTAGGCAATAAGCCTGATATCATATACCAGCATCAAAGCCTGCTAGGCAATA
1 AGCCTGCTAGGCAATAAACCTGATATCATATACCAGCATCAAAGCCTGCTAGGCAATA
73940895 AGCCTG
1 AGCCTG
73940901 ATATATCACT
Statistics
Matches: 58, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
57 26 0.45
58 28 0.48
59 4 0.07
ACGTcount: A:0.34, C:0.25, G:0.20, T:0.21
Consensus pattern (58 bp):
AGCCTGCTAGGCAATAAACCTGATATCATATACCAGCATCAAAGCCTGCTAGGCAATA
Found at i:73947437 original size:39 final size:39
Alignment explanation
Indices: 73947383--73947459 Score: 145
Period size: 39 Copynumber: 2.0 Consensus size: 39
73947373 TGAGACTAGT
73947383 GTTGCAAATTTTGCGGGATAAGCAGTTATATGCTAAGTC
1 GTTGCAAATTTTGCGGGATAAGCAGTTATATGCTAAGTC
*
73947422 GTTGCAAATTTTGCGGTATAAGCAGTTATATGCTAAGT
1 GTTGCAAATTTTGCGGGATAAGCAGTTATATGCTAAGT
73947460 TCAGTAAGTG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.35
Consensus pattern (39 bp):
GTTGCAAATTTTGCGGGATAAGCAGTTATATGCTAAGTC
Found at i:73951390 original size:39 final size:40
Alignment explanation
Indices: 73951287--73951471 Score: 200
Period size: 40 Copynumber: 4.7 Consensus size: 40
73951277 TTGAATGATG
* * *
73951287 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* *
73951326 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
73951367 TCCGGGCTAAG-CCTGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
73951406 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
73951445 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
73951472 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
39 35 0.29
40 77 0.63
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:73951424 original size:79 final size:81
Alignment explanation
Indices: 73951287--73951471 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
73951277 TTGAATGATG
* *
73951287 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
73951351 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * * **
73951366 TTCCGGGCTAAG-CCTGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
73951428 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
73951446 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
73951472 AACGAGTAGC
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.63
80 32 0.36
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:73951493 original size:79 final size:79
Alignment explanation
Indices: 73951340--73951494 Score: 190
Period size: 79 Copynumber: 2.0 Consensus size: 79
73951330 GGACTAAGAT
* * * **
73951340 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCTGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
73951405 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* *
73951419 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
*
73951482 TATATCC-GGTTAA
63 TAAATCCGGGTTAA
73951495 ATTCCGAATG
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
78 2 0.03
79 39 0.60
80 24 0.37
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAGTC
Found at i:73953727 original size:110 final size:110
Alignment explanation
Indices: 73953534--73953754 Score: 424
Period size: 110 Copynumber: 2.0 Consensus size: 110
73953524 CGGAAGGAAT
73953534 TTCTTGAGCTTAAGCAAGGTTCCATGTCGGTTACTGATTACGAGCAAAAATTTGTTAGACGTAGC
1 TTCTTGAGCTTAAGCAAGGTTCCATGTCGGTTACTGATTACGAGCAAAAATTTGTTAGACGTAGC
73953599 AAATACGCTCGGGAATGTGTTTCGTCCGAGGCTATCATGTGTAAA
66 AAATACGCTCGGGAATGTGTTTCGTCCGAGGCTATCATGTGTAAA
* *
73953644 TTCTTGAGCTTAAGCAAGGTTCCATGTCGGTTACTGATTACGAGCGAAAATTTGTTAGACTTAGC
1 TTCTTGAGCTTAAGCAAGGTTCCATGTCGGTTACTGATTACGAGCAAAAATTTGTTAGACGTAGC
73953709 AAATACGCTCGGGAATGTGTTTCGTCCGAGGCTATCATGTGTAAA
66 AAATACGCTCGGGAATGTGTTTCGTCCGAGGCTATCATGTGTAAA
73953754 T
1 T
73953755 GCTTCGAGGA
Statistics
Matches: 109, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
110 109 1.00
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (110 bp):
TTCTTGAGCTTAAGCAAGGTTCCATGTCGGTTACTGATTACGAGCAAAAATTTGTTAGACGTAGC
AAATACGCTCGGGAATGTGTTTCGTCCGAGGCTATCATGTGTAAA
Found at i:73953945 original size:41 final size:41
Alignment explanation
Indices: 73953899--73953980 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
73953889 ACTGGAGAGT
73953899 TTCGTAAAAGATCTTCGAGAAAGTCTCTTCAACAGGCATCA
1 TTCGTAAAAGATCTTCGAGAAAGTCTCTTCAACAGGCATCA
*
73953940 TTCGTAAAAGATCTTCGGGAAAGTCTCTTCAACAGGCATCA
1 TTCGTAAAAGATCTTCGAGAAAGTCTCTTCAACAGGCATCA
73953981 AAGAAATTTC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (41 bp):
TTCGTAAAAGATCTTCGAGAAAGTCTCTTCAACAGGCATCA
Found at i:73959530 original size:79 final size:81
Alignment explanation
Indices: 73959394--73959578 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
73959384 TTGAATGATG
*
73959394 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
73959458 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
73959473 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
73959535 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
73959553 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
73959579 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:73959592 original size:40 final size:40
Alignment explanation
Indices: 73959395--73959578 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
73959385 TGAATGATGT
* * * *
73959395 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
73959435 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
73959475 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
73959513 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
73959554 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
73959579 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:73959600 original size:79 final size:79
Alignment explanation
Indices: 73959447--73959611 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
73959437 GGACTAAGAT
* **
73959447 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
73959512 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
73959526 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
73959589 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
73959605 CCGAAGG
1 CCGAAGG
73959612 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:73962725 original size:91 final size:91
Alignment explanation
Indices: 73962570--73962751 Score: 364
Period size: 91 Copynumber: 2.0 Consensus size: 91
73962560 ATTTCGATAG
73962570 CTCCGTATCGTATGGCACCAACCGAGTTAAAGGAATTGAAAACTCAATTGCAAGAGTTGACGGAT
1 CTCCGTATCGTATGGCACCAACCGAGTTAAAGGAATTGAAAACTCAATTGCAAGAGTTGACGGAT
73962635 AGAGGTTTCGCTCGACAAAGTTTCTT
66 AGAGGTTTCGCTCGACAAAGTTTCTT
73962661 CTCCGTATCGTATGGCACCAACCGAGTTAAAGGAATTGAAAACTCAATTGCAAGAGTTGACGGAT
1 CTCCGTATCGTATGGCACCAACCGAGTTAAAGGAATTGAAAACTCAATTGCAAGAGTTGACGGAT
73962726 AGAGGTTTCGCTCGACAAAGTTTCTT
66 AGAGGTTTCGCTCGACAAAGTTTCTT
73962752 ACCTTGGGGT
Statistics
Matches: 91, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
91 91 1.00
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (91 bp):
CTCCGTATCGTATGGCACCAACCGAGTTAAAGGAATTGAAAACTCAATTGCAAGAGTTGACGGAT
AGAGGTTTCGCTCGACAAAGTTTCTT
Found at i:73965028 original size:20 final size:20
Alignment explanation
Indices: 73965003--73965047 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
73964993 TATCTTAAAC
73965003 CACATAGTTCATATACATTT-
1 CACATAGTTCA-ATACATTTA
* *
73965023 CACATATTTCAATTCATTTA
1 CACATAGTTCAATACATTTA
73965043 CACAT
1 CACAT
73965048 GTAGCATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.36, C:0.22, G:0.02, T:0.40
Consensus pattern (20 bp):
CACATAGTTCAATACATTTA
Found at i:73965341 original size:42 final size:43
Alignment explanation
Indices: 73965243--73965412 Score: 184
Period size: 43 Copynumber: 4.0 Consensus size: 43
73965233 TCAAACAATA
* *
73965243 CCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATCGATG
1 CCAACGTCCCAGACGTGGTCTTACACGAAATCAAATATCGATG
**
73965286 CC-ACTGTCCCAGACAAGGTCTTACACGAAATCAAATAT-GATG
1 CCAAC-GTCCCAGACGTGGTCTTACACGAAATCAAATATCGATG
* *
73965328 CCAACGTACCAGACGTGGTCTTACACGTAAATCATAA-GTCGATG
1 CCAACGTCCCAGACGTGGTCTTACACG-AAATCA-AATATCGATG
* * * * * *
73965372 CCAATGTCCCAGATGTGTTCTAACACGAAAACACATATCGA
1 CCAACGTCCCAGACGTGGTCTTACACGAAATCAAATATCGA
73965413 ATCCTTTGTC
Statistics
Matches: 105, Mismatches: 16, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
42 28 0.27
43 49 0.47
44 28 0.27
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.23
Consensus pattern (43 bp):
CCAACGTCCCAGACGTGGTCTTACACGAAATCAAATATCGATG
Found at i:73970345 original size:22 final size:22
Alignment explanation
Indices: 73970318--73970362 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
73970308 TGAATCTCGT
73970318 ACGTACTTGAGCTATTTAACTC
1 ACGTACTTGAGCTATTTAACTC
73970340 ACGTACTTGAGCTATTTAACTC
1 ACGTACTTGAGCTATTTAACTC
73970362 A
1 A
73970363 TTCACACATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.36
Consensus pattern (22 bp):
ACGTACTTGAGCTATTTAACTC
Found at i:73977573 original size:61 final size:61
Alignment explanation
Indices: 73977505--73977628 Score: 230
Period size: 61 Copynumber: 2.0 Consensus size: 61
73977495 AAGCAAGAAG
*
73977505 AAAAAGAAGAGAGGTGAAATCGACCAAACAACAAAGAAGGAAACCAAAATCCCGAGAGGTC
1 AAAAAGAAGAGAGGTGAAATCGACCAAACAACAAAGAAGGAAACCAAAAACCCGAGAGGTC
*
73977566 AAAAAGAAGAGATGTGAAATCGACCAAACAACAAAGAAGGAAACCAAAAACCCGAGAGGTC
1 AAAAAGAAGAGAGGTGAAATCGACCAAACAACAAAGAAGGAAACCAAAAACCCGAGAGGTC
73977627 AA
1 AA
73977629 TTTCAAAATA
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.54, C:0.18, G:0.22, T:0.06
Consensus pattern (61 bp):
AAAAAGAAGAGAGGTGAAATCGACCAAACAACAAAGAAGGAAACCAAAAACCCGAGAGGTC
Found at i:73983279 original size:20 final size:18
Alignment explanation
Indices: 73983254--73983318 Score: 64
Period size: 16 Copynumber: 3.6 Consensus size: 18
73983244 CATGACCACT
73983254 TTTTGGTAGCTTGTCTACAA
1 TTTTGGT-G-TTGTCTACAA
73983274 TTTT-G-GTTGTCTACAA
1 TTTTGGTGTTGTCTACAA
73983290 TTTTGGTGGATTGTCTACAA
1 TTTTGGT-G-TTGTCTACAA
*
73983310 -ATTGGTGTT
1 TTTTGGTGTT
73983319 ATTGGTTGGA
Statistics
Matches: 40, Mismatches: 1, Indels: 11
0.77 0.02 0.21
Matches are distributed among these distances:
16 14 0.35
17 4 0.10
18 1 0.03
19 7 0.17
20 14 0.35
ACGTcount: A:0.18, C:0.11, G:0.23, T:0.48
Consensus pattern (18 bp):
TTTTGGTGTTGTCTACAA
Found at i:73983285 original size:16 final size:16
Alignment explanation
Indices: 73983264--73983296 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
73983254 TTTTGGTAGC
73983264 TTGTCTACAATTTTGG
1 TTGTCTACAATTTTGG
73983280 TTGTCTACAATTTTGG
1 TTGTCTACAATTTTGG
73983296 T
1 T
73983297 GGATTGTCTA
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:0.18, C:0.12, G:0.18, T:0.52
Consensus pattern (16 bp):
TTGTCTACAATTTTGG
Found at i:73987187 original size:30 final size:30
Alignment explanation
Indices: 73987152--73987209 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
73987142 TAGATATAAA
*
73987152 GAAAAAGACAAATTTATAATCATAAGATAT
1 GAAAAAGACAAATATATAATCATAAGATAT
*
73987182 GAAAAAGATAAATATATAATCATAAGAT
1 GAAAAAGACAAATATATAATCATAAGAT
73987210 GGAAAGAAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.59, C:0.05, G:0.10, T:0.26
Consensus pattern (30 bp):
GAAAAAGACAAATATATAATCATAAGATAT
Found at i:73993164 original size:15 final size:15
Alignment explanation
Indices: 73993132--73993160 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
73993122 ATATTCTATG
73993132 TTTACTATGTGTGAA
1 TTTACTATGTGTGAA
73993147 TTTA-TATGTGTGAA
1 TTTACTATGTGTGAA
73993161 ATTTTCATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.03, G:0.21, T:0.48
Consensus pattern (15 bp):
TTTACTATGTGTGAA
Found at i:73993411 original size:23 final size:21
Alignment explanation
Indices: 73993359--73993413 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 21
73993349 ATTCATATTA
73993359 TATAATAAAGGTTAAATATGT
1 TATAATAAAGGTTAAATATGT
* *
73993380 AATTAAATAATATGTTAATATATGT
1 TA-T-AATAA-AGGTTAA-ATATGT
73993405 TATAATAAA
1 TATAATAAA
73993414 ACATAAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 7
0.73 0.08 0.19
Matches are distributed among these distances:
21 1 0.04
22 2 0.07
23 10 0.37
24 7 0.26
25 7 0.26
ACGTcount: A:0.51, C:0.00, G:0.09, T:0.40
Consensus pattern (21 bp):
TATAATAAAGGTTAAATATGT
Found at i:73994695 original size:24 final size:24
Alignment explanation
Indices: 73994663--73994712 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
73994653 ATATGTGCAC
73994663 TTGCAAAGCTTATTTGGCTATAGG
1 TTGCAAAGCTTATTTGGCTATAGG
73994687 TTGCAAAGCTTATTTGGCTATAGG
1 TTGCAAAGCTTATTTGGCTATAGG
73994711 TT
1 TT
73994713 TTGTATATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.24, C:0.12, G:0.24, T:0.40
Consensus pattern (24 bp):
TTGCAAAGCTTATTTGGCTATAGG
Found at i:73997539 original size:3 final size:3
Alignment explanation
Indices: 73997499--73997654 Score: 76
Period size: 3 Copynumber: 51.7 Consensus size: 3
73997489 ATTTGTATAA
* * *
73997499 ATT ATT ATAT ATT ATAT CTT TTT ATT ATT CATT A-T ATT ATT TTT ATT
1 ATT ATT AT-T ATT AT-T ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT
* * *
73997546 -TT ACT A-T ATC ATT -TT ATT ATT AATT ATT ATT ATGT ATA ATT ATAT
1 ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT AT-T ATT ATT AT-T
* * * * *
73997591 CTT TTT ATT ATT CATT A-T ATT ATT TTT ATT -TT ACT A-T ATC ATT
1 ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
73997634 -TT ATT ATT AATT ATTT ATT AT
1 ATT ATT ATT -ATT A-TT ATT AT
73997655 GTATAATTTT
Statistics
Matches: 118, Mismatches: 18, Indels: 34
0.69 0.11 0.20
Matches are distributed among these distances:
2 16 0.14
3 77 0.65
4 25 0.21
ACGTcount: A:0.31, C:0.05, G:0.01, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:73997554 original size:39 final size:39
Alignment explanation
Indices: 73997511--73997652 Score: 177
Period size: 39 Copynumber: 3.7 Consensus size: 39
73997501 TATTATATAT
*
73997511 TATATCTTTTTATTATTCATTATATTATTTTTATTTTAC
1 TATATCATTTTATTATTCATTATATTATTTTTATTTTAC
* * * *
73997550 TATATCATTTTATTATT-AAT-TATTATTATGTA--TAAT
1 TATATCATTTTATTATTCATTATATTATT-TTTATTTTAC
*
73997586 TATATCTTTTTATTATTCATTATATTATTTTTATTTTAC
1 TATATCATTTTATTATTCATTATATTATTTTTATTTTAC
*
73997625 TATATCATTTTATTATTAATTAT-TTATT
1 TATATCATTTTATTATTCATTATATTATT
73997653 ATGTATAATT
Statistics
Matches: 86, Mismatches: 12, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
36 18 0.21
37 12 0.14
38 17 0.20
39 39 0.45
ACGTcount: A:0.30, C:0.06, G:0.01, T:0.64
Consensus pattern (39 bp):
TATATCATTTTATTATTCATTATATTATTTTTATTTTAC
Found at i:73997594 original size:75 final size:76
Alignment explanation
Indices: 73997499--73997662 Score: 305
Period size: 75 Copynumber: 2.2 Consensus size: 76
73997489 ATTTGTATAA
73997499 ATTAT-TATATATTATATCTTTTTATTATTCATTATATTATTTTTATTTTACTATATCATTTTAT
1 ATTATGTATA-ATTATATCTTTTTATTATTCATTATATTATTTTTATTTTACTATATCATTTTAT
73997563 TATTAATTA-TT
65 TATTAATTATTT
73997574 ATTATGTATAATTATATCTTTTTATTATTCATTATATTATTTTTATTTTACTATATCATTTTATT
1 ATTATGTATAATTATATCTTTTTATTATTCATTATATTATTTTTATTTTACTATATCATTTTATT
73997639 ATTAATTATTT
66 ATTAATTATTT
73997650 ATTATGTATAATT
1 ATTATGTATAATT
73997663 TTAAAAATTT
Statistics
Matches: 87, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
75 68 0.78
76 19 0.22
ACGTcount: A:0.31, C:0.05, G:0.01, T:0.63
Consensus pattern (76 bp):
ATTATGTATAATTATATCTTTTTATTATTCATTATATTATTTTTATTTTACTATATCATTTTATT
ATTAATTATTT
Found at i:73997640 original size:21 final size:21
Alignment explanation
Indices: 73997586--73997641 Score: 55
Period size: 19 Copynumber: 2.8 Consensus size: 21
73997576 TATGTATAAT
* *
73997586 TATATCTTTTTATTA-TTCAT
1 TATATCATTTTATTATTTCAC
* *
73997606 TATATTA-TTT-TTATTTTAC
1 TATATCATTTTATTATTTCAC
73997625 TATATCATTTTATTATT
1 TATATCATTTTATTATT
73997642 AATTATTTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
18 3 0.11
19 12 0.43
20 8 0.29
21 5 0.18
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.66
Consensus pattern (21 bp):
TATATCATTTTATTATTTCAC
Found at i:73997650 original size:27 final size:26
Alignment explanation
Indices: 73997506--73997649 Score: 99
Period size: 26 Copynumber: 5.6 Consensus size: 26
73997496 TAAATTATTA
*
73997506 TATATTA-TATCT-TTTTATTATTCAT
1 TATATTATTAT-TATTTTACTATTCAT
*
73997531 TATATTATTTTTATTTTACTATATCA-
1 TATATTATTATTATTTTACTAT-TCAT
* *
73997557 T-T-TTATTATTA-ATTATTATT-AT
1 TATATTATTATTATTTTACTATTCAT
*
73997579 GTATAATTA-TATCT-TTTTATTATTCAT
1 -TAT-ATTATTAT-TATTTTACTATTCAT
*
73997606 TATATTATTTTTATTTTACTATATCAT
1 TATATTATTATTATTTTACTAT-TCAT
*
73997633 TTTATTATTAATTATTT
1 TATATTATT-ATTATTT
73997650 ATTATGTATA
Statistics
Matches: 94, Mismatches: 10, Indels: 27
0.72 0.08 0.21
Matches are distributed among these distances:
21 1 0.01
22 1 0.01
23 7 0.07
24 9 0.10
25 17 0.18
26 36 0.38
27 17 0.18
28 6 0.06
ACGTcount: A:0.30, C:0.06, G:0.01, T:0.64
Consensus pattern (26 bp):
TATATTATTATTATTTTACTATTCAT
Found at i:74005798 original size:45 final size:46
Alignment explanation
Indices: 74005749--74006155 Score: 260
Period size: 45 Copynumber: 9.1 Consensus size: 46
74005739 GTAGATCACT
*
74005749 GATAGCAGATTTGGCATCTCTGTATTAGA-CGGGGAGCAGATCGAA
1 GATAGCAGATTTGGCATCTCTGTATTACATCGGGGAGCAGATCGAA
* * * * * *
74005794 GATAGCAGATCTGACAT-TCGTGTGTTTACATC--GAAGTAGATCAAA
1 GATAGCAGATTTGGCATCTC-TGT-ATTACATCGGGGAGCAGATCGAA
* *
74005839 GAT-GACAGATTTGGCGTCTCTGTATTAGA-CGGGGAGCAGATCG-A
1 GATAG-CAGATTTGGCATCTCTGTATTACATCGGGGAGCAGATCGAA
* * * * *
74005883 GATAGCAAATCTGACAT-TCGTGTGTTTACATC--GAAGCAGATCGAA
1 GATAGCAGATTTGGCATCTC-TGT-ATTACATCGGGGAGCAGATCGAA
* *
74005928 GAT-GACAGATTTGGCATCTCTGTATTAGA-CGGGGAGCAGATCGAG
1 GATAG-CAGATTTGGCATCTCTGTATTACATCGGGGAGCAGATCGAA
* * * * * * *
74005973 GATAGTAAATTTGACATTTGTGTGTTTACATC--GAAGCAGATCGAA
1 GATAGCAGATTTGGCATCTCTGT-ATTACATCGGGGAGCAGATCGAA
* *
74006018 GAT-GACAGATTTGGCATCTCTGTATTAGA-CGGGGAGCAGATCGAG
1 GATAG-CAGATTTGGCATCTCTGTATTACATCGGGGAGCAGATCGAA
* * * * * * *
74006063 GATAGTAAATTTGACATTTGTGTGTTTACATC--GAAGCAGATCGAA
1 GATAGCAGATTTGGCATCTCTGT-ATTACATCGGGGAGCAGATCGAA
* * * *
74006108 GAT-GATAGATTTGGCGTCTCTGTATTA-AGCGGGGAGCAGATCAAA
1 GATAG-CAGATTTGGCATCTCTGTATTACATCGGGGAGCAGATCGAA
74006153 GAT
1 GAT
74006156 TTCAGCATGG
Statistics
Matches: 269, Mismatches: 65, Indels: 56
0.69 0.17 0.14
Matches are distributed among these distances:
43 7 0.03
44 46 0.17
45 194 0.72
46 19 0.07
47 3 0.01
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.28
Consensus pattern (46 bp):
GATAGCAGATTTGGCATCTCTGTATTACATCGGGGAGCAGATCGAA
Found at i:74006025 original size:90 final size:90
Alignment explanation
Indices: 74005754--74006149 Score: 652
Period size: 90 Copynumber: 4.4 Consensus size: 90
74005744 TCACTGATAG
* *
74005754 CAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGT
1 CAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAGGATAGCAAATCTGACATTCGTGTGT
* *
74005819 TTACATCGAAGTAGATCAAAGATGA
66 TTACATCGAAGCAGATCGAAGATGA
*
74005844 CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGA-GATAGCAAATCTGACATTCGTGTGT
1 CAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAGGATAGCAAATCTGACATTCGTGTGT
74005908 TTACATCGAAGCAGATCGAAGATGA
66 TTACATCGAAGCAGATCGAAGATGA
* * *
74005933 CAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAGGATAGTAAATTTGACATTTGTGTGT
1 CAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAGGATAGCAAATCTGACATTCGTGTGT
74005998 TTACATCGAAGCAGATCGAAGATGA
66 TTACATCGAAGCAGATCGAAGATGA
* * *
74006023 CAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAGGATAGTAAATTTGACATTTGTGTGT
1 CAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAGGATAGCAAATCTGACATTCGTGTGT
74006088 TTACATCGAAGCAGATCGAAGATGA
66 TTACATCGAAGCAGATCGAAGATGA
* *
74006113 TAGATTTGGCGTCTCTGTATTA-AGCGGGGAGCAGATC
1 CAGATTTGGCATCTCTGTATTAGA-CGGGGAGCAGATC
74006150 AAAGATTTCA
Statistics
Matches: 294, Mismatches: 10, Indels: 4
0.95 0.03 0.01
Matches are distributed among these distances:
89 86 0.29
90 208 0.71
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (90 bp):
CAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAGGATAGCAAATCTGACATTCGTGTGT
TTACATCGAAGCAGATCGAAGATGA
Found at i:74006054 original size:179 final size:180
Alignment explanation
Indices: 74005754--74006155 Score: 655
Period size: 179 Copynumber: 2.2 Consensus size: 180
74005744 TCACTGATAG
*
74005754 CAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGT
1 CAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAAATCTGACATTCGTGTGT
* *
74005819 TTACATCGAAGTAGATCAAAGATGACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGA-
66 TTACATCGAAGCAGATCAAAGATGACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAG
74005883 GATAGCAAATCTGACATTCGTGTGTTTACATCGAAGCAGATCGAAGATGA
131 GATAGCAAATCTGACATTCGTGTGTTTACATCGAAGCAGATCGAAGATGA
* * * *
74005933 CAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAGGATAGTAAATTTGACATTTGTGTGT
1 CAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAAATCTGACATTCGTGTGT
*
74005998 TTACATCGAAGCAGATCGAAGATGACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAG
66 TTACATCGAAGCAGATCAAAGATGACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAG
* * *
74006063 GATAGTAAATTTGACATTTGTGTGTTTACATCGAAGCAGATCGAAGATGA
131 GATAGCAAATCTGACATTCGTGTGTTTACATCGAAGCAGATCGAAGATGA
* * *
74006113 TAGATTTGGCGTCTCTGTATTA-AGCGGGGAGCAGATCAAAGAT
1 CAGATTTGGCATCTCTGTATTAGA-CGGGGAGCAGATCGAAGAT
74006156 TTCAGCATGG
Statistics
Matches: 206, Mismatches: 15, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
179 122 0.59
180 84 0.41
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.28
Consensus pattern (180 bp):
CAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAAATCTGACATTCGTGTGT
TTACATCGAAGCAGATCAAAGATGACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAG
GATAGCAAATCTGACATTCGTGTGTTTACATCGAAGCAGATCGAAGATGA
Found at i:74007735 original size:20 final size:20
Alignment explanation
Indices: 74007712--74007765 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
74007702 TGTGTAAAAA
*
74007712 TTATTATAT-ATTATATCCTT
1 TTATTAT-TCATTATATCATT
74007732 TTATTATTCATTATATCATT
1 TTATTATTCATTATATCATT
*
74007752 TTATTATTAATTAT
1 TTATTATTCATTAT
74007766 TTATTATGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 1 0.03
20 30 0.97
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.61
Consensus pattern (20 bp):
TTATTATTCATTATATCATT
Found at i:74009513 original size:27 final size:27
Alignment explanation
Indices: 74009475--74009539 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 27
74009465 TGTCAAAAAA
74009475 TATAATATAATTA-TAAAATAATTAATT
1 TATAATA-AATTATTAAAATAATTAATT
* *
74009502 TATAATTAAATTATTAACATATTTAATT
1 TATAA-TAAATTATTAAAATAATTAATT
74009530 T-TAATAAATT
1 TATAATAAATT
74009540 TTATATTAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
26 6 0.18
27 13 0.38
28 15 0.44
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48
Consensus pattern (27 bp):
TATAATAAATTATTAAAATAATTAATT
Found at i:74009551 original size:22 final size:22
Alignment explanation
Indices: 74009520--74009563 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
74009510 AATTATTAAC
*
74009520 ATATTTAATTTTAATAAATTTT
1 ATATTAAATTTTAATAAATTTT
*
74009542 ATATTAAATTTTCATAAATTTT
1 ATATTAAATTTTAATAAATTTT
74009564 GATTTATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (22 bp):
ATATTAAATTTTAATAAATTTT
Found at i:74011815 original size:14 final size:14
Alignment explanation
Indices: 74011796--74011823 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
74011786 CACATGGCAA
74011796 GAGTTAGTAGAATG
1 GAGTTAGTAGAATG
74011810 GAGTTAGTAGAATG
1 GAGTTAGTAGAATG
74011824 ATTCTTTATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.36, T:0.29
Consensus pattern (14 bp):
GAGTTAGTAGAATG
Found at i:74016620 original size:10 final size:10
Alignment explanation
Indices: 74016607--74016631 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
74016597 TTAAAAGATT
74016607 AAAAAAATGG
1 AAAAAAATGG
74016617 AAAAAAATGG
1 AAAAAAATGG
74016627 AAAAA
1 AAAAA
74016632 TATGTTCATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (10 bp):
AAAAAAATGG
Found at i:74020979 original size:15 final size:15
Alignment explanation
Indices: 74020956--74020989 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
74020946 TTACTTGTGC
*
74020956 AAATTACTTTTCCAT
1 AAATAACTTTTCCAT
74020971 AAATAACTTTTCCAT
1 AAATAACTTTTCCAT
74020986 AAAT
1 AAAT
74020990 TCTGATTGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.41, C:0.18, G:0.00, T:0.41
Consensus pattern (15 bp):
AAATAACTTTTCCAT
Found at i:74026661 original size:31 final size:31
Alignment explanation
Indices: 74026614--74026722 Score: 166
Period size: 31 Copynumber: 3.5 Consensus size: 31
74026604 TTTAACGGTT
74026614 ACTGGG-CGAAGCCTTTTCATAAATCAAATC
1 ACTGGGCCGAAGCCTTTTCATAAATCAAATC
*
74026644 ACTGGGCCGAAGTCTTTTCATAAATCAAATC
1 ACTGGGCCGAAGCCTTTTCATAAATCAAATC
*
74026675 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCAAATC
* **
74026706 ACTAGGCTAAAGCCTTT
1 ACTGGGCCGAAGCCTTT
74026723 ACTATAAACG
Statistics
Matches: 72, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
30 6 0.08
31 66 0.92
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCAAATC
Found at i:74026896 original size:26 final size:25
Alignment explanation
Indices: 74026835--74026971 Score: 193
Period size: 25 Copynumber: 5.4 Consensus size: 25
74026825 CTCTCCACAT
74026835 AAGCCCTTTTCGGTAAACTGGGGCA
1 AAGCCCTTTTCGGTAAACTGGGGCA
** *
74026860 AAGCCCTTTTCAATAAACTAGGGCA
1 AAGCCCTTTTCGGTAAACTGGGGCA
74026885 TAAGCCCTTTTCGGTAAACTGGGGCA
1 -AAGCCCTTTTCGGTAAACTGGGGCA
** *
74026911 AAGCCCTTTTCAATAAACTAGGGCA
1 AAGCCCTTTTCGGTAAACTGGGGCA
74026936 TAAGCCCTTTTCGGTAAACTGGGGCA
1 -AAGCCCTTTTCGGTAAACTGGGGCA
*
74026962 GAGCCCTTTT
1 AAGCCCTTTT
74026972 AGCACTTCCT
Statistics
Matches: 97, Mismatches: 13, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
25 53 0.55
26 44 0.45
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (25 bp):
AAGCCCTTTTCGGTAAACTGGGGCA
Found at i:74026908 original size:51 final size:51
Alignment explanation
Indices: 74026832--74026971 Score: 271
Period size: 51 Copynumber: 2.7 Consensus size: 51
74026822 CTACTCTCCA
74026832 CATAAGCCCTTTTCGGTAAACTGGGGCAAAGCCCTTTTCAATAAACTAGGG
1 CATAAGCCCTTTTCGGTAAACTGGGGCAAAGCCCTTTTCAATAAACTAGGG
74026883 CATAAGCCCTTTTCGGTAAACTGGGGCAAAGCCCTTTTCAATAAACTAGGG
1 CATAAGCCCTTTTCGGTAAACTGGGGCAAAGCCCTTTTCAATAAACTAGGG
*
74026934 CATAAGCCCTTTTCGGTAAACTGGGGCAGAGCCCTTTT
1 CATAAGCCCTTTTCGGTAAACTGGGGCAAAGCCCTTTT
74026972 AGCACTTCCT
Statistics
Matches: 88, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
51 88 1.00
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.26
Consensus pattern (51 bp):
CATAAGCCCTTTTCGGTAAACTGGGGCAAAGCCCTTTTCAATAAACTAGGG
Found at i:74027801 original size:27 final size:26
Alignment explanation
Indices: 74027766--74027853 Score: 79
Period size: 27 Copynumber: 3.3 Consensus size: 26
74027756 GGGCATATTC
74027766 GTCATTTTACCATATAGGGGTATTACA
1 GTCATTTTACC-TATAGGGGTATTACA
* * *
74027793 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTA-CCTATAGGGG-TATTACA
* **
74027820 GTCTTTTTACCTATTAGGGGTATTTTA
1 GTCATTTTACCTA-TAGGGGTATTACA
74027847 GTCATTT
1 GTCATTT
74027854 CATCCTACAA
Statistics
Matches: 47, Mismatches: 10, Indels: 8
0.72 0.15 0.12
Matches are distributed among these distances:
26 5 0.11
27 39 0.83
28 3 0.06
ACGTcount: A:0.22, C:0.18, G:0.19, T:0.41
Consensus pattern (26 bp):
GTCATTTTACCTATAGGGGTATTACA
Found at i:74027914 original size:27 final size:27
Alignment explanation
Indices: 74027861--74028166 Score: 197
Period size: 27 Copynumber: 11.3 Consensus size: 27
74027851 TTTCATCCTA
* * * * *
74027861 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAC
*
74027888 CAAGGGTATTTTAGTAATTTTGTAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAC
* * * *
74027915 TAATGGTATTTCTA-TAATTTTTAAAAAGT
1 CAAGGGTATTT-TAGTAA-TTTTATAAA-C
* * *
74027944 CAAGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAC
** * * *
74027971 TGATGGTATTTCAGTAATTTTA-AAAA
1 CAAGGGTATTTTAGTAATTTTATAAAC
* ** *
74027997 CTAGTGGTATTTCGGTAATTTTACAAAC
1 CAAG-GGTATTTTAGTAATTTTATAAAC
* * *
74028025 TAAGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAC
* * * *
74028052 CAGGGGTATTTTAGCAATTTTACAGA-
1 CAAGGGTATTTTAGTAATTTTATAAAC
* * * *
74028078 CTAGGGTATTTTGGTAATTTTACT-GAT
1 CAAGGGTATTTTAGTAATTTTA-TAAAC
* *
74028105 CGAGGGTATTTTGGTAATTTTATAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAC
* *
74028132 CAAGGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAC
*
74028159 CGAGGGTA
1 CAAGGGTA
74028167 AAACGGTAAT
Statistics
Matches: 223, Mismatches: 47, Indels: 18
0.77 0.16 0.06
Matches are distributed among these distances:
26 25 0.11
27 163 0.73
28 23 0.10
29 12 0.05
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTTAGTAATTTTATAAAC
Found at i:74028005 original size:83 final size:81
Alignment explanation
Indices: 74027892--74028050 Score: 228
Period size: 83 Copynumber: 1.9 Consensus size: 81
74027882 ACAAACCAAG
* ** * *
74027892 GGTATTTTAGTAATTTTGTAAACTAATGGTATTTCTATAATTTTTAAAAAGTCAAGGGTATTTTG
1 GGTATTTCAGTAATTTTAAAAACTAATGGTATTTCGATAA-TTTTAAAAACT-AAGGGTATTTTG
74027957 GTAATTTTACAAATTGAT
64 GTAATTTTACAAATTGAT
* * *
74027975 GGTATTTCAGTAATTTTAAAAACTAGTGGTATTTCGGTAATTTTACAAACTAAGGGTATTTTGGT
1 GGTATTTCAGTAATTTTAAAAACTAATGGTATTTCGATAATTTTAAAAACTAAGGGTATTTTGGT
74028040 AATTTTACAAA
66 AATTTTACAAA
74028051 CCAGGGGTAT
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
81 25 0.37
82 9 0.13
83 34 0.50
ACGTcount: A:0.34, C:0.06, G:0.16, T:0.43
Consensus pattern (81 bp):
GGTATTTCAGTAATTTTAAAAACTAATGGTATTTCGATAATTTTAAAAACTAAGGGTATTTTGGT
AATTTTACAAATTGAT
Found at i:74028071 original size:81 final size:81
Alignment explanation
Indices: 74027861--74028152 Score: 336
Period size: 80 Copynumber: 3.6 Consensus size: 81
74027851 TTTCATCCTA
* * * ** *
74027861 CAAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTTAGTAATTTTGTAAACTAATGGTATTT
1 CAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTAAAAACTAGTGGTATTT
** *
74027926 CTATAATTTTTAAAAAGT
66 CGGTAA-TTTTACAAA-T
*** * *
74027944 CAAGGGTATTTTGGTAATTTTACAAATTGATGGTATTTCAGTAATTTTAAAAACTAGTGGTATTT
1 CAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTAAAAACTAGTGGTATTT
74028009 CGGTAATTTTACAAA-
66 CGGTAATTTTACAAAT
* * * *
74028024 CTAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGCAATTTTACAGACTAG-GGTATT
1 C-AAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTAAAAACTAGTGGTATT
* **
74028088 TTGGTAATTTTACTGAT
65 TCGGTAATTTTACAAAT
* *
74028105 CGAGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTT
1 CAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTT
74028153 GTAAATCGAG
Statistics
Matches: 177, Mismatches: 30, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
80 63 0.36
81 48 0.27
82 8 0.05
83 58 0.33
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.41
Consensus pattern (81 bp):
CAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTAAAAACTAGTGGTATTT
CGGTAATTTTACAAAT
Found at i:74028161 original size:54 final size:53
Alignment explanation
Indices: 74027890--74028166 Score: 229
Period size: 54 Copynumber: 5.1 Consensus size: 53
74027880 CTACAAACCA
* ** * *
74027890 AGGGTATTTTAGTAATTTTGTAAACTAATGGTATTTCTA-TAATTTTTAAAAAGTCA
1 AGGGTATTTTGGTAATTTTACAAACTAAGGGTATTT-TAGTAATTTTT--AAA-TCG
* * * * * * *
74027946 AGGGTATTTTGGTAATTTTACAAATTGATGGTATTTCAGTAATTTTAAAAACT
1 AGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTAGTAATTTTTAAATCG
* * * *
74027999 AGTGGTATTTCGGTAATTTTACAAACTAAGGGTATTTTGGTAA-TTTTACAAACC
1 AG-GGTATTTTGGTAATTTTACAAACTAAGGGTATTTTAGTAATTTTTA-AATCG
* * * * *
74028053 AGGGGTATTTTAGCAATTTTACAGACT-AGGGTATTTTGGTAA-TTTTACTGATCG
1 A-GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTAGTAATTTTTA--AATCG
* *
74028107 AGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTGTAAATCG
1 AGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTAGTAATTTT-TAAATCG
74028161 AGGGTA
1 AGGGTA
74028167 AAACGGTAAT
Statistics
Matches: 181, Mismatches: 32, Indels: 18
0.78 0.14 0.08
Matches are distributed among these distances:
53 47 0.26
54 89 0.49
55 5 0.03
56 40 0.22
ACGTcount: A:0.32, C:0.07, G:0.19, T:0.42
Consensus pattern (53 bp):
AGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTAGTAATTTTTAAATCG
Found at i:74028215 original size:55 final size:54
Alignment explanation
Indices: 74028145--74028248 Score: 163
Period size: 55 Copynumber: 1.9 Consensus size: 54
74028135 GGGTATTTTA
* * *
74028145 GTAATTTTGTAAATCGAGGGTAAAACGGTAATTTTTGTAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACGGTAA-TTCTGTAAATCGAGGGTAAAATG
*
74028200 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATTGAGGGTA
1 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTA
74028249 CTTTGGTAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
54 16 0.36
55 29 0.64
ACGTcount: A:0.37, C:0.07, G:0.25, T:0.32
Consensus pattern (54 bp):
GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATG
Found at i:74028267 original size:27 final size:27
Alignment explanation
Indices: 74027946--74028287 Score: 206
Period size: 27 Copynumber: 12.7 Consensus size: 27
74027936 TAAAAAGTCA
*
74027946 AGGGTATTTTGGTAATTTTACAAATTG
1 AGGGTATTTTGGTAATTTTACAAATCG
* ** * *
74027973 ATGGTATTTCAGTAATTTTA-AAAACT
1 AGGGTATTTTGGTAATTTTACAAATCG
* *
74027999 AGTGGTATTTCGGTAATTTTACAAA-CTA
1 AG-GGTATTTTGGTAATTTTACAAATC-G
*
74028027 AGGGTATTTTGGTAATTTTACAAA-CC
1 AGGGTATTTTGGTAATTTTACAAATCG
* * * *
74028053 AGGGGTATTTTAGCAATTTTACAGA-CT
1 A-GGGTATTTTGGTAATTTTACAAATCG
**
74028080 AGGGTATTTTGGTAATTTTACTGATCG
1 AGGGTATTTTGGTAATTTTACAAATCG
* * *
74028107 AGGGTATTTTGGTAATTTTATAAACCA
1 AGGGTATTTTGGTAATTTTACAAATCG
* **
74028134 AGGGTATTTTAGTAATTTTGTAAATCG
1 AGGGTATTTTGGTAATTTTACAAATCG
**** **
74028161 AGGGTAAAACGGTAATTTTTGTAAATCG
1 AGGGTATTTTGGTAA-TTTTACAAATCG
*** * *
74028189 AGGGTAAAATGGTAATTCTATAAATCG
1 AGGGTATTTTGGTAATTTTACAAATCG
**** * ** *
74028216 AGGGTAAAACGGTAATTCTGTAAATTG
1 AGGGTATTTTGGTAATTTTACAAATCG
* * *
74028243 AGGGTACTTTGGTAATTTTAAAAATTG
1 AGGGTATTTTGGTAATTTTACAAATCG
** *
74028270 AGGACATTTTAGTAATTT
1 AGGGTATTTTGGTAATTT
74028288 GGTAAACTAA
Statistics
Matches: 259, Mismatches: 50, Indels: 12
0.81 0.16 0.04
Matches are distributed among these distances:
26 25 0.10
27 203 0.78
28 31 0.12
ACGTcount: A:0.33, C:0.07, G:0.21, T:0.39
Consensus pattern (27 bp):
AGGGTATTTTGGTAATTTTACAAATCG
Found at i:74028502 original size:20 final size:20
Alignment explanation
Indices: 74028471--74028516 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
74028461 TGGGCCCGTA
74028471 GGCCCA-CATGGCCCTTTTC
1 GGCCCATCATGGCCCTTTTC
74028490 GGCCCATCATGGCCCTTTTC
1 GGCCCATCATGGCCCTTTTC
74028510 GGCCCAT
1 GGCCCAT
74028517 AACGACCCGA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 6 0.23
20 20 0.77
ACGTcount: A:0.11, C:0.41, G:0.22, T:0.26
Consensus pattern (20 bp):
GGCCCATCATGGCCCTTTTC
Found at i:74045002 original size:19 final size:20
Alignment explanation
Indices: 74044978--74045015 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
74044968 TAGTCGTAAA
*
74044978 ATAAAATAA-AAGTAAAAAC
1 ATAAAATAATAAATAAAAAC
74044997 ATAAAATAATAAATAAAAA
1 ATAAAATAATAAATAAAAA
74045016 TTTTTAAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.18
Consensus pattern (20 bp):
ATAAAATAATAAATAAAAAC
Found at i:74052263 original size:38 final size:38
Alignment explanation
Indices: 74052128--74052263 Score: 148
Period size: 38 Copynumber: 3.5 Consensus size: 38
74052118 AAACCCAAAC
* * * * *
74052128 ATAACACCAGCACAAAGCCTACGAGACTTTAAACTCAGAT
1 ATAATACCAGCACTAAGCCTGCGAGA-TTT-AACCCGGAT
* *
74052168 ATAATACCAGCACTAGGCCTGCGAGATTTAACCCGTAT
1 ATAATACCAGCACTAAGCCTGCGAGATTTAACCCGGAT
* *
74052206 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
1 ATAATACCAGCACTAAGCCTGCGAGATTTAACCCGGAT
*
74052244 ATATTACCAGCA-TATAGCCT
1 ATAATACCAGCACTA-AGCCT
74052264 ACTGGTCTTT
Statistics
Matches: 82, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
37 1 0.01
38 56 0.68
39 3 0.04
40 22 0.27
ACGTcount: A:0.35, C:0.26, G:0.17, T:0.21
Consensus pattern (38 bp):
ATAATACCAGCACTAAGCCTGCGAGATTTAACCCGGAT
Found at i:74055594 original size:46 final size:46
Alignment explanation
Indices: 74055527--74055697 Score: 306
Period size: 46 Copynumber: 3.7 Consensus size: 46
74055517 TGTAACCCGC
* * * *
74055527 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
74055573 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
74055619 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
74055665 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
74055698 TGGATGCTCA
Statistics
Matches: 121, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 121 1.00
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:74065253 original size:14 final size:14
Alignment explanation
Indices: 74065231--74065262 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
74065221 TAAAATATAC
*
74065231 CATGTTTATAAACT
1 CATGCTTATAAACT
74065245 CATGCTTATAAACT
1 CATGCTTATAAACT
74065259 CATG
1 CATG
74065263 TTTTATTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.34, C:0.19, G:0.09, T:0.38
Consensus pattern (14 bp):
CATGCTTATAAACT
Found at i:74066126 original size:29 final size:29
Alignment explanation
Indices: 74066089--74066169 Score: 101
Period size: 29 Copynumber: 2.8 Consensus size: 29
74066079 CAAAATACTA
* **
74066089 ATAT-CATGGCCCGAAGCCAAATTAGTTG
1 ATATGCATGGCCCGAAGCCAAATCAGCCG
74066117 ATATGCATGGCCCGAAGCCAAATCAGCCG
1 ATATGCATGGCCCGAAGCCAAATCAGCCG
* * *
74066146 ATAAGCATAGCCCAAAGCCAAATC
1 ATATGCATGGCCCGAAGCCAAATC
74066170 GATTTATCTT
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
28 4 0.09
29 42 0.91
ACGTcount: A:0.36, C:0.27, G:0.20, T:0.17
Consensus pattern (29 bp):
ATATGCATGGCCCGAAGCCAAATCAGCCG
Found at i:74071182 original size:47 final size:47
Alignment explanation
Indices: 74071119--74071429 Score: 443
Period size: 47 Copynumber: 6.6 Consensus size: 47
74071109 CCCTTCGGGA
* * *
74071119 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
74071166 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
74071213 CTTATCTCATATATGA-A-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATAT-ACACT-TTCACATTCATCACATTGGCCATTCGGC
* * *
74071260 CTTATCACACATACA-AATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
*
74071307 CTTATCACACATACT-CA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATA-TACACT-TTCACATTCATCACATTGGCCATTCGGC
*
74071354 CTTATCTCATATATGTACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATA--TACACTTTCACATTCATCACATTGGCCATTCGGC
74071403 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
74071430 TATTCAAATA
Statistics
Matches: 244, Mismatches: 12, Indels: 16
0.90 0.04 0.06
Matches are distributed among these distances:
46 3 0.01
47 195 0.80
48 3 0.01
49 42 0.17
50 1 0.00
ACGTcount: A:0.27, C:0.30, G:0.09, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:74072941 original size:56 final size:56
Alignment explanation
Indices: 74072874--74072993 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
74072864 TATTAGTTTA
74072874 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
74072930 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
74072986 TTGCCCAT
1 TTGCCCAT
74072994 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:74074306 original size:40 final size:40
Alignment explanation
Indices: 74074260--74074496 Score: 214
Period size: 40 Copynumber: 5.9 Consensus size: 40
74074250 CCGAATACAC
* * *
74074260 ATCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATAT
1 ATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
* ** *
74074300 AACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATAT
1 ATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
* * *
74074340 ATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATAC
1 ATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
* * *
74074380 ATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGTTAT
1 ATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
* * * *
74074420 AGTAACTC-GCACAAATGC-CTTC-GGATCTTAGTCTGGATAT
1 A-TCAC-CAGCACGAATGCTCTTCGGGA-CTTAGCCCGGATAT
* * *
74074460 GGTCACTTAGCAC-AAAGC-CTTCGGGACTTAGCCCGGA
1 -ATCAC-CAGCACGAATGCTCTTCGGGACTTAGCCCGGA
74074497 CATCATTCGA
Statistics
Matches: 160, Mismatches: 31, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
39 3 0.02
40 139 0.87
41 18 0.11
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
ATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
Found at i:74074482 original size:120 final size:120
Alignment explanation
Indices: 74074258--74074496 Score: 276
Period size: 120 Copynumber: 2.0 Consensus size: 120
74074248 GCCCGAATAC
* *
74074258 ACATCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCG
1 ACATCACCAGCATGAATGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACAAATGCTCTTCG
* *
74074323 GGGTTTAGCACGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGAT
66 GGATTTAGCACGGATATATCACTAGCACGAAAGCTCTTCGGAACTTAGCCCGGAT
* * *
74074378 ACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGTTATAGTAAC-TC-GCACAAATGC-CT
1 ACATCACCAGCATGAATGCTCTTCGGGACCTAGCCCGG--ATA-TAACACCAGCACAAATGCTCT
* * *
74074440 TC-GGATCTTAGTC-TGGATATGGTCACTTAGCAC-AAAGC-CTTCGGGACTTAGCCCGGA
63 TCGGGAT-TTAG-CACGGATAT-ATCAC-TAGCACGAAAGCTCTTCGGAACTTAGCCCGGA
74074497 CATCATTCGA
Statistics
Matches: 102, Mismatches: 10, Indels: 14
0.81 0.08 0.11
Matches are distributed among these distances:
119 3 0.03
120 67 0.66
121 18 0.18
122 10 0.10
123 4 0.04
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (120 bp):
ACATCACCAGCATGAATGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACAAATGCTCTTCG
GGATTTAGCACGGATATATCACTAGCACGAAAGCTCTTCGGAACTTAGCCCGGAT
Found at i:74075829 original size:258 final size:258
Alignment explanation
Indices: 74075372--74075886 Score: 811
Period size: 258 Copynumber: 2.0 Consensus size: 258
74075362 TTTCCAAATT
*
74075372 CGGAACAGGGAATCCAGAAACCGTTCTGGCCCTGTCTCACGAGAACCTGAATATCTCTTAACATA
1 CGGAACAGGGAATCCAGAAACCGTTCTGGCCCTGTCTCACGAAAACCTGAATATCTCTTAACATA
** * * * *
74075437 CTGTCCATATGATCGTTTCGTTACTTTTCTATGAAAATAGATTCATCAAGGTTCACTTACATAAT
66 CACTCCATATGACCATTTCGTTACTTTCCTATGAAAATAGATTCATCAAGGTTCACTTAAATAAT
* * *
74075502 TTATTCACTATTTAATTCCATTATTACTATTTTTAGTGATTTTTCACATCCACATCACTGCTGCT
131 TTATTCACTATTTAATTCCATTACTACTATTTTTAGTGATTTTCCAAATCCACATCACTGCTGCT
74075567 GTCAGCATCTGCCTTTAAGGTAGACTTTACCTATTTCATAGTTTCCATGATTCAACTAGCCCG
196 GTCAGCATCTGCCTTTAAGGTAGACTTTACCTATTTCATAGTTTCCATGATTCAACTAGCCCG
* *
74075630 CGGAACAGGGAATCCAGAAACTGTTCTGGCCCTGTTTCACGAAAACCT-AATTATCTCTTAACAT
1 CGGAACAGGGAATCCAGAAACCGTTCTGGCCCTGTCTCACGAAAACCTGAA-TATCTCTTAACAT
* * * * *
74075694 ACCACT-CATATGACCATTTCGTTTC-TTCCATATGAAAGTGGATTCATCCAGGTTCATTTAAAT
65 A-CACTCCATATGACCATTTCGTTACTTTCC-TATGAAAATAGATTCATCAAGGTTCACTTAAAT
* *
74075757 AATTTATTCACTATTTAATTCCATTCCTACTATTTTTAGTGATTTTCCAAATCTACATCACTGCT
128 AATTTATTCACTATTTAATTCCATTACTACTATTTTTAGTGATTTTCCAAATCCACATCACTGCT
74075822 GCTGTCAGCATCTGCCTTTAAGGTAGACTTTACCTATTTCATAGTTTCCATGATTCAACTAGCCC
193 GCTGTCAGCATCTGCCTTTAAGGTAGACTTTACCTATTTCATAGTTTCCATGATTCAACTAGCCC
74075887 TTTTAGCATA
Statistics
Matches: 235, Mismatches: 19, Indels: 6
0.90 0.07 0.02
Matches are distributed among these distances:
257 5 0.02
258 228 0.97
259 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.36
Consensus pattern (258 bp):
CGGAACAGGGAATCCAGAAACCGTTCTGGCCCTGTCTCACGAAAACCTGAATATCTCTTAACATA
CACTCCATATGACCATTTCGTTACTTTCCTATGAAAATAGATTCATCAAGGTTCACTTAAATAAT
TTATTCACTATTTAATTCCATTACTACTATTTTTAGTGATTTTCCAAATCCACATCACTGCTGCT
GTCAGCATCTGCCTTTAAGGTAGACTTTACCTATTTCATAGTTTCCATGATTCAACTAGCCCG
Found at i:74076249 original size:16 final size:16
Alignment explanation
Indices: 74076228--74076263 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
74076218 TTTGGTTCGC
74076228 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
74076244 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
74076260 TGTA
1 TGTA
74076264 ATAGCTAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:74076328 original size:44 final size:45
Alignment explanation
Indices: 74076244--74076334 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
74076234 GGATTAGAGG
* * *
74076244 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
74076289 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
74076333 TG
1 TG
74076335 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:74076519 original size:16 final size:16
Alignment explanation
Indices: 74076482--74076536 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
74076472 TTAATCATAT
*
74076482 TTAAACATA-ATTATAA
1 TTAAA-ATATATTTTAA
74076498 TT-AAATATATTTTAA
1 TTAAAATATATTTTAA
74076513 TTAAAATATATAATTTAA
1 TTAAAATATAT--TTTAA
74076531 -TAAAAT
1 TTAAAAT
74076537 TCTTAATAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 3 0.09
15 10 0.29
16 10 0.29
17 6 0.18
18 5 0.15
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
TTAAAATATATTTTAA
Found at i:74076529 original size:18 final size:18
Alignment explanation
Indices: 74076488--74076536 Score: 61
Period size: 16 Copynumber: 2.9 Consensus size: 18
74076478 ATATTTAAAC
74076488 ATAATTATAATT-AAATAT
1 ATAATT-TAATTAAAATAT
74076506 AT--TTTAATTAAAATAT
1 ATAATTTAATTAAAATAT
74076522 ATAATTTAA-TAAAAT
1 ATAATTTAATTAAAAT
74076537 TCTTAATAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 5 0.18
16 10 0.36
17 6 0.21
18 7 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATAATTTAATTAAAATAT
Found at i:74076643 original size:18 final size:17
Alignment explanation
Indices: 74076622--74076656 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
74076612 TTATTATTAA
*
74076622 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
74076640 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
74076657 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:74076698 original size:120 final size:120
Alignment explanation
Indices: 74076485--74076897 Score: 670
Period size: 120 Copynumber: 3.4 Consensus size: 120
74076475 ATCATATTTA
*
74076485 AACATAATTATAATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
74076550 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
74076605 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* *
74076670 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
* *
74076725 GAA-ATAATTAATATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAACAATTA
1 -AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
* *** * *
74076789 ATATTCTTATATTAAGAGATCTCCAAA-C-TAATATATGATATTGTAAAATATAAATT
65 ATATTCTTATATGAATTTA-CT-CAAATCATAATATATGATACTATAAAATATAAATT
*
74076845 AACATAAATATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
74076898 NNNNNNNNNN
Statistics
Matches: 274, Mismatches: 15, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
119 2 0.01
120 263 0.96
121 5 0.02
122 4 0.01
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.42
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
Found at i:74076769 original size:18 final size:17
Alignment explanation
Indices: 74076742--74076776 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
74076732 TTAATATTAA
*
74076742 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
74076760 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
74076777 TCTTAACAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:74076883 original size:18 final size:17
Alignment explanation
Indices: 74076862--74076896 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
74076852 ATATTATTAA
*
74076862 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
74076880 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
74076897 TNNNNNNNNN
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:74079806 original size:13 final size:13
Alignment explanation
Indices: 74079788--74079813 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
74079778 CAGCTAAACT
74079788 GAAACAGAAGGAA
1 GAAACAGAAGGAA
74079801 GAAACAGAAGGAA
1 GAAACAGAAGGAA
74079814 CAGCTAAACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.31, T:0.00
Consensus pattern (13 bp):
GAAACAGAAGGAA
Found at i:74079819 original size:36 final size:36
Alignment explanation
Indices: 74079778--74079856 Score: 131
Period size: 36 Copynumber: 2.2 Consensus size: 36
74079768 GGTTGTGAAG
*
74079778 CAGCTAAACTGAAACAGAAGGAAGAAACAGAAGGAA
1 CAGCTAAACTGAAACAGAAAGAAGAAACAGAAGGAA
*
74079814 CAGCTAAACTGAAACAGAAAGAAGAAATAGAAGGAA
1 CAGCTAAACTGAAACAGAAAGAAGAAACAGAAGGAA
*
74079850 CGGCTAA
1 CAGCTAA
74079857 GTTGTGAAGT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.54, C:0.14, G:0.24, T:0.08
Consensus pattern (36 bp):
CAGCTAAACTGAAACAGAAAGAAGAAACAGAAGGAA
Found at i:74081822 original size:22 final size:22
Alignment explanation
Indices: 74081792--74081838 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
74081782 CTTGGTTTTC
74081792 TTTAGGAATATTCTGTAAATAT
1 TTTAGGAATATTCTGTAAATAT
* * *
74081814 TTTATGAATATTTTGTAGATAT
1 TTTAGGAATATTCTGTAAATAT
74081836 TTT
1 TTT
74081839 TTTCTTAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.02, G:0.13, T:0.53
Consensus pattern (22 bp):
TTTAGGAATATTCTGTAAATAT
Found at i:74086425 original size:22 final size:22
Alignment explanation
Indices: 74086394--74086438 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
74086384 AGGGGGAGTG
*
74086394 TAGGAGTATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
74086416 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
74086438 T
1 T
74086439 TTTATTAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.31, C:0.02, G:0.18, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:74087689 original size:16 final size:15
Alignment explanation
Indices: 74087668--74087722 Score: 65
Period size: 16 Copynumber: 3.5 Consensus size: 15
74087658 TGAATTACTG
74087668 ATTACAGCTCTATTCA
1 ATTACAGC-CTATTCA
*
74087684 ATTACAACCCTATTCA
1 ATTAC-AGCCTATTCA
*
74087700 ATTACAGCCTTATTCT
1 ATTACAGCC-TATTCA
74087716 ATTACAG
1 ATTACAG
74087723 TGAACCAAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
15 3 0.09
16 29 0.85
17 2 0.06
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.36
Consensus pattern (15 bp):
ATTACAGCCTATTCA
Found at i:74090053 original size:9 final size:9
Alignment explanation
Indices: 74090039--74090078 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
74090029 ACACTAATTT
*
74090039 ATTATTTGA
1 ATTATTCGA
74090048 ATTATTCGA
1 ATTATTCGA
* *
74090057 GTTGTTCGA
1 ATTATTCGA
74090066 ATTATTCGA
1 ATTATTCGA
74090075 ATTA
1 ATTA
74090079 CAAAATTCAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.07, G:0.15, T:0.47
Consensus pattern (9 bp):
ATTATTCGA
Found at i:74105201 original size:22 final size:21
Alignment explanation
Indices: 74105176--74105257 Score: 89
Period size: 20 Copynumber: 3.9 Consensus size: 21
74105166 TTTTTAAAAA
74105176 TTTAAAATATATAAAAATTATT
1 TTTAAAA-ATATAAAAATTATT
*
74105198 TTTAAAAATCATTAAAATTA--
1 TTTAAAAAT-ATAAAAATTATT
74105218 TTTAAAAAGTATAAAAA-TATT
1 TTTAAAAA-TATAAAAATTATT
* *
74105239 TTTAAAATTAAAAAAATTA
1 TTTAAAAATATAAAAATTA
74105258 ATTAAATGTT
Statistics
Matches: 51, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
19 2 0.04
20 21 0.41
21 12 0.24
22 16 0.31
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (21 bp):
TTTAAAAATATAAAAATTATT
Found at i:74107562 original size:18 final size:18
Alignment explanation
Indices: 74107541--74107597 Score: 51
Period size: 18 Copynumber: 3.0 Consensus size: 18
74107531 CGGAAGCCCG
74107541 AAAGCTAACTGAAGCACA
1 AAAGCTAACTGAAGCACA
* * *
74107559 AAAGTGCTAAACGGAAGCCCG
1 AAA--GCT-AACTGAAGCACA
*
74107580 AAGGCTAACTGAAGCACA
1 AAAGCTAACTGAAGCACA
74107598 TAAGTGCTAA
Statistics
Matches: 29, Mismatches: 7, Indels: 6
0.69 0.17 0.14
Matches are distributed among these distances:
18 12 0.41
19 3 0.10
20 3 0.10
21 11 0.38
ACGTcount: A:0.44, C:0.23, G:0.23, T:0.11
Consensus pattern (18 bp):
AAAGCTAACTGAAGCACA
Found at i:74107621 original size:39 final size:39
Alignment explanation
Indices: 74107498--74107713 Score: 203
Period size: 39 Copynumber: 5.5 Consensus size: 39
74107488 TGATTTGAAA
* * * * *
74107498 CCCGAAGTCTAGCTGAAGTACATAACTACTAAACGGAAG
1 CCCGAAGGCTAACTGAAGCACATAAGTGCTAAACGGAAG
* *
74107537 CCCGAAAGCTAACTGAAGCACAAAAGTGCTAAACGGAAG
1 CCCGAAGGCTAACTGAAGCACATAAGTGCTAAACGGAAG
74107576 CCCGAAGGCTAACTGAAGCACATAAGTGCTAAACGGAAG
1 CCCGAAGGCTAACTGAAGCACATAAGTGCTAAACGGAAG
* ** *
74107615 CCCGAAGTCTGTGTGCTAAACAGAAGC-CCGAAG-GCT-AACTGAAG
1 CCCGAA------G-GCT-AACTGAAGCACATAAGTGCTAAACGGAAG
*
74107659 --C--AGGCTAACTGAAGCACACAAGTGCTAAACGGAAG
1 CCCGAAGGCTAACTGAAGCACATAAGTGCTAAACGGAAG
74107694 CCCGAAGGCTAACTGAAGCA
1 CCCGAAGGCTAACTGAAGCA
74107714 GGCTAACTGA
Statistics
Matches: 145, Mismatches: 17, Indels: 30
0.76 0.09 0.16
Matches are distributed among these distances:
32 8 0.06
33 7 0.05
34 4 0.03
35 7 0.05
37 1 0.01
39 90 0.62
40 1 0.01
42 1 0.01
44 7 0.05
45 4 0.03
46 7 0.05
47 8 0.06
ACGTcount: A:0.38, C:0.24, G:0.25, T:0.13
Consensus pattern (39 bp):
CCCGAAGGCTAACTGAAGCACATAAGTGCTAAACGGAAG
Found at i:74107665 original size:14 final size:14
Alignment explanation
Indices: 74107646--74107674 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
74107636 AGAAGCCCGA
74107646 AGGCTAACTGAAGC
1 AGGCTAACTGAAGC
74107660 AGGCTAACTGAAGC
1 AGGCTAACTGAAGC
74107674 A
1 A
74107675 CACAAGTGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.21, G:0.28, T:0.14
Consensus pattern (14 bp):
AGGCTAACTGAAGC
Found at i:74107696 original size:53 final size:53
Alignment explanation
Indices: 74107544--74107766 Score: 284
Period size: 53 Copynumber: 4.0 Consensus size: 53
74107534 AAGCCCGAAA
*
74107544 GCTAACTGAAGCACAAAAGTGCTAAACGGAAGCCCGAAGGCTAACTGAAGCACATAAG
1 GCTAACTGAAGCACACAAGTGCTAAACGGAAGCCCGAAGGCTAACTGAAG--C---AG
* * ** *
74107602 TGCTAAACGGAAGCCCGAAGTCTGTGTGCTAAACAGAAGCCCGAAGGCTAACTGAAGCAG
1 -GCT-AACTGAAGCAC--A--C-AAGTGCTAAACGGAAGCCCGAAGGCTAACTGAAGCAG
74107662 GCTAACTGAAGCACACAAGTGCTAAACGGAAGCCCGAAGGCTAACTGAAGCAG
1 GCTAACTGAAGCACACAAGTGCTAAACGGAAGCCCGAAGGCTAACTGAAGCAG
74107715 GCTAACTGAAGCACACAAGTGCTAAACGGAAGCCCGAAGGCTAACTGAAGCA
1 GCTAACTGAAGCACACAAGTGCTAAACGGAAGCCCGAAGGCTAACTGAAGCA
74107767 CATAAGTGTT
Statistics
Matches: 147, Mismatches: 11, Indels: 18
0.84 0.06 0.10
Matches are distributed among these distances:
53 86 0.59
54 1 0.01
56 1 0.01
58 9 0.06
59 6 0.04
60 11 0.07
62 1 0.01
63 1 0.01
65 31 0.21
ACGTcount: A:0.38, C:0.24, G:0.26, T:0.13
Consensus pattern (53 bp):
GCTAACTGAAGCACACAAGTGCTAAACGGAAGCCCGAAGGCTAACTGAAGCAG
Found at i:74107718 original size:14 final size:14
Alignment explanation
Indices: 74107699--74107727 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
74107689 GGAAGCCCGA
74107699 AGGCTAACTGAAGC
1 AGGCTAACTGAAGC
74107713 AGGCTAACTGAAGC
1 AGGCTAACTGAAGC
74107727 A
1 A
74107728 CACAAGTGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.21, G:0.28, T:0.14
Consensus pattern (14 bp):
AGGCTAACTGAAGC
Found at i:74107758 original size:39 final size:39
Alignment explanation
Indices: 74107713--74107804 Score: 166
Period size: 39 Copynumber: 2.4 Consensus size: 39
74107703 TAACTGAAGC
74107713 AGGCTAACTGAAGCACACAAGTGCTAAACGGAAGCCCGA
1 AGGCTAACTGAAGCACACAAGTGCTAAACGGAAGCCCGA
* *
74107752 AGGCTAACTGAAGCACATAAGTGTTAAACGGAAGCCCGA
1 AGGCTAACTGAAGCACACAAGTGCTAAACGGAAGCCCGA
74107791 AGGCTAACTGAAGC
1 AGGCTAACTGAAGC
74107805 TCATCAGAGT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 51 1.00
ACGTcount: A:0.38, C:0.23, G:0.26, T:0.13
Consensus pattern (39 bp):
AGGCTAACTGAAGCACACAAGTGCTAAACGGAAGCCCGA
Found at i:74111384 original size:39 final size:39
Alignment explanation
Indices: 74111341--74111436 Score: 120
Period size: 39 Copynumber: 2.5 Consensus size: 39
74111331 ATCGTGATCT
* * *
74111341 GAAGCCTGAAATCTAGCTAAAGCACATAAGTACTAAACG
1 GAAGCCCGAAAGCTAACTAAAGCACATAAGTACTAAACG
* * *
74111380 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAAGCTAACTAAAGCACATAAGTACTAAACG
* *
74111419 GAAGCCCGGAGGCTAACT
1 GAAGCCCGAAAGCTAACT
74111437 GAAGTCATCA
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 50 1.00
ACGTcount: A:0.39, C:0.23, G:0.24, T:0.15
Consensus pattern (39 bp):
GAAGCCCGAAAGCTAACTAAAGCACATAAGTACTAAACG
Found at i:74111437 original size:39 final size:39
Alignment explanation
Indices: 74111360--74111440 Score: 144
Period size: 39 Copynumber: 2.1 Consensus size: 39
74111350 AATCTAGCTA
74111360 AAGCACATAAGTACTAAACGGAAGCCCGAAGGCTAACTG
1 AAGCACATAAGTACTAAACGGAAGCCCGAAGGCTAACTG
* *
74111399 AAGCACATAAGTGCTAAACGGAAGCCCGGAGGCTAACTG
1 AAGCACATAAGTACTAAACGGAAGCCCGAAGGCTAACTG
74111438 AAG
1 AAG
74111441 TCATCAGAGC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.40, C:0.22, G:0.26, T:0.12
Consensus pattern (39 bp):
AAGCACATAAGTACTAAACGGAAGCCCGAAGGCTAACTG
Found at i:74113489 original size:23 final size:24
Alignment explanation
Indices: 74113463--74113508 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 24
74113453 TTTTTAGTAT
74113463 ACTATTCACAATTTC-AAATTTTC
1 ACTATTCACAATTTCAAAATTTTC
74113486 ACTATTCACAATTTCAAAATTTT
1 ACTATTCACAATTTCAAAATTTT
74113509 TCCTAACTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 15 0.68
24 7 0.32
ACGTcount: A:0.37, C:0.20, G:0.00, T:0.43
Consensus pattern (24 bp):
ACTATTCACAATTTCAAAATTTTC
Found at i:74114964 original size:22 final size:22
Alignment explanation
Indices: 74114937--74114994 Score: 98
Period size: 22 Copynumber: 2.6 Consensus size: 22
74114927 GTCAAGAAGA
74114937 CCACACGGGCGTGTCGCCCCTT
1 CCACACGGGCGTGTCGCCCCTT
* *
74114959 CTACACGAGCGTGTCGCCCCTT
1 CCACACGGGCGTGTCGCCCCTT
74114981 CCACACGGGCGTGT
1 CCACACGGGCGTGT
74114995 GCCTCTGTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.12, C:0.41, G:0.28, T:0.19
Consensus pattern (22 bp):
CCACACGGGCGTGTCGCCCCTT
Found at i:74122816 original size:22 final size:23
Alignment explanation
Indices: 74122791--74122836 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 23
74122781 ATACAGAGGG
*
74122791 AAAATAAAATAA-AAACAACGAA
1 AAAATAAAATAATAAACAAAGAA
74122813 AAAATAAAATAATAAACAAAGAA
1 AAAATAAAATAATAAACAAAGAA
74122836 A
1 A
74122837 TATCTAGAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 12 0.55
23 10 0.45
ACGTcount: A:0.78, C:0.07, G:0.04, T:0.11
Consensus pattern (23 bp):
AAAATAAAATAATAAACAAAGAA
Found at i:74123736 original size:30 final size:30
Alignment explanation
Indices: 74123700--74123762 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
74123690 TCACCTGCTA
*
74123700 CAAAATTTAGAATATTGATATTGTATTCAC
1 CAAAATTTAAAATATTGATATTGTATTCAC
74123730 CAAAATTTAAAATATTGATATTGTATTCAC
1 CAAAATTTAAAATATTGATATTGTATTCAC
74123760 CAA
1 CAA
74123763 TTATAGGAGC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.43, C:0.11, G:0.08, T:0.38
Consensus pattern (30 bp):
CAAAATTTAAAATATTGATATTGTATTCAC
Found at i:74123974 original size:27 final size:27
Alignment explanation
Indices: 74123920--74123974 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
74123910 TGGGCCCCAC
* **
74123920 CACAACCATTTGCGCCTCTGAGGTAGG
1 CACAACCATTTGCGCCTCAGAGAAAGG
*
74123947 CACAATCATTTGCGCCTCAGAGAAAGG
1 CACAACCATTTGCGCCTCAGAGAAAGG
74123974 C
1 C
74123975 TCGATTAGCC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.20
Consensus pattern (27 bp):
CACAACCATTTGCGCCTCAGAGAAAGG
Found at i:74126892 original size:29 final size:29
Alignment explanation
Indices: 74126847--74126933 Score: 147
Period size: 29 Copynumber: 3.0 Consensus size: 29
74126837 ATAGGGTCAC
*
74126847 ATGCTCGTGTGAGCGTAAGGACAAGCTTG
1 ATGCTCGTGTGAACGTAAGGACAAGCTTG
74126876 ATGCTCGTGTGAACGTAAGGACAAGCTTG
1 ATGCTCGTGTGAACGTAAGGACAAGCTTG
* *
74126905 ATGTTCGTGTGAACATAAGGACAAGCTTG
1 ATGCTCGTGTGAACGTAAGGACAAGCTTG
74126934 TGTTCCCCTT
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 55 1.00
ACGTcount: A:0.28, C:0.16, G:0.31, T:0.25
Consensus pattern (29 bp):
ATGCTCGTGTGAACGTAAGGACAAGCTTG
Found at i:74128181 original size:48 final size:48
Alignment explanation
Indices: 74128114--74128227 Score: 167
Period size: 48 Copynumber: 2.4 Consensus size: 48
74128104 CGTTGATGCC
* * *
74128114 ATGCTATGTCCCATACATGGGTTTACACAGGTACATATAACATTGTCG
1 ATGCTATGTCTCAGACATGGGTTTACACAGGTAAATATAACATTGTCG
* *
74128162 ATG-TCATGTCTCAGACATGGTTTTACACAGGTAAATATATCATTGTCG
1 ATGCT-ATGTCTCAGACATGGGTTTACACAGGTAAATATAACATTGTCG
74128210 ATGCTATGTCTCAGACAT
1 ATGCTATGTCTCAGACAT
74128228 AATCTTACAC
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
47 1 0.02
48 57 0.97
49 1 0.02
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.33
Consensus pattern (48 bp):
ATGCTATGTCTCAGACATGGGTTTACACAGGTAAATATAACATTGTCG
Found at i:74128236 original size:48 final size:48
Alignment explanation
Indices: 74128136--74128239 Score: 147
Period size: 48 Copynumber: 2.2 Consensus size: 48
74128126 ATACATGGGT
* ** *
74128136 TTACACAGGTACATATAACATTGTCGATGTCATGTCTCAGACATGGTT
1 TTACACAGGTAAATATAACATTGTCGATGTCATGTCTCAGACATAATC
*
74128184 TTACACAGGTAAATATATCATTGTCGATG-CTATGTCTCAGACATAATC
1 TTACACAGGTAAATATAACATTGTCGATGTC-ATGTCTCAGACATAATC
74128232 TTACACAG
1 TTACACAG
74128240 AATATCATTT
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
47 1 0.02
48 49 0.98
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (48 bp):
TTACACAGGTAAATATAACATTGTCGATGTCATGTCTCAGACATAATC
Found at i:74133633 original size:43 final size:42
Alignment explanation
Indices: 74133585--74133681 Score: 117
Period size: 43 Copynumber: 2.3 Consensus size: 42
74133575 AGCTCGAGTG
*
74133585 GATGAGGCACTATATGCGTCGTAATATTGCTTCGGA-T-AATTC
1 GATGAGGCACTATATGC--CGTAATATTGCTTCGAATTAAATTC
* *
74133627 TGATGAGGCACTATGTGCCGTAGTATTGCTTCGAATTAAATTC
1 -GATGAGGCACTATATGCCGTAATATTGCTTCGAATTAAATTC
*
74133670 GATGAGGTACTA
1 GATGAGGCACTA
74133682 AGTACGGATT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
41 15 0.31
42 12 0.25
43 21 0.44
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (42 bp):
GATGAGGCACTATATGCCGTAATATTGCTTCGAATTAAATTC
Found at i:74134834 original size:16 final size:16
Alignment explanation
Indices: 74134813--74134844 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
74134803 CACGATTAAG
74134813 TCCCGATTTGTTTCTA
1 TCCCGATTTGTTTCTA
74134829 TCCCGATTTGTTTCTA
1 TCCCGATTTGTTTCTA
74134845 ACATGTGAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.25, G:0.12, T:0.50
Consensus pattern (16 bp):
TCCCGATTTGTTTCTA
Found at i:74141353 original size:53 final size:53
Alignment explanation
Indices: 74141295--74141395 Score: 175
Period size: 53 Copynumber: 1.9 Consensus size: 53
74141285 TTATATATAT
*
74141295 AACACGCATATATATGTATACTACCAACTCCCCCATTTATATATTATAAACAC
1 AACACGCATATATATGTATACTACCAACTCCCCCAGTTATATATTATAAACAC
* *
74141348 AACACGCATATATATGTATATTGCCAACTCCCCCAGTTATATATTATA
1 AACACGCATATATATGTATACTACCAACTCCCCCAGTTATATATTATA
74141396 TATATAACCT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 45 1.00
ACGTcount: A:0.38, C:0.25, G:0.06, T:0.32
Consensus pattern (53 bp):
AACACGCATATATATGTATACTACCAACTCCCCCAGTTATATATTATAAACAC
Found at i:74141391 original size:55 final size:54
Alignment explanation
Indices: 74141277--74141395 Score: 161
Period size: 53 Copynumber: 2.2 Consensus size: 54
74141267 GCCGCACTCA
* * * *
74141277 TATATATTTTATATATATAACACGCATATATATGTATACTACCAACTCCCCCAT
1 TATATATATTATAAACACAACACGCATATATATGTATACTACCAACTCCCCCAT
* * *
74141331 T-TATATATTATAAACACAACACGCATATATATGTATATTGCCAACTCCCCCAG
1 TATATATATTATAAACACAACACGCATATATATGTATACTACCAACTCCCCCAT
74141384 T-TATATATTATA
1 TATATATATTATA
74141396 TATATAACCT
Statistics
Matches: 58, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
53 57 0.98
54 1 0.02
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.36
Consensus pattern (54 bp):
TATATATATTATAAACACAACACGCATATATATGTATACTACCAACTCCCCCAT
Found at i:74145061 original size:58 final size:57
Alignment explanation
Indices: 74144992--74145164 Score: 163
Period size: 61 Copynumber: 2.9 Consensus size: 57
74144982 TTTTTATAAT
* *
74144992 ATTATATATTATGATTTTTTAATTCATA-TT-ATAATAATTATATTAAAAATATTATTAA
1 ATTATATATTAT-ATTTTTAAATT-ATATTTAATAATAATTATATT-AAAATATAATTAA
* * *
74145050 ATTATATATTAT-TCTATTAAATTGTATTTAATAATAATTATGTTAAAATATAATTAA
1 ATTATATATTATAT-TTTTAAATTATATTTAATAATAATTATATTAAAATATAATTAA
* * * * *
74145107 ATTATTTATTATTATTTTTATTAAAATATATTTAACAATAATTTTATTAAAATTTAAT
1 ATTA--TA-TATTATATTT-TTAAATTATATTTAATAATAATTATATTAAAATATAAT
74145165 AATAATAACA
Statistics
Matches: 95, Mismatches: 12, Indels: 13
0.79 0.10 0.11
Matches are distributed among these distances:
56 3 0.03
57 25 0.26
58 25 0.26
59 2 0.02
60 7 0.07
61 33 0.35
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (57 bp):
ATTATATATTATATTTTTAAATTATATTTAATAATAATTATATTAAAATATAATTAA
Found at i:74145147 original size:61 final size:57
Alignment explanation
Indices: 74145024--74145164 Score: 165
Period size: 61 Copynumber: 2.4 Consensus size: 57
74145014 TTCATATTAT
* * * *
74145024 AATAATTATATTAAAAATATTATTAAATTATATATTATTCTATTAAATTGTATTTAAT
1 AATAATTATATT-AAAATATAATTAAATTATATATTATTCTATTAAAATATATTTAAC
* *
74145082 AATAATTATGTTAAAATATAATTAAATTATTTATTATTATTTTTATTAAAATATATTTAAC
1 AATAATTATATTAAAATATAATTAAATTA--TA-TATTA-TTCTATTAAAATATATTTAAC
* *
74145143 AATAATTTTATTAAAATTTAAT
1 AATAATTATATTAAAATATAAT
74145165 AATAATAACA
Statistics
Matches: 70, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
57 16 0.23
58 11 0.16
59 2 0.03
60 5 0.07
61 36 0.51
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (57 bp):
AATAATTATATTAAAATATAATTAAATTATATATTATTCTATTAAAATATATTTAAC
Found at i:74146068 original size:14 final size:14
Alignment explanation
Indices: 74146049--74146097 Score: 64
Period size: 14 Copynumber: 3.6 Consensus size: 14
74146039 CTTATTTTAT
74146049 TTAAAATAACTAAA
1 TTAAAATAACTAAA
*
74146063 TTAAAA-AAATAAA
1 TTAAAATAACTAAA
*
74146076 TTAAAATAACCAAA
1 TTAAAATAACTAAA
*
74146090 ATAAAATA
1 TTAAAATA
74146098 GACCCTATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
13 12 0.40
14 18 0.60
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.24
Consensus pattern (14 bp):
TTAAAATAACTAAA
Found at i:74146077 original size:13 final size:14
Alignment explanation
Indices: 74146049--74146084 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
74146039 CTTATTTTAT
*
74146049 TTAAAATAACTAAA
1 TTAAAATAAATAAA
74146063 TTAAAA-AAATAAA
1 TTAAAATAAATAAA
74146076 TTAAAATAA
1 TTAAAATAA
74146085 CCAAAATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (14 bp):
TTAAAATAAATAAA
Found at i:74148336 original size:26 final size:26
Alignment explanation
Indices: 74148300--74148352 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
74148290 GTTGGTACTT
74148300 ATAAAAGCTACTTTGACATCCATACC
1 ATAAAAGCTACTTTGACATCCATACC
74148326 ATAAAAGCTACTTTGACATCCATACC
1 ATAAAAGCTACTTTGACATCCATACC
74148352 A
1 A
74148353 ATTTATTCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.40, C:0.26, G:0.08, T:0.26
Consensus pattern (26 bp):
ATAAAAGCTACTTTGACATCCATACC
Found at i:74151099 original size:56 final size:56
Alignment explanation
Indices: 74151013--74151119 Score: 196
Period size: 56 Copynumber: 1.9 Consensus size: 56
74151003 AGCATCCACA
*
74151013 TAAAGCAGGTAGAAGAAACAATTAGAAAGACTTGCATACCTTTCATGCTCAACATT
1 TAAAGCAGGTAGAAGAAACAATTAAAAAGACTTGCATACCTTTCATGCTCAACATT
*
74151069 TAAAGCAGGTAGAAGAAATAATTAAAAAGACTTGCATACCTTTCATGCTCA
1 TAAAGCAGGTAGAAGAAACAATTAAAAAGACTTGCATACCTTTCATGCTCA
74151120 GAAGCCAAAT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 49 1.00
ACGTcount: A:0.42, C:0.17, G:0.16, T:0.25
Consensus pattern (56 bp):
TAAAGCAGGTAGAAGAAACAATTAAAAAGACTTGCATACCTTTCATGCTCAACATT
Found at i:74154644 original size:31 final size:31
Alignment explanation
Indices: 74154609--74154670 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
74154599 ATGTAATGTA
* *
74154609 ATGATCCATTAGAGGGAATGTTTTCTTGAGT
1 ATGATCCATTAGAGAGAATGCTTTCTTGAGT
*
74154640 ATGATGCATTAGAGAGAATGCTTTCTTGAGT
1 ATGATCCATTAGAGAGAATGCTTTCTTGAGT
74154671 TTTAACTGTG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.27, C:0.10, G:0.26, T:0.37
Consensus pattern (31 bp):
ATGATCCATTAGAGAGAATGCTTTCTTGAGT
Found at i:74158733 original size:42 final size:42
Alignment explanation
Indices: 74158670--74158796 Score: 170
Period size: 42 Copynumber: 3.0 Consensus size: 42
74158660 CTTCGTTTTC
** * *
74158670 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACAT-A
*
74158713 T-GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
74158754 TCGATGCCATAGCCCAGCTATGGTCTTACACGA-A-TCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC-ATATTCACATA
74158795 TC
1 TC
74158797 TCACTGATGC
Statistics
Matches: 76, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
41 10 0.13
42 64 0.84
43 2 0.03
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.30
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
Found at i:74158823 original size:46 final size:47
Alignment explanation
Indices: 74158714--74158874 Score: 151
Period size: 42 Copynumber: 3.6 Consensus size: 47
74158704 TTCACATAAT
* * *
74158714 GATGCCATAGCCCAGCTATGGTCTTACAC-AT---AT-TCAT-ATATC
1 GATGCCATATCCCAGATATGGTCTTACACAATAGCATAT-ATCACATC
* * *
74158756 GATGCCATAGCCCAGCTATGGTCTTACACGAATCA-CATATCTCAC-T-
1 GATGCCATATCCCAGATATGGTCTTACAC-AAT-AGCATATATCACATC
* *
74158802 GATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACATC
1 GATGCCATATCCCAGATATGGTCTTACACAATAGCATATATCACATC
*
74158849 GATGCCATATCCCATATATGGTCTTA
1 GATGCCATATCCCAGATATGGTCTTA
74158875 TACGGAAATC
Statistics
Matches: 101, Mismatches: 8, Indels: 15
0.81 0.06 0.12
Matches are distributed among these distances:
42 29 0.29
44 3 0.03
45 11 0.11
46 27 0.27
47 29 0.29
48 2 0.02
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (47 bp):
GATGCCATATCCCAGATATGGTCTTACACAATAGCATATATCACATC
Found at i:74158858 original size:47 final size:48
Alignment explanation
Indices: 74158753--74158878 Score: 161
Period size: 47 Copynumber: 2.7 Consensus size: 48
74158743 ATATTCATAT
* * * *
74158753 ATCGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCTCAC
1 ATCGATGCCATATCCCAGATATGGTCTTATACGAATCACATATATCAC
*
74158801 -T-GATGCCATATCCCAGATATGGTCTTATAC-AGT-AGCATATATCAC
1 ATCGATGCCATATCCCAGATATGGTCTTATACGAATCA-CATATATCAC
*
74158846 ATCGATGCCATATCCCATATATGGTCTTATACG
1 ATCGATGCCATATCCCAGATATGGTCTTATACG
74158879 GAAATCACTT
Statistics
Matches: 68, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
44 1 0.01
45 11 0.16
46 27 0.40
47 29 0.43
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.29
Consensus pattern (48 bp):
ATCGATGCCATATCCCAGATATGGTCTTATACGAATCACATATATCAC
Found at i:74158939 original size:31 final size:31
Alignment explanation
Indices: 74158904--74159075 Score: 281
Period size: 31 Copynumber: 5.5 Consensus size: 31
74158894 TTTTAGCAGA
* *
74158904 AGCTACCACTATTCACTGATTAGGTAGCCGG
1 AGCTACCACTTTTCACTGATCAGGTAGCCGG
*
74158935 AGCTACCATTTTTCACTGATCAGGTAGCCGG
1 AGCTACCACTTTTCACTGATCAGGTAGCCGG
74158966 AGCTACCACTTTTCACTGATCAGGTAGCCGG
1 AGCTACCACTTTTCACTGATCAGGTAGCCGG
* *
74158997 AGCTACCACTTTTCACTGATCAGGTAGCAGA
1 AGCTACCACTTTTCACTGATCAGGTAGCCGG
* *
74159028 AGCTACCACTTTTCACTGATCAGGTAGCTGA
1 AGCTACCACTTTTCACTGATCAGGTAGCCGG
74159059 AGCTACCACTTTTCACT
1 AGCTACCACTTTTCACT
74159076 TGTCATTTGT
Statistics
Matches: 134, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 134 1.00
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (31 bp):
AGCTACCACTTTTCACTGATCAGGTAGCCGG
Found at i:74159157 original size:50 final size:51
Alignment explanation
Indices: 74159051--74159179 Score: 199
Period size: 50 Copynumber: 2.5 Consensus size: 51
74159041 CACTGATCAG
* * *
74159051 GTAGCTGAAGCTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
*
74159102 GTAGCCGAAGCTATCACTTATCACTT-TCACTTT-TCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCA-TTTGTCATTGATCAGATAAGT
74159152 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
74159180 TGCCATGGTC
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
50 45 0.62
51 27 0.38
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
Found at i:74165876 original size:30 final size:30
Alignment explanation
Indices: 74165842--74165903 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
74165832 ACTGTGGCGA
74165842 TTGAAAAAACTTGTGTAAATGCTCTAATTG
1 TTGAAAAAACTTGTGTAAATGCTCTAATTG
74165872 TTGAAAAAACTTGTGTAAATGCTCTAATTG
1 TTGAAAAAACTTGTGTAAATGCTCTAATTG
74165902 TT
1 TT
74165904 CCTTAGTGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.39
Consensus pattern (30 bp):
TTGAAAAAACTTGTGTAAATGCTCTAATTG
Found at i:74167066 original size:42 final size:41
Alignment explanation
Indices: 74167007--74167101 Score: 145
Period size: 42 Copynumber: 2.3 Consensus size: 41
74166997 TCCTAATTGG
*
74167007 GAAAATAATTCCCTTATTCTAATAAACTACTAAAACATAAGA
1 GAAAAT-ATTCCCTTATTCTAATAAACTACTAAAACATAAAA
*
74167049 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAAGATAAAA
1 GAAAATA-TTCCCTTATTCTAATAAACTACTAAAACATAAAA
*
74167091 TAAAATATTCC
1 GAAAATATTCC
74167102 TAGAATATGA
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
41 5 0.10
42 44 0.90
ACGTcount: A:0.49, C:0.16, G:0.05, T:0.29
Consensus pattern (41 bp):
GAAAATATTCCCTTATTCTAATAAACTACTAAAACATAAAA
Found at i:74167135 original size:19 final size:19
Alignment explanation
Indices: 74167111--74167152 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
74167101 CTAGAATATG
74167111 AATAAAACTTATCTACCTA
1 AATAAAACTTATCTACCTA
*
74167130 AATAAAATTTATCTACCTA
1 AATAAAACTTATCTACCTA
74167149 AATA
1 AATA
74167153 TATTTAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (19 bp):
AATAAAACTTATCTACCTA
Found at i:74168854 original size:17 final size:16
Alignment explanation
Indices: 74168814--74168864 Score: 61
Period size: 18 Copynumber: 3.1 Consensus size: 16
74168804 TGTAAAACTA
74168814 ATGTATGATACTTTTTTT
1 ATGTATGATA--TTTTTT
74168832 ATGTATGATATTTTTT
1 ATGTATGATATTTTTT
74168848 ATGGTATG-T-TTTTTT
1 AT-GTATGATATTTTTT
74168863 AT
1 AT
74168865 TAAAGTGTCT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
15 8 0.25
16 9 0.28
17 5 0.16
18 10 0.31
ACGTcount: A:0.22, C:0.02, G:0.14, T:0.63
Consensus pattern (16 bp):
ATGTATGATATTTTTT
Found at i:74173946 original size:20 final size:21
Alignment explanation
Indices: 74173907--74173948 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
74173897 AACTAAATCG
74173907 ATTTAAATATATCCATATTATT
1 ATTTAAATATAT-CATATTATT
*
74173929 ATTTAATTATAT-ATATTATT
1 ATTTAAATATATCATATTATT
74173949 TAATATCTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 8 0.42
22 11 0.58
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (21 bp):
ATTTAAATATATCATATTATT
Found at i:74173947 original size:17 final size:16
Alignment explanation
Indices: 74173921--74173952 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
74173911 AAATATATCC
74173921 ATATTATTATTTAATT
1 ATATTATTATTTAATT
74173937 ATATATATTATTTAAT
1 ATAT-TATTATTTAAT
74173953 ATCTAGTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
ATATTATTATTTAATT
Found at i:74174274 original size:23 final size:23
Alignment explanation
Indices: 74174248--74174291 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
74174238 GATATAAATT
*
74174248 ATATAATATAAAATTAAAAAAGA
1 ATATAATAAAAAATTAAAAAAGA
*
74174271 ATATATTAAAAAATTAAAAAA
1 ATATAATAAAAAATTAAAAAA
74174292 AATGAGCCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.27
Consensus pattern (23 bp):
ATATAATAAAAAATTAAAAAAGA
Found at i:74180041 original size:9 final size:9
Alignment explanation
Indices: 74180027--74180086 Score: 59
Period size: 9 Copynumber: 6.3 Consensus size: 9
74180017 CTCTCTGAAT
74180027 AAAAATTTA
1 AAAAATTTA
74180036 AAAAA-TTA
1 AAAAATTTA
*
74180044 AAATAATTTTT
1 AAA-AA-TTTA
74180055 AAAAATTTA
1 AAAAATTTA
*
74180064 AAATATTTA
1 AAAAATTTA
74180073 TAAAAATTCTA
1 -AAAAATT-TA
74180084 AAA
1 AAA
74180087 TTTATATTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
8 6 0.14
9 18 0.43
10 11 0.26
11 7 0.17
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (9 bp):
AAAAATTTA
Found at i:74180057 original size:20 final size:19
Alignment explanation
Indices: 74180032--74180078 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
74180022 TGAATAAAAA
74180032 TTTAAAAAATTAAAATAATT
1 TTTAAAAAATTAAAAT-ATT
*
74180052 TTTAAAAATTTAAAATATT
1 TTTAAAAAATTAAAATATT
*
74180071 TATAAAAA
1 TTTAAAAA
74180079 TTCTAAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 10 0.40
20 15 0.60
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
TTTAAAAAATTAAAATATT
Found at i:74180085 original size:20 final size:19
Alignment explanation
Indices: 74180026--74180087 Score: 76
Period size: 19 Copynumber: 3.3 Consensus size: 19
74180016 ACTCTCTGAA
74180026 TAAAA-ATTTA-AAAAA-T
1 TAAAATATTTATAAAAATT
*
74180042 TAAAATAATTTTTAAAAATT
1 TAAAAT-ATTTATAAAAATT
74180062 TAAAATATTTATAAAAATT
1 TAAAATATTTATAAAAATT
74180081 CTAAAAT
1 -TAAAAT
74180088 TTATATTTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
16 5 0.13
18 4 0.10
19 17 0.44
20 13 0.33
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.39
Consensus pattern (19 bp):
TAAAATATTTATAAAAATT
Found at i:74180086 original size:27 final size:27
Alignment explanation
Indices: 74180056--74180120 Score: 78
Period size: 26 Copynumber: 2.4 Consensus size: 27
74180046 ATAATTTTTA
*
74180056 AAAATTTAAAATATTTATAAAAATTCT
1 AAAATTTAAAATATTTATAAAAATTAT
* * *
74180083 AAAATTT-ATATTTTTTTAAAAATTAT
1 AAAATTTAAAATATTTATAAAAATTAT
74180109 ACAAATTTAAAA
1 A-AAATTTAAAA
74180121 AATTCTAAAG
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
26 16 0.52
27 13 0.42
28 2 0.06
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (27 bp):
AAAATTTAAAATATTTATAAAAATTAT
Found at i:74180142 original size:44 final size:45
Alignment explanation
Indices: 74180050--74180157 Score: 116
Period size: 44 Copynumber: 2.4 Consensus size: 45
74180040 ATTAAAATAA
**
74180050 TTTTTAAAAATTTAAAATATTTATAAAAATTCTAAAATTTATATT
1 TTTTTAAAAATTTAAAATATTTATAAAAATTCTAAAAAGTATATT
*
74180095 TTTTTAAAAATTATACAA-ATTTA-AAAAATTCTAAAGAAAGT-TA-T
1 TTTTTAAAAATT-TAAAATATTTATAAAAATTCT-AA-AAAGTATATT
**
74180139 TTTTTAAATTTTTAAAATA
1 TTTTTAAAAATTTAAAATA
74180158 ATAATTTTGT
Statistics
Matches: 53, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
43 4 0.08
44 21 0.40
45 21 0.40
46 7 0.13
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (45 bp):
TTTTTAAAAATTTAAAATATTTATAAAAATTCTAAAAAGTATATT
Found at i:74181438 original size:20 final size:18
Alignment explanation
Indices: 74181413--74181452 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 18
74181403 TAGAGTCAAA
*
74181413 TATTTAAGATATTAGAATTT
1 TATTTAA-ATACTA-AATTT
74181433 TATTTAAATACTAAATTT
1 TATTTAAATACTAAATTT
74181451 TA
1 TA
74181453 ATATTATATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 7 0.37
19 5 0.26
20 7 0.37
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (18 bp):
TATTTAAATACTAAATTT
Found at i:74192628 original size:27 final size:27
Alignment explanation
Indices: 74192598--74192681 Score: 98
Period size: 27 Copynumber: 3.1 Consensus size: 27
74192588 CTATTGTAGG
74192598 ATTCGCCACAAAGGTGATTCTTTCATA
1 ATTCGCCACAAAGGTGATTCTTTCATA
* * * **
74192625 ATTCACAACAAAGGTGATTCTTGCAGG
1 ATTCGCCACAAAGGTGATTCTTTCATA
*
74192652 ATTCGCCACAAAGACT-ATTCTTTCATA
1 ATTCGCCACAAAG-GTGATTCTTTCATA
74192679 ATT
1 ATT
74192682 TTCTAAAAAT
Statistics
Matches: 45, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
27 44 0.98
28 1 0.02
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.32
Consensus pattern (27 bp):
ATTCGCCACAAAGGTGATTCTTTCATA
Done.