Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 81 of 221
Found at i:24153510 original size:15 final size:16
Alignment explanation
Indices: 24153485--24153518 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
24153475 AAGATGAAGC
*
24153485 GTTTGATAAATTTAAA
1 GTTTGATAAATCTAAA
24153501 GTTT-ATAAATCTAAA
1 GTTTGATAAATCTAAA
24153516 GTT
1 GTT
24153519 GAACTTCAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.41, C:0.03, G:0.12, T:0.44
Consensus pattern (16 bp):
GTTTGATAAATCTAAA
Found at i:24162736 original size:29 final size:28
Alignment explanation
Indices: 24162688--24162747 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 28
24162678 AATGGCCAAC
*
24162688 CATGCTGCTGTTATGTTTTTATTGAAGTG
1 CATGCTGCTGTTATGATTTTATTG-AGTG
*
24162717 CATGCTGCT-TTGATGATTTTGTTGAGTG
1 CATGCTGCTGTT-ATGATTTTATTGAGTG
24162745 CAT
1 CAT
24162748 ACAACCTGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 9 0.32
29 19 0.68
ACGTcount: A:0.17, C:0.12, G:0.25, T:0.47
Consensus pattern (28 bp):
CATGCTGCTGTTATGATTTTATTGAGTG
Found at i:24168938 original size:36 final size:36
Alignment explanation
Indices: 24168891--24168961 Score: 142
Period size: 36 Copynumber: 2.0 Consensus size: 36
24168881 AGCAGAAACT
24168891 ATGGCAGCAAACAAGGTACGCGTAGTATCCGCACAC
1 ATGGCAGCAAACAAGGTACGCGTAGTATCCGCACAC
24168927 ATGGCAGCAAACAAGGTACGCGTAGTATCCGCACA
1 ATGGCAGCAAACAAGGTACGCGTAGTATCCGCACA
24168962 TATTTGAATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.34, C:0.27, G:0.25, T:0.14
Consensus pattern (36 bp):
ATGGCAGCAAACAAGGTACGCGTAGTATCCGCACAC
Found at i:24173101 original size:21 final size:21
Alignment explanation
Indices: 24173069--24173109 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
24173059 AGGCTCGAGG
24173069 GGCCTGTTTTAGGCC-ATACAA
1 GGCCTGTTTTA-GCCTATACAA
24173090 GGCCT-TTCTTAGCCTATACA
1 GGCCTGTT-TTAGCCTATACA
24173110 CGAAATGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (21 bp):
GGCCTGTTTTAGCCTATACAA
Found at i:24178694 original size:21 final size:21
Alignment explanation
Indices: 24178662--24178702 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
24178652 AGGCTCGAGG
24178662 GGCCTGTTTTAGGCC-ATACAA
1 GGCCTGTTTTA-GCCTATACAA
24178683 GGCCT-TTCTTAGCCTATACA
1 GGCCTGTT-TTAGCCTATACA
24178703 CGAAATGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (21 bp):
GGCCTGTTTTAGCCTATACAA
Found at i:24199371 original size:22 final size:22
Alignment explanation
Indices: 24199346--24199414 Score: 102
Period size: 22 Copynumber: 3.1 Consensus size: 22
24199336 ACAAATCTCA
*
24199346 TCTCAATTTCATTCAAAAATTC
1 TCTCAATTTCCTTCAAAAATTC
*
24199368 TCTCAAATTCCTTCAAAAATTC
1 TCTCAATTTCCTTCAAAAATTC
* *
24199390 TCTCAATTTCCTTCCAAAACTC
1 TCTCAATTTCCTTCAAAAATTC
24199412 TCT
1 TCT
24199415 TAAACTCTCA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.32, C:0.29, G:0.00, T:0.39
Consensus pattern (22 bp):
TCTCAATTTCCTTCAAAAATTC
Found at i:24199429 original size:52 final size:52
Alignment explanation
Indices: 24199367--24199466 Score: 155
Period size: 52 Copynumber: 1.9 Consensus size: 52
24199357 TTCAAAAATT
* * * *
24199367 CTCTCAAATTCCTTCAAAAATTCTCTCAATTTCCTTCCAAAACTCTCTTAAA
1 CTCTCAAATTCCTTCAAAAATCCTCACAATTTCCTTCAAAAAATCTCTTAAA
*
24199419 CTCTCAAATTCCTTCCAAAATCCTCACAATTTCCTTCAAAAAATCTCT
1 CTCTCAAATTCCTTCAAAAATCCTCACAATTTCCTTCAAAAAATCTCT
24199467 CAACTCCATA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 43 1.00
ACGTcount: A:0.33, C:0.32, G:0.00, T:0.35
Consensus pattern (52 bp):
CTCTCAAATTCCTTCAAAAATCCTCACAATTTCCTTCAAAAAATCTCTTAAA
Found at i:24199449 original size:21 final size:21
Alignment explanation
Indices: 24199421--24199469 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 21
24199411 CTCTTAAACT
*
24199421 CTCAAA-TTCCTTCCAAAATC
1 CTCAAATTTCCTTCAAAAATC
24199441 CTCACAATTTCCTTCAAAAAATC
1 CTCA-AATTTCCTTC-AAAAATC
24199464 TCTCAA
1 -CTCAA
24199470 CTCCATATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 4 0.17
21 2 0.08
22 7 0.29
23 7 0.29
24 4 0.17
ACGTcount: A:0.37, C:0.33, G:0.00, T:0.31
Consensus pattern (21 bp):
CTCAAATTTCCTTCAAAAATC
Found at i:24199540 original size:29 final size:28
Alignment explanation
Indices: 24199505--24199561 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 28
24199495 TCAATTTCAT
24199505 TTTTTTTAAGAA-AATTATAAATATTTTTA
1 TTTTTTTAA-AATAATTATAAA-ATTTTTA
*
24199534 TTTTTTTAAAATAATTTTAAAATTTTTA
1 TTTTTTTAAAATAATTATAAAATTTTTA
24199562 ATATTTTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 9 0.35
29 17 0.65
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (28 bp):
TTTTTTTAAAATAATTATAAAATTTTTA
Found at i:24199568 original size:29 final size:29
Alignment explanation
Indices: 24199507--24199568 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 29
24199497 AATTTCATTT
*
24199507 TTTTTAAGAAAATTATAAATATTTTTATT
1 TTTTTAAGAAAATTATAAATATTTTTATA
*
24199536 TTTTTAA-AATAATTTTAAA-ATTTTTAATA
1 TTTTTAAGAA-AATTATAAATATTTTT-ATA
24199565 TTTT
1 TTTT
24199569 CAACAATGGC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 8 0.28
29 21 0.72
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (29 bp):
TTTTTAAGAAAATTATAAATATTTTTATA
Found at i:24199688 original size:14 final size:15
Alignment explanation
Indices: 24199659--24199692 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
24199649 AAATTTTAAA
24199659 TTTTATTTAAGATAT
1 TTTTATTTAAGATAT
*
24199674 TTTTATTTATG-TAT
1 TTTTATTTAAGATAT
24199688 TTTTA
1 TTTTA
24199693 GATAAATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (15 bp):
TTTTATTTAAGATAT
Found at i:24201876 original size:29 final size:29
Alignment explanation
Indices: 24201834--24202127 Score: 534
Period size: 29 Copynumber: 10.1 Consensus size: 29
24201824 ATATTATTTG
24201834 ATTTAATTAAAAACCCTAACCCTAACCTA
1 ATTTAATTAAAAACCCTAACCCTAACCTA
* *
24201863 ATTTGATTAAAAACCCTAACCTTAACCTA
1 ATTTAATTAAAAACCCTAACCCTAACCTA
24201892 ATTTAATTAAAAACCCTAACCCTAACCTA
1 ATTTAATTAAAAACCCTAACCCTAACCTA
24201921 ATTTAATTAAAAACCCTAACCCTAACCTA
1 ATTTAATTAAAAACCCTAACCCTAACCTA
24201950 ATTTAATTAAAAACCCTAACCCTAACCTA
1 ATTTAATTAAAAACCCTAACCCTAACCTA
*
24201979 ATTTAATTAAAAACCTTAACCCTAACCTA
1 ATTTAATTAAAAACCCTAACCCTAACCTA
*
24202008 ATTTAATTAAAAACCTTAACCCTAACCTA
1 ATTTAATTAAAAACCCTAACCCTAACCTA
24202037 ATTTAATTAAAAACCCTAACCCTAACCTA
1 ATTTAATTAAAAACCCTAACCCTAACCTA
* *
24202066 ATTTGATTAAAAACCCTAACTCTAACCTA
1 ATTTAATTAAAAACCCTAACCCTAACCTA
24202095 ATTTAATTAAAAACCCTAACCCTAACCTA
1 ATTTAATTAAAAACCCTAACCCTAACCTA
24202124 ATTT
1 ATTT
24202128 GATAATCTTA
Statistics
Matches: 255, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 255 1.00
ACGTcount: A:0.44, C:0.26, G:0.01, T:0.30
Consensus pattern (29 bp):
ATTTAATTAAAAACCCTAACCCTAACCTA
Found at i:24205509 original size:85 final size:85
Alignment explanation
Indices: 24205363--24205569 Score: 351
Period size: 85 Copynumber: 2.4 Consensus size: 85
24205353 CCCAAACTTG
24205363 CAACTGTAGCAAAATCGCGTCCACGAGGGCACGATTTGACACTATTTGCTCAGAAACGTCAAAAA
1 CAACTGTAGCAAAATCGCGTCCACGAGGGCACGATTTGACACTATTTGCTCAGAAACGTCAAAAA
*
24205428 ATAATTATTTCGTACATAAC
66 ATAATTATTTCCTACATAAC
*
24205448 CAACTGTAGCAAAATCGCGTCCACGAGGGCACGATTTGACACTATTTGCTCAGAAATGTCAAAAA
1 CAACTGTAGCAAAATCGCGTCCACGAGGGCACGATTTGACACTATTTGCTCAGAAACGTCAAAAA
*
24205513 ATAATTATTTCCTACATGAC
66 ATAATTATTTCCTACATAAC
* * * *
24205533 CAACTGTAGCGAAATCGCGTCCATGATGGCGCGATTT
1 CAACTGTAGCAAAATCGCGTCCACGAGGGCACGATTT
24205570 CACAATTTCT
Statistics
Matches: 115, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
85 115 1.00
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (85 bp):
CAACTGTAGCAAAATCGCGTCCACGAGGGCACGATTTGACACTATTTGCTCAGAAACGTCAAAAA
ATAATTATTTCCTACATAAC
Found at i:24207847 original size:30 final size:30
Alignment explanation
Indices: 24207811--24207875 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
24207801 ACTTATTTTA
*
24207811 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTACTTTAAAGGCAT
*
24207841 TTGTTAATTTTGTTATTACTTTAGAGGCAT
1 TTGTTAATTTTGTTATTACTTTAAAGGCAT
24207871 TTGTT
1 TTGTT
24207876 TGTTAAGTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.23, C:0.05, G:0.15, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTACTTTAAAGGCAT
Found at i:24223631 original size:40 final size:40
Alignment explanation
Indices: 24223535--24223667 Score: 151
Period size: 40 Copynumber: 3.3 Consensus size: 40
24223525 TTATACTTTT
* * * *
24223535 TGTTTGGCGTGTTTCGATTGAACCAA-CTCTTATGAGCTTC
1 TGTTTGGTGTGTTTCGGTTGGA-TAAGCTCTTATGAGCTTC
24223575 TGTTTGGTGTGTTTCGGTTGGATAAGCTCTTATGAGCTTC
1 TGTTTGGTGTGTTTCGGTTGGATAAGCTCTTATGAGCTTC
* * * * *
24223615 TTTTTGGTGTGTTTCGGTTGGATTAGCTATTCTGTGCTTC
1 TGTTTGGTGTGTTTCGGTTGGATAAGCTCTTATGAGCTTC
* *
24223655 TGTCTGGTATGTT
1 TGTTTGGTGTGTT
24223668 CAGTTGATCT
Statistics
Matches: 80, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
39 2 0.03
40 78 0.98
ACGTcount: A:0.12, C:0.14, G:0.27, T:0.47
Consensus pattern (40 bp):
TGTTTGGTGTGTTTCGGTTGGATAAGCTCTTATGAGCTTC
Found at i:24232221 original size:18 final size:17
Alignment explanation
Indices: 24232190--24232224 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
24232180 AGGTAGCCAA
24232190 CTCTTCTTTAACATAAT
1 CTCTTCTTTAACATAAT
*
24232207 CTCTCTCTTTTACATAAT
1 CTCT-TCTTTAACATAAT
24232225 ACATTTGGAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.26, C:0.26, G:0.00, T:0.49
Consensus pattern (17 bp):
CTCTTCTTTAACATAAT
Found at i:24232493 original size:19 final size:18
Alignment explanation
Indices: 24232462--24232510 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
24232452 TTCTTGTCGA
*
24232462 AAAATATTTAATTATAAT
1 AAAATATTAAATTATAAT
*
24232480 AAAATAATTAAATTATACTT
1 AAAAT-ATTAAATTATA-AT
*
24232500 AAATTATTAAA
1 AAAATATTAAA
24232511 ATTTTTAATG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
18 5 0.19
19 16 0.62
20 5 0.19
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (18 bp):
AAAATATTAAATTATAAT
Found at i:24233493 original size:22 final size:21
Alignment explanation
Indices: 24233468--24233516 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
24233458 AACCAGCAGC
*
24233468 AAAATCAATGTTAATATATATA
1 AAAATCAAT-CTAATATATATA
*
24233490 AAAATTGAATCTAATATATATA
1 AAAA-TCAATCTAATATATATA
24233512 AAAAT
1 AAAAT
24233517 TGGATCTAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 1 0.04
22 19 0.79
23 4 0.17
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.35
Consensus pattern (21 bp):
AAAATCAATCTAATATATATA
Found at i:24233517 original size:22 final size:22
Alignment explanation
Indices: 24233479--24233525 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
24233469 AAATCAATGT
24233479 TAATATATATAAAAATTGAATC
1 TAATATATATAAAAATTGAATC
*
24233501 TAATATATATAAAAATTGGATC
1 TAATATATATAAAAATTGAATC
24233523 TAA
1 TAA
24233526 CCATGGAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.53, C:0.04, G:0.06, T:0.36
Consensus pattern (22 bp):
TAATATATATAAAAATTGAATC
Found at i:24241369 original size:30 final size:31
Alignment explanation
Indices: 24241333--24241400 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 31
24241323 TTGCCGAAGA
** * **
24241333 GTAAATACTCAAAATTTGAAGGGTTAA-AGT
1 GTAAATACAAAAAAGTTGAAGGACTAATAGT
24241363 GTAAATACAAAAAAGTTGAAGGACTAATAGT
1 GTAAATACAAAAAAGTTGAAGGACTAATAGT
24241394 GTAAATA
1 GTAAATA
24241401 TTTTAAGAGT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 22 0.69
31 10 0.31
ACGTcount: A:0.49, C:0.06, G:0.19, T:0.26
Consensus pattern (31 bp):
GTAAATACAAAAAAGTTGAAGGACTAATAGT
Found at i:24258127 original size:3 final size:3
Alignment explanation
Indices: 24258121--24258146 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
24258111 TGATAATAAT
24258121 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
24258147 ATAGATAGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:24262815 original size:55 final size:55
Alignment explanation
Indices: 24262747--24262856 Score: 202
Period size: 55 Copynumber: 2.0 Consensus size: 55
24262737 TAATTTATGA
*
24262747 TCAAAAACGTCTTCTGAATGTTTAAACCAACTTTCTCATTTTTAGCTGTGCATTC
1 TCAAAAACGTCTTCTGAATGTTTAAACCAACTTTCTCATTTTTAGCTGCGCATTC
*
24262802 TCAAAAACTTCTTCTGAATGTTTAAACCAACTTTCTCATTTTTAGCTGCGCATTC
1 TCAAAAACGTCTTCTGAATGTTTAAACCAACTTTCTCATTTTTAGCTGCGCATTC
24262857 ACAACTCAAA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.27, C:0.23, G:0.10, T:0.40
Consensus pattern (55 bp):
TCAAAAACGTCTTCTGAATGTTTAAACCAACTTTCTCATTTTTAGCTGCGCATTC
Found at i:24264788 original size:22 final size:20
Alignment explanation
Indices: 24264763--24264802 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
24264753 TTTGTTAGAA
24264763 TTTAATGTTATATAAAATTGCC
1 TTTAAT-TTATA-AAAATTGCC
*
24264785 TTTAATTTTTAAAAATTG
1 TTTAATTTATAAAAATTG
24264803 AGCGTAGTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 4 0.24
22 6 0.35
ACGTcount: A:0.38, C:0.05, G:0.07, T:0.50
Consensus pattern (20 bp):
TTTAATTTATAAAAATTGCC
Found at i:24269272 original size:13 final size:13
Alignment explanation
Indices: 24269254--24269317 Score: 76
Period size: 13 Copynumber: 4.9 Consensus size: 13
24269244 TTCTTCATTA
24269254 CTTTTGAAAAGTG
1 CTTTTGAAAAGTG
24269267 CTTTTGAAAAGTG
1 CTTTTGAAAAGTG
* *
24269280 -TTGTGGAAAAGTA
1 CTT-TTGAAAAGTG
*
24269293 CTTTTGAGAAGTG
1 CTTTTGAAAAGTG
*
24269306 CTTTTGAGAAGT
1 CTTTTGAAAAGT
24269318 TTGATTTAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
12 2 0.05
13 40 0.91
14 2 0.05
ACGTcount: A:0.30, C:0.06, G:0.27, T:0.38
Consensus pattern (13 bp):
CTTTTGAAAAGTG
Found at i:24270194 original size:15 final size:16
Alignment explanation
Indices: 24270171--24270212 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
24270161 TGATTAAATT
*
24270171 TAAAGTTAAAA-CATA
1 TAAATTTAAAATCATA
24270186 TAAATTTAAAATCATA
1 TAAATTTAAAATCATA
*
24270202 TATATTTAAAA
1 TAAATTTAAAA
24270213 AAATTTTCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (16 bp):
TAAATTTAAAATCATA
Found at i:24271335 original size:22 final size:21
Alignment explanation
Indices: 24271310--24271365 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 21
24271300 CATATTAACG
24271310 TATTTTTAATTA-ATGATATTTT
1 TATTTTTAATTACAT-AT-TTTT
*
24271332 TATTTCTTTATATACATATTTTT
1 TATTT-TTAAT-TACATATTTTT
24271355 TATTTTTAATT
1 TATTTTTAATT
24271366 CAACTAATAG
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
21 1 0.03
22 9 0.31
23 13 0.45
24 4 0.14
25 2 0.07
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.66
Consensus pattern (21 bp):
TATTTTTAATTACATATTTTT
Found at i:24271903 original size:33 final size:33
Alignment explanation
Indices: 24271861--24271939 Score: 131
Period size: 33 Copynumber: 2.4 Consensus size: 33
24271851 GTCGCCTGCT
24271861 GCTCACCAATCACCACCACCGCTATCCAGCGTC
1 GCTCACCAATCACCACCACCGCTATCCAGCGTC
*
24271894 GCTCACCAATCACCACCACCGCTGTCCAGCGTC
1 GCTCACCAATCACCACCACCGCTATCCAGCGTC
* *
24271927 ACTCACCACTCAC
1 GCTCACCAATCAC
24271940 TAGTCACCAC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.24, C:0.49, G:0.11, T:0.15
Consensus pattern (33 bp):
GCTCACCAATCACCACCACCGCTATCCAGCGTC
Found at i:24277355 original size:12 final size:12
Alignment explanation
Indices: 24277338--24277368 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
24277328 CTCCAGTTTT
24277338 CACACGGCCTAA
1 CACACGGCCTAA
*
24277350 CACACGGCCTAG
1 CACACGGCCTAA
24277362 CACACGG
1 CACACGG
24277369 GTGTGTGAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.29, C:0.42, G:0.23, T:0.06
Consensus pattern (12 bp):
CACACGGCCTAA
Found at i:24280992 original size:39 final size:40
Alignment explanation
Indices: 24280922--24281003 Score: 121
Period size: 40 Copynumber: 2.1 Consensus size: 40
24280912 AGAATAAGGG
** *
24280922 AAAATAAAAATAAAAGTTATTGATGAAAGAAAATAAAAGA
1 AAAATAAAAATAAAAGAGATTGATGAAAGAAAAAAAAAGA
*
24280962 AAAATAAAAATAAAAGAGATTGA-GAGAGAAAAAAAAAGA
1 AAAATAAAAATAAAAGAGATTGATGAAAGAAAAAAAAAGA
24281001 AAA
1 AAA
24281004 GGAAATAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
39 17 0.45
40 21 0.55
ACGTcount: A:0.71, C:0.00, G:0.15, T:0.15
Consensus pattern (40 bp):
AAAATAAAAATAAAAGAGATTGATGAAAGAAAAAAAAAGA
Found at i:24281029 original size:38 final size:39
Alignment explanation
Indices: 24280922--24281031 Score: 96
Period size: 39 Copynumber: 2.8 Consensus size: 39
24280912 AGAATAAGGG
* ** * * *
24280922 AAAATAAAAATAAAAGTTATTGATGAAAGAAAATAAAAGA
1 AAAAGAAAAATAAAAGAGAGTGA-GAGAGAAAAAAAAAGA
* *
24280962 AAAATAAAAATAAAAGAGATTGAGAGAGAAAAAAAAAGA
1 AAAAGAAAAATAAAAGAGAGTGAGAGAGAAAAAAAAAGA
* * * *
24281001 AAAGGAAATA-AAAAGAGAGTGTGTGAGAAAA
1 AAAAGAAAAATAAAAGAGAGTGAGAGAGAAAA
24281032 GAAGTTATGA
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
38 18 0.30
39 21 0.35
40 21 0.35
ACGTcount: A:0.66, C:0.00, G:0.19, T:0.15
Consensus pattern (39 bp):
AAAAGAAAAATAAAAGAGAGTGAGAGAGAAAAAAAAAGA
Found at i:24283767 original size:12 final size:12
Alignment explanation
Indices: 24283750--24283774 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24283740 AATTTAATAG
24283750 ATTTAATATTAA
1 ATTTAATATTAA
24283762 ATTTAATATTAA
1 ATTTAATATTAA
24283774 A
1 A
24283775 GTGATTAAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
ATTTAATATTAA
Found at i:24286787 original size:5 final size:5
Alignment explanation
Indices: 24286772--24286802 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
24286762 AAATTCATAA
24286772 GCCCGG GCCCG GCCCG GCCCG GCCCG GCCCG
1 GCCC-G GCCCG GCCCG GCCCG GCCCG GCCCG
24286803 TTTTTTAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 21 0.84
6 4 0.16
ACGTcount: A:0.00, C:0.58, G:0.42, T:0.00
Consensus pattern (5 bp):
GCCCG
Found at i:24286847 original size:32 final size:33
Alignment explanation
Indices: 24286809--24286871 Score: 92
Period size: 32 Copynumber: 1.9 Consensus size: 33
24286799 CCCGTTTTTT
* *
24286809 AAATAAATACCAAAAATT-TATTTTAAAAATTA
1 AAATAAAAACAAAAAATTCTATTTTAAAAATTA
*
24286841 AAATAAAAATAAAAAATTCTATTTTAAAAAT
1 AAATAAAAACAAAAAATTCTATTTTAAAAAT
24286872 ATTTTAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 15 0.56
33 12 0.44
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (33 bp):
AAATAAAAACAAAAAATTCTATTTTAAAAATTA
Found at i:24286876 original size:11 final size:11
Alignment explanation
Indices: 24286860--24286958 Score: 78
Period size: 11 Copynumber: 9.9 Consensus size: 11
24286850 TAAAAAATTC
24286860 TATTTTAAAAA
1 TATTTTAAAAA
24286871 TATTTT--AAA
1 TATTTTAAAAA
24286880 -ATTTTAAAAA
1 TATTTTAAAAA
*
24286890 -A--TTAAAAG
1 TATTTTAAAAA
24286898 TATTTTAAAAA
1 TATTTTAAAAA
24286909 TATTTT--AAA
1 TATTTTAAAAA
24286918 -A--TTAAAAA
1 TATTTTAAAAA
24286926 -ATTTTAAAAAA
1 TATTTT-AAAAA
*
24286937 GTATTTTAAAAG
1 -TATTTTAAAAA
24286949 TATTTTAAAA
1 TATTTTAAAA
24286959 TTTAAAAAAA
Statistics
Matches: 73, Mismatches: 3, Indels: 24
0.73 0.03 0.24
Matches are distributed among these distances:
6 2 0.03
8 16 0.22
9 7 0.10
10 6 0.08
11 33 0.45
12 4 0.05
13 5 0.07
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:24286894 original size:27 final size:27
Alignment explanation
Indices: 24286864--24286934 Score: 92
Period size: 27 Copynumber: 2.6 Consensus size: 27
24286854 AAATTCTATT
24286864 TTAAAAATATTTTAAAAT-TTTAAAAAA
1 TTAAAAATATTTTAAAATATTT-AAAAA
* *
24286891 TTAAAAGTATTTTAAAAATATTTTAAAA
1 TTAAAAATATTTT-AAAATATTTAAAAA
24286919 TTAAAAA-ATTTTAAAA
1 TTAAAAATATTTTAAAA
24286935 AAGTATTTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
26 4 0.10
27 17 0.44
28 15 0.38
29 3 0.08
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (27 bp):
TTAAAAATATTTTAAAATATTTAAAAA
Found at i:24286906 original size:38 final size:38
Alignment explanation
Indices: 24286860--24286974 Score: 153
Period size: 38 Copynumber: 3.0 Consensus size: 38
24286850 TAAAAAATTC
24286860 TATTTTAAAAATATTTTAAAATTTTAAAAAATTAAAAG
1 TATTTTAAAAATATTTTAAAATTTTAAAAAATTAAAAG
24286898 TATTTTAAAAATATTTTAAAA--TTAAAAAATTTTAAAAAAG
1 TATTTTAAAAATATTTTAAAATTTTAAAAAA--TT--AAAAG
* * *
24286938 TATTTTAAAAGTATTTTAAAATTTAAAAAAATAAAAA
1 TATTTTAAAAATATTTTAAAATTTTAAAAAATTAAAA
24286975 AATAAAAAAA
Statistics
Matches: 68, Mismatches: 3, Indels: 12
0.82 0.04 0.14
Matches are distributed among these distances:
36 8 0.12
38 27 0.40
40 26 0.38
42 7 0.10
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (38 bp):
TATTTTAAAAATATTTTAAAATTTTAAAAAATTAAAAG
Found at i:24286935 original size:17 final size:17
Alignment explanation
Indices: 24286902--24286934 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
24286892 TAAAAGTATT
24286902 TTAAAAATATTTTAAAA
1 TTAAAAATATTTTAAAA
24286919 TTAAAAA-ATTTTAAAA
1 TTAAAAATATTTTAAAA
24286935 AAGTATTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
TTAAAAATATTTTAAAA
Found at i:24286974 original size:9 final size:8
Alignment explanation
Indices: 24286961--24286985 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
24286951 TTTTAAAATT
24286961 TAAAAAAA
1 TAAAAAAA
24286969 TAAAAAAA
1 TAAAAAAA
24286977 TAAAAAAA
1 TAAAAAAA
24286985 T
1 T
24286986 TATTGTATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (8 bp):
TAAAAAAA
Found at i:24286975 original size:40 final size:40
Alignment explanation
Indices: 24286827--24286976 Score: 162
Period size: 40 Copynumber: 3.7 Consensus size: 40
24286817 ACCAAAAATT
* **
24286827 TATTTTAAAAATTAAAATAAAAATAAAAAATTCTATTTTAAAAA
1 TATTTT-AAAATT-TAA-AAAAATAAAAAA-AGTATTTTAAAAA
* *
24286871 TATTTTAAAATTTTAAAAAAT--TAAAAGTATTTTAAAAA
1 TATTTTAAAATTTAAAAAAATAAAAAAAGTATTTTAAAAA
* * *
24286909 TATTTTAAAA-TTAAAAAATTTTAAAAAAGTATTTTAAAAG
1 TATTTTAAAATTTAAAAAA-ATAAAAAAAGTATTTTAAAAA
24286949 TATTTTAAAATTTAAAAAAATAAAAAAA
1 TATTTTAAAATTTAAAAAAATAAAAAAA
24286977 TAAAAAAATT
Statistics
Matches: 91, Mismatches: 11, Indels: 12
0.80 0.10 0.11
Matches are distributed among these distances:
37 7 0.08
38 22 0.24
39 3 0.03
40 32 0.35
41 14 0.15
42 1 0.01
43 6 0.07
44 6 0.07
ACGTcount: A:0.59, C:0.01, G:0.02, T:0.38
Consensus pattern (40 bp):
TATTTTAAAATTTAAAAAAATAAAAAAAGTATTTTAAAAA
Found at i:24292538 original size:11 final size:11
Alignment explanation
Indices: 24292522--24292551 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
24292512 TTTTGTTGCT
24292522 ATCAACATGTC
1 ATCAACATGTC
24292533 ATCAACATGTC
1 ATCAACATGTC
24292544 ATCAACAT
1 ATCAACAT
24292552 AGAGGAGTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.40, C:0.27, G:0.07, T:0.27
Consensus pattern (11 bp):
ATCAACATGTC
Found at i:24295037 original size:21 final size:21
Alignment explanation
Indices: 24295011--24295152 Score: 97
Period size: 21 Copynumber: 6.8 Consensus size: 21
24295001 ATGAGAGCTA
*
24295011 AATAGAAACCCATAAGGGTTG
1 AATAGAAACCCATAAGAGTTG
* * *
24295032 AATAGAAGCTCGTAAGAGTTG
1 AATAGAAACCCATAAGAGTTG
* * *
24295053 AA-CGAAAACCCATAATAGTTA
1 AATAG-AAACCCATAAGAGTTG
* ** *
24295074 AATAGAAGCTGAAAAGAGTTG
1 AATAGAAACCCATAAGAGTTG
* * * *
24295095 AACAGAAACCTATAAGGGTTA
1 AATAGAAACCCATAAGAGTTG
* * * *
24295116 AACAGAAGCTCAAAAGAGTTG
1 AATAGAAACCCATAAGAGTTG
24295137 AATAGAAACCCATAAG
1 AATAGAAACCCATAAG
24295153 GGTTAAACAA
Statistics
Matches: 85, Mismatches: 34, Indels: 4
0.69 0.28 0.03
Matches are distributed among these distances:
20 1 0.01
21 83 0.98
22 1 0.01
ACGTcount: A:0.47, C:0.13, G:0.21, T:0.18
Consensus pattern (21 bp):
AATAGAAACCCATAAGAGTTG
Found at i:24295062 original size:42 final size:42
Alignment explanation
Indices: 24295014--24295186 Score: 206
Period size: 42 Copynumber: 4.1 Consensus size: 42
24295004 AGAGCTAAAT
* *
24295014 AGAAACCCATAAGGGTTGAATAGAAGCTCGTAAGAGTTGAAC
1 AGAAACCCATAAGGGTTAAATAGAAGCTCGAAAGAGTTGAAC
**
24295056 -GAAAACCCATAATAGTTAAATAGAAGCT-GAAAAGAGTTGAAC
1 AG-AAACCCATAAGGGTTAAATAGAAGCTCG-AAAGAGTTGAAC
* * * *
24295098 AGAAACCTATAAGGGTTAAACAGAAGCTCAAAAGAGTTGAAT
1 AGAAACCCATAAGGGTTAAATAGAAGCTCGAAAGAGTTGAAC
* * * *
24295140 AGAAACCCATAAGGGTTAAACAAAAGCTCAAAAGAGCTGAAC
1 AGAAACCCATAAGGGTTAAATAGAAGCTCGAAAGAGTTGAAC
24295182 AGAAA
1 AGAAA
24295187 GTAAACACGA
Statistics
Matches: 113, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
41 2 0.02
42 110 0.97
43 1 0.01
ACGTcount: A:0.48, C:0.14, G:0.21, T:0.17
Consensus pattern (42 bp):
AGAAACCCATAAGGGTTAAATAGAAGCTCGAAAGAGTTGAAC
Found at i:24295136 original size:84 final size:84
Alignment explanation
Indices: 24294990--24295186 Score: 234
Period size: 84 Copynumber: 2.3 Consensus size: 84
24294980 CCGAAAGCTG
** * * * * **
24294990 AACAAAAGCTCATGAGAGCTAAATAGAAACCCATAAGGGTTGAATAGAAGCTCGTAAGAGTTGAA
1 AACAAAAGCTCAAAAGAGCTGAACAGAAACCCATAAGGGTTAAACAGAAGCTCAAAAGAGTTGAA
*
24295055 CGA-AAACCCATAATAGTTA
66 -GAGAAACCCATAAGAGTTA
* * * * *
24295074 AATAGAAGCTGAAAAGAGTTGAACAGAAACCTATAAGGGTTAAACAGAAGCTCAAAAGAGTTGAA
1 AACAAAAGCTCAAAAGAGCTGAACAGAAACCCATAAGGGTTAAACAGAAGCTCAAAAGAGTTGAA
* *
24295139 TAGAAACCCATAAGGGTTA
66 GAGAAACCCATAAGAGTTA
24295158 AACAAAAGCTCAAAAGAGCTGAACAGAAA
1 AACAAAAGCTCAAAAGAGCTGAACAGAAA
24295187 GTAAACACGA
Statistics
Matches: 92, Mismatches: 20, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
83 1 0.01
84 91 0.99
ACGTcount: A:0.48, C:0.14, G:0.21, T:0.17
Consensus pattern (84 bp):
AACAAAAGCTCAAAAGAGCTGAACAGAAACCCATAAGGGTTAAACAGAAGCTCAAAAGAGTTGAA
GAGAAACCCATAAGAGTTA
Found at i:24295219 original size:21 final size:21
Alignment explanation
Indices: 24295028--24295223 Score: 100
Period size: 21 Copynumber: 9.5 Consensus size: 21
24295018 ACCCATAAGG
* **
24295028 GTTGAATAGAAGCTCGTAAGA
1 GTTGAACAGAAGCTCAAAAGA
* * * *
24295049 GTTGAAC-GAAAACCCATAATA
1 GTTGAACAG-AAGCTCAAAAGA
* * *
24295070 GTTAAATAGAAGCTGAAAAGA
1 GTTGAACAGAAGCTCAAAAGA
* * *
24295091 GTTGAACAGAAAC-CTATAAGG
1 GTTGAACAGAAGCTC-AAAAGA
*
24295112 GTTAAACAGAAGCTCAAAAGA
1 GTTGAACAGAAGCTCAAAAGA
* * * * *
24295133 GTTGAATAGAAACCCATAAGG
1 GTTGAACAGAAGCTCAAAAGA
* *
24295154 GTTAAACAAAAGCTCAAAAGA
1 GTTGAACAGAAGCTCAAAAGA
* *
24295175 GCTGAACAGAAAG-T--AAACA
1 GTTGAACAG-AAGCTCAAAAGA
*
24295194 --CGAACAGAAGCTCAAAAGA
1 GTTGAACAGAAGCTCAAAAGA
24295213 GTTGAACAGAA
1 GTTGAACAGAA
24295224 AGTAAACACG
Statistics
Matches: 123, Mismatches: 42, Indels: 20
0.66 0.23 0.11
Matches are distributed among these distances:
16 3 0.02
17 7 0.06
19 8 0.07
20 1 0.01
21 99 0.80
22 5 0.04
ACGTcount: A:0.48, C:0.14, G:0.21, T:0.16
Consensus pattern (21 bp):
GTTGAACAGAAGCTCAAAAGA
Found at i:24295219 original size:38 final size:38
Alignment explanation
Indices: 24295158--24295234 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
24295148 ATAAGGGTTA
24295158 AACAAAAGCTCAAAAGAGCTGAACAGAAAGTAAACACG
1 AACAAAAGCTCAAAAGAGCTGAACAGAAAGTAAACACG
* *
24295196 AACAGAAGCTCAAAAGAGTTGAACAGAAAGTAAACACG
1 AACAAAAGCTCAAAAGAGCTGAACAGAAAGTAAACACG
24295234 A
1 A
24295235 GAGTTCGCAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.55, C:0.17, G:0.19, T:0.09
Consensus pattern (38 bp):
AACAAAAGCTCAAAAGAGCTGAACAGAAAGTAAACACG
Found at i:24302328 original size:146 final size:137
Alignment explanation
Indices: 24302106--24302377 Score: 373
Period size: 146 Copynumber: 1.9 Consensus size: 137
24302096 TAAAAAAAAG
**
24302106 AGTTTAGATTTTTAAAATAAAAATATTTTTTTAGTCATATTAAAGGAAAAATTTAAAACAAAGTT
1 AGTTTAGATTTTTAAAATAAAAATATTTTTTTAGTCATATTAAAAAAAAAATTTAAAACAAAGTT
* *
24302171 TTGATCTTTTTCAACTATTTCAAAATAAATCTTTGATTTTTAAGAAAAATAGTGATTTTTTTTAA
66 TTGATATTTTTCAACTATTTCAAAATAAAGCTTTGATTTTTAAGAAAAATAGTGATTTTTTTTAA
24302236 AAGAGAA
131 AAGAGAA
* *
24302243 AGTTTAGATTTTTAAAATAAAAATATGTTTTTTAGTCATTTTAACTGAAAATTTTAAAATTTTAG
1 AGTTTAGATTTTTAAAATAAAAATAT-TTTTTTAGTCATATTAA---AAAA----AAAA-TTTAA
* * * *
24302308 AACAAATTTTTGATATTTTTCAATTATTTCGAAATAAAGCTTTGATTTTTAAGAAAATTAGTGAT
57 AACAAAGTTTTGATATTTTTCAACTATTTCAAAATAAAGCTTTGATTTTTAAGAAAAATAGTGAT
24302373 TTTTT
122 TTTTT
24302378 AAAGAAAATT
Statistics
Matches: 116, Mismatches: 10, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
137 26 0.22
138 16 0.14
141 2 0.02
145 4 0.03
146 68 0.59
ACGTcount: A:0.40, C:0.05, G:0.10, T:0.45
Consensus pattern (137 bp):
AGTTTAGATTTTTAAAATAAAAATATTTTTTTAGTCATATTAAAAAAAAAATTTAAAACAAAGTT
TTGATATTTTTCAACTATTTCAAAATAAAGCTTTGATTTTTAAGAAAAATAGTGATTTTTTTTAA
AAGAGAA
Found at i:24302392 original size:20 final size:19
Alignment explanation
Indices: 24302348--24302395 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
24302338 GAAATAAAGC
24302348 TTTGA-TTTTTAAGAAAAT
1 TTTGATTTTTTAAGAAAAT
*
24302366 TAGTGATTTTTTAAAGAAAAT
1 T-TTGATTTTTT-AAGAAAAT
24302387 TTTGATTTT
1 TTTGATTTT
24302396 GAAAAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 1 0.04
19 3 0.12
20 12 0.48
21 9 0.36
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.52
Consensus pattern (19 bp):
TTTGATTTTTTAAGAAAAT
Found at i:24308266 original size:21 final size:21
Alignment explanation
Indices: 24308224--24308266 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
24308214 TACACGGGCA
* *
24308224 TGACTATTGTACACGGTTTGG
1 TGACTATTGTACACCGTGTGG
24308245 TGACTATTG-ACACCCGTGTGG
1 TGACTATTGTACA-CCGTGTGG
24308266 T
1 T
24308267 TCATCCCACA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.19, C:0.19, G:0.28, T:0.35
Consensus pattern (21 bp):
TGACTATTGTACACCGTGTGG
Found at i:24310256 original size:223 final size:223
Alignment explanation
Indices: 24309868--24310309 Score: 875
Period size: 223 Copynumber: 2.0 Consensus size: 223
24309858 TTACAAATCT
24309868 AATTATTAATCCATAAACAACCAAACATGCACCATTCAAATATTCTGTCCATTAATTATCATCTT
1 AATTATTAATCCATAAACAACCAAACATGCACCATTCAAATATTCTGTCCATTAATTATCATCTT
24309933 GTTTGGATGAAATGATTAATTCAAATGCTTTCTAACACTTTAAAATGTAAGAAGAACATACATGA
66 GTTTGGATGAAATGATTAATTCAAATGCTTTCTAACACTTTAAAATGTAAGAAGAACATACATGA
24309998 TTTTACTTGAACGAGTAAACAAATTATGCACGGGACATATCAACAAAGTAGAAATAAAATTAAAC
131 TTTTACTTGAACGAGTAAACAAATTATGCACGGGACATATCAACAAAGTAGAAATAAAATTAAAC
24310063 AAAGAATTGCAATCAATCTAGAATAAAA
196 AAAGAATTGCAATCAATCTAGAATAAAA
24310091 AATTATTAATCCATAAACAACCAAACATGCACCATTCAAATATTCTGTCCATTAATTATCATCTT
1 AATTATTAATCCATAAACAACCAAACATGCACCATTCAAATATTCTGTCCATTAATTATCATCTT
24310156 GTTTGGATGAAATGATTAATTCAAATGCTTTCTAACACTTTAAAATGTAAGAAGAACATACATGA
66 GTTTGGATGAAATGATTAATTCAAATGCTTTCTAACACTTTAAAATGTAAGAAGAACATACATGA
*
24310221 TTTTACTTGAACGGGTAAACAAATTATGCACGGGACATATCAACAAAGTAGAAATAAAATTAAAC
131 TTTTACTTGAACGAGTAAACAAATTATGCACGGGACATATCAACAAAGTAGAAATAAAATTAAAC
24310286 AAAGAATTGCAATCAATCTAGAAT
196 AAAGAATTGCAATCAATCTAGAAT
24310310 CAAACAAAAT
Statistics
Matches: 218, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
223 218 1.00
ACGTcount: A:0.44, C:0.15, G:0.11, T:0.29
Consensus pattern (223 bp):
AATTATTAATCCATAAACAACCAAACATGCACCATTCAAATATTCTGTCCATTAATTATCATCTT
GTTTGGATGAAATGATTAATTCAAATGCTTTCTAACACTTTAAAATGTAAGAAGAACATACATGA
TTTTACTTGAACGAGTAAACAAATTATGCACGGGACATATCAACAAAGTAGAAATAAAATTAAAC
AAAGAATTGCAATCAATCTAGAATAAAA
Found at i:24321507 original size:15 final size:16
Alignment explanation
Indices: 24321489--24321522 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
24321479 AAATTAAATT
*
24321489 AATTAA-CTAGATGCA
1 AATTAACCTAAATGCA
24321504 AATTAACCTAAATGCA
1 AATTAACCTAAATGCA
24321520 AAT
1 AAT
24321523 GAGATGAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.50, C:0.15, G:0.09, T:0.26
Consensus pattern (16 bp):
AATTAACCTAAATGCA
Found at i:24330865 original size:27 final size:27
Alignment explanation
Indices: 24330827--24330881 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
24330817 AACATTGATA
24330827 ATGATTCATTCAATCCATTCGTCACTT
1 ATGATTCATTCAATCCATTCGTCACTT
24330854 ATGATTCATTCAATCCATTCGTCACTT
1 ATGATTCATTCAATCCATTCGTCACTT
24330881 A
1 A
24330882 CCTTCAAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.27, C:0.25, G:0.07, T:0.40
Consensus pattern (27 bp):
ATGATTCATTCAATCCATTCGTCACTT
Found at i:24335865 original size:101 final size:101
Alignment explanation
Indices: 24335690--24335891 Score: 404
Period size: 101 Copynumber: 2.0 Consensus size: 101
24335680 GATGCATCTT
24335690 TAGGTGATAATTTTGGTTAGGCCAATATGGCTATGGTTTGTTGAGACAGCGAAGGGAAAGTGGTT
1 TAGGTGATAATTTTGGTTAGGCCAATATGGCTATGGTTTGTTGAGACAGCGAAGGGAAAGTGGTT
24335755 GATGGATGTTTCTTGAAATCGGTGGGATTATAACAA
66 GATGGATGTTTCTTGAAATCGGTGGGATTATAACAA
24335791 TAGGTGATAATTTTGGTTAGGCCAATATGGCTATGGTTTGTTGAGACAGCGAAGGGAAAGTGGTT
1 TAGGTGATAATTTTGGTTAGGCCAATATGGCTATGGTTTGTTGAGACAGCGAAGGGAAAGTGGTT
24335856 GATGGATGTTTCTTGAAATCGGTGGGATTATAACAA
66 GATGGATGTTTCTTGAAATCGGTGGGATTATAACAA
24335892 CCCGTTTTTT
Statistics
Matches: 101, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
101 101 1.00
ACGTcount: A:0.28, C:0.08, G:0.32, T:0.33
Consensus pattern (101 bp):
TAGGTGATAATTTTGGTTAGGCCAATATGGCTATGGTTTGTTGAGACAGCGAAGGGAAAGTGGTT
GATGGATGTTTCTTGAAATCGGTGGGATTATAACAA
Found at i:24341825 original size:31 final size:32
Alignment explanation
Indices: 24341779--24341845 Score: 127
Period size: 31 Copynumber: 2.1 Consensus size: 32
24341769 TCATTTAGAA
24341779 GTAAAAAAAATTATTAAACTAAGCTATTGAAT
1 GTAAAAAAAATTATTAAACTAAGCTATTGAAT
24341811 GTAAAAAAAA-TATTAAACTAAGCTATTGAAT
1 GTAAAAAAAATTATTAAACTAAGCTATTGAAT
24341842 GTAA
1 GTAA
24341846 TTAATAATAA
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 25 0.71
32 10 0.29
ACGTcount: A:0.54, C:0.06, G:0.10, T:0.30
Consensus pattern (32 bp):
GTAAAAAAAATTATTAAACTAAGCTATTGAAT
Found at i:24342493 original size:32 final size:32
Alignment explanation
Indices: 24342457--24342517 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
24342447 AGTTTCAGGG
24342457 TCTAGTCA-TTACGGATTCGGATCATTTCATGT
1 TCTAGTCACTT-CGGATTCGGATCATTTCATGT
* *
24342489 TCTAGTCACTTTGGATTTGGATCATTTCA
1 TCTAGTCACTTCGGATTCGGATCATTTCA
24342518 ATTCAAGTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
32 24 0.92
33 2 0.08
ACGTcount: A:0.21, C:0.18, G:0.18, T:0.43
Consensus pattern (32 bp):
TCTAGTCACTTCGGATTCGGATCATTTCATGT
Found at i:24346636 original size:39 final size:41
Alignment explanation
Indices: 24346566--24346662 Score: 114
Period size: 40 Copynumber: 2.5 Consensus size: 41
24346556 GTCAACATTT
* **
24346566 AATTAATTTTTAAAAACTTTAAAATTGTTAAAAAAT-TAAAA
1 AATT-ATTTTTAAAAACATTAAAATCATTAAAAAATATAAAA
*
24346607 AATTATTTTTAAAAA-ATTAAAATCATTAAAAAGTATAAAA
1 AATTATTTTTAAAAACATTAAAATCATTAAAAAATATAAAA
24346647 AA-TA-TTTT-AAAACATT
1 AATTATTTTTAAAAACATT
24346663 TTTTTAAATA
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
37 4 0.08
38 7 0.14
39 17 0.34
40 18 0.36
41 4 0.08
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.38
Consensus pattern (41 bp):
AATTATTTTTAAAAACATTAAAATCATTAAAAAATATAAAA
Found at i:24347570 original size:88 final size:88
Alignment explanation
Indices: 24347421--24347583 Score: 215
Period size: 88 Copynumber: 1.9 Consensus size: 88
24347411 GGGGACTGCA
* *
24347421 TGCTCCGCAGGCAACCTAGAGTGAAACACATGTCCAACAGGCCTGAAACCCATGCGAAATGCCT-
1 TGCTCCGCAGGCAACCCAAAGTGAAACACATGTCCAACAGGCCTGAAACCCATGCGAAATG-CTA
24347485 GTACTAGGAACAAAAAGGATCGAG
65 GTACTAGGAACAAAAAGGATCGAG
* * * * *
24347509 TGCTCCGCAGGCAACCCAAAGTGAAACACGTGTCCAGCAGGCCT-AAA-GCTTGCACGGAATGCT
1 TGCTCCGCAGGCAACCCAAAGTGAAACACATGTCCAACAGGCCTGAAACCCATG--CGAAATGCT
24347572 AGTACTAGGAAC
64 AGTACTAGGAAC
24347584 GGTGGAGTTA
Statistics
Matches: 65, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
86 3 0.05
87 5 0.08
88 57 0.88
ACGTcount: A:0.33, C:0.27, G:0.25, T:0.15
Consensus pattern (88 bp):
TGCTCCGCAGGCAACCCAAAGTGAAACACATGTCCAACAGGCCTGAAACCCATGCGAAATGCTAG
TACTAGGAACAAAAAGGATCGAG
Found at i:24352780 original size:440 final size:440
Alignment explanation
Indices: 24351946--24352826 Score: 1438
Period size: 440 Copynumber: 2.0 Consensus size: 440
24351936 GAATACGATG
* * *
24351946 TAAAAGAGGCAGTGTTAAACAAATATCATGCTATTGTAGCCTAGTTGCTTGTAGGGTCTGACAAA
1 TAAAAGAGGCAGTGTTAAACAAATATCATGCTATTGTAGCCCAGTTACTTGCAGGGTCTGACAAA
** * * * *
24352011 GTTCTGATTAAACAGCTCCCGAGAAGTGATAACACGCATGCTGATGCTTTGTCCAAGTTAGCATC
66 GTTCAAATTAAACAGCTCCCGAAAAGTGACAACACACATGCTAATGCTTTGTCCAAGTTAGCATC
* *
24352076 CTTTGTTTTCATCAAACAAAGAGGGAAAATTCTACTCGAGCATAAAGAGACCCCGAGTTATGACA
131 CTTTGTTGTCATCAAACAAAGAGGGAAAATCCTACTCGAGCATAAAGAGACCCCGAGTTATGACA
*
24352141 CACTGTAAGTACTATGTATAGATCAAGAAGAAACCTAGATGAATCCAATAGTTTACACTCTCCAA
196 CACTGTAAGTACTATGCATAGATCAAGAAGAAACCTAGATGAATCCAATAGTTTACACTCTCCAA
*
24352206 GGTGAACAAGATAACCAAGACAAGAAGGAGCTCACGAGGCTACAACTCAAAATTGCGAGGTATGT
261 GGTGAACAAGATAACCAAGACAAGAAGGAGCTCACGAGGCTACAACTCAAAACTGCGAGGTATGT
* * * * * *
24352271 CATTATAACAAATTACAAATACCTGTATAACTCCTAATGCATGAATTGAATATTTGAATGTTGCA
326 CATTATAACAAATTACAAATACATGCATAACTCCTAATACATGAATTGAATAATTGAATATTACA
* *
24352336 AACTTGTTTAGTTGCATAATGAATTAAAACAATATATTTTGTCTTATGTT
391 AACTTGTTTAGTTGCATAATGAATTAAAACAACATATTTTGTCCTATGTT
* * ** *
24352386 TAAAAGAGGCGGTGTTAAAGAAATATCATTTTATTGTAGCCCAGTTACTTGCAGGGTTTGACAAA
1 TAAAAGAGGCAGTGTTAAACAAATATCATGCTATTGTAGCCCAGTTACTTGCAGGGTCTGACAAA
** *
24352451 GTTCAAATTAAACAGCTCCCGAAAAGTGACAACACATGTGCTAATGTTTTGTCCAAGTTAGCATC
66 GTTCAAATTAAACAGCTCCCGAAAAGTGACAACACACATGCTAATGCTTTGTCCAAGTTAGCATC
* *
24352516 CTTTGTTGTCATCGAACAAAGAGGGAAAATCCTACTCGAGCATAGAGAGACCCCGAGTTATGACA
131 CTTTGTTGTCATCAAACAAAGAGGGAAAATCCTACTCGAGCATAAAGAGACCCCGAGTTATGACA
* * *
24352581 CACTGTAAGTACTATGCATAGATTAGGAAGAAACCTAGATGAATCCAATAGTTTGCACTCTCCAA
196 CACTGTAAGTACTATGCATAGATCAAGAAGAAACCTAGATGAATCCAATAGTTTACACTCTCCAA
24352646 GGTGAACAAGATAACCAAGACAAGAAGGAGCTCACGAGGCTACAACTCAAAACTGCGAGGTATGT
261 GGTGAACAAGATAACCAAGACAAGAAGGAGCTCACGAGGCTACAACTCAAAACTGCGAGGTATGT
* *
24352711 CATTATAACAAATTACAAATACATGCATAACTCCTAATACGTGAATTGAGTAATTGAATATTACA
326 CATTATAACAAATTACAAATACATGCATAACTCCTAATACATGAATTGAATAATTGAATATTACA
24352776 AACTTGTTTAGTTGCATAATGAATTAAAACAACATATTTTGTCCTATGTT
391 AACTTGTTTAGTTGCATAATGAATTAAAACAACATATTTTGTCCTATGTT
24352826 T
1 T
24352827 GATAGATACA
Statistics
Matches: 405, Mismatches: 36, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
440 405 1.00
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.28
Consensus pattern (440 bp):
TAAAAGAGGCAGTGTTAAACAAATATCATGCTATTGTAGCCCAGTTACTTGCAGGGTCTGACAAA
GTTCAAATTAAACAGCTCCCGAAAAGTGACAACACACATGCTAATGCTTTGTCCAAGTTAGCATC
CTTTGTTGTCATCAAACAAAGAGGGAAAATCCTACTCGAGCATAAAGAGACCCCGAGTTATGACA
CACTGTAAGTACTATGCATAGATCAAGAAGAAACCTAGATGAATCCAATAGTTTACACTCTCCAA
GGTGAACAAGATAACCAAGACAAGAAGGAGCTCACGAGGCTACAACTCAAAACTGCGAGGTATGT
CATTATAACAAATTACAAATACATGCATAACTCCTAATACATGAATTGAATAATTGAATATTACA
AACTTGTTTAGTTGCATAATGAATTAAAACAACATATTTTGTCCTATGTT
Found at i:24355076 original size:22 final size:22
Alignment explanation
Indices: 24355048--24355091 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
24355038 ATAATTCGCC
24355048 TCATAATAATGTTTTTATCACA
1 TCATAATAATGTTTTTATCACA
24355070 TCATAATAATGTTTTTATCACA
1 TCATAATAATGTTTTTATCACA
24355092 CTTTTTTGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.14, G:0.05, T:0.45
Consensus pattern (22 bp):
TCATAATAATGTTTTTATCACA
Found at i:24355738 original size:14 final size:16
Alignment explanation
Indices: 24355708--24355739 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
24355698 TGAAAGTTGA
24355708 TTATGCTTTCATTTCT
1 TTATGCTTTCATTTCT
24355724 TTAT-CTTTC-TTTCT
1 TTATGCTTTCATTTCT
24355738 TT
1 TT
24355740 CTTAATCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.44
15 5 0.31
16 4 0.25
ACGTcount: A:0.09, C:0.19, G:0.03, T:0.69
Consensus pattern (16 bp):
TTATGCTTTCATTTCT
Found at i:24355742 original size:18 final size:19
Alignment explanation
Indices: 24355713--24355749 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
24355703 GTTGATTATG
*
24355713 CTTTCATTTCTTTATCTTT
1 CTTTCATTTCTTAATCTTT
24355732 CTTTC-TTTCTTAATCTTT
1 CTTTCATTTCTTAATCTTT
24355750 GTATTTTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.11, C:0.22, G:0.00, T:0.68
Consensus pattern (19 bp):
CTTTCATTTCTTAATCTTT
Found at i:24359852 original size:27 final size:27
Alignment explanation
Indices: 24359796--24359869 Score: 91
Period size: 27 Copynumber: 2.8 Consensus size: 27
24359786 TATCATCCCT
*
24359796 ATTTTACCCCT-AGTAAAA--TTTGATG
1 ATTTTACCCCTGA-TAAAATTTTTGATA
24359821 ATTTTACCCCTGATAAAATTTTTGATA
1 ATTTTACCCCTGATAAAATTTTTGATA
* *
24359848 ATTTTATCCCTGGTAAAATTTT
1 ATTTTACCCCTGATAAAATTTT
24359870 GAGAATATAT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
25 16 0.37
26 1 0.02
27 26 0.60
ACGTcount: A:0.31, C:0.15, G:0.09, T:0.45
Consensus pattern (27 bp):
ATTTTACCCCTGATAAAATTTTTGATA
Found at i:24362948 original size:44 final size:45
Alignment explanation
Indices: 24362831--24362956 Score: 191
Period size: 45 Copynumber: 2.8 Consensus size: 45
24362821 AGGCGGAAGA
** *
24362831 ATTGGTGGCTTCGTCCACAACCTACATGTCAGCTTGTCTGCGAAT
1 ATTGGTGGCTTTATCCACAACCTACATGGCAGCTTGTCTGCGAAT
24362876 ATTGGTGGCTTTATCCACAACCTACATGGCAGCTTGTCTGCGAAT
1 ATTGGTGGCTTTATCCACAACCTACATGGCAGCTTGTCTGCGAAT
* * *
24362921 ATTGGTGG-TTTATCCATAACCTGCATGGTAGCTTGT
1 ATTGGTGGCTTTATCCACAACCTACATGGCAGCTTGT
24362957 ATGTAAATTT
Statistics
Matches: 75, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
44 25 0.33
45 50 0.67
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.33
Consensus pattern (45 bp):
ATTGGTGGCTTTATCCACAACCTACATGGCAGCTTGTCTGCGAAT
Found at i:24364143 original size:484 final size:485
Alignment explanation
Indices: 24363204--24364180 Score: 1686
Period size: 484 Copynumber: 2.0 Consensus size: 485
24363194 CTCACCGTAT
24363204 TTAGTTTTTTGATTTTATAGATAACCCCGAGGTTAGGATTCGATAACAACATTTGGAGGAGTTTC
1 TTAGTTTTTTGATTTTATAGATAACCCCGAGGTTAGGATTCGATAACAACATTTGGAGGAGTTTC
*
24363269 TCGAAATTCTTTTTAAATTAAAGTAATTAAAGTTTATCTTAATATTTTTTGTTTTGGGATTGTAA
66 TCGAAATTCTTTTTAAATTAAAGTAATTAAAGTTTATCTTAATATTTTTTATTTTGGGATTGTAA
* *
24363334 TAAGTTTGAATATGCACTGTGGCATGAGACTTTACTTTGGGGATTTTTCATTCTGATATGCAAGA
131 TAAGTTTGAATATGCACTATGGCATAAGACTTTACTTTGGGGATTTTTCATTCTGATATGCAAGA
*
24363399 GTTGATTGCATGACATTAAGTTTTAAAAACTGCATAAATTAGTATTTGATAAGAATACACATGAA
196 GTTGATTGCATGACATCAAGTTTTAAAAACTGCATAAATTAGTATTTGATAAGAATACACATGAA
*
24363464 ACTTGGTTTCTATTAAAACTTGACAAAATCACTATTTTCCGCTTCGACAATGGAAATAAGTTTTA
261 ACTTGGTTTCTATTAAAACTTGACAAAATCACTATTTTCCGCTTCGAAAATGGAAATAAGTTTTA
* * *
24363529 GACGAAAATATGACTTGATTTTTGAGATTTTAAATTGTCTGTTGATGTTTTATCGAATTTACATG
326 GACAAAAATATGACTTGATTTATGAGATTTTAAATTGTCTGTTGATGTTTTACCGAATTTACATG
* *
24363594 AAATATTGATTTTTAACAAAATATGGTTTTAGTAAAAATTTTCGTTGTGGTTCTTATCTGCAATT
391 AAATATTGATTTTTAACAAAATATGGTTCTAGGAAAAATTTTCGTTGTGGTTCTTATCTGCAATT
24363659 CTAAGAAACAAGTTTTTAATAAAATTAGAC
456 CTAAGAAACAAGTTTTTAATAAAATTAGAC
** *
24363689 TTAGTTTTTTGATTTTATAGATAACCTTGA-GTTAGGATTCGATGACAACATTTGGAGGAGTTTC
1 TTAGTTTTTTGATTTTATAGATAACCCCGAGGTTAGGATTCGATAACAACATTTGGAGGAGTTTC
* *
24363753 TCGGAATTCTTTTTAAATTAAAGTAATTAAAGTTTATCTTAATATTTTTTATTTTTGGATTGTAA
66 TCGAAATTCTTTTTAAATTAAAGTAATTAAAGTTTATCTTAATATTTTTTATTTTGGGATTGTAA
* **
24363818 TAAGTTTGAGTATGGGCTATGGCATAAGACTTTACTTTGGGGATTTTTCATTCTGATATGCAAGA
131 TAAGTTTGAATATGCACTATGGCATAAGACTTTACTTTGGGGATTTTTCATTCTGATATGCAAGA
* * * * *
24363883 GTTGATTGCTTGATATCAAGTTTTAAAAACTTCATAAATTAGTGTTTGATAAGAATACGCATGAA
196 GTTGATTGCATGACATCAAGTTTTAAAAACTGCATAAATTAGTATTTGATAAGAATACACATGAA
* *
24363948 ACTTGGTTTCTATTAAAACTTGACAAAATCACTATTTTCCGCTTCGAAAATGGAAATGAGTTTTT
261 ACTTGGTTTCTATTAAAACTTGACAAAATCACTATTTTCCGCTTCGAAAATGGAAATAAGTTTTA
*
24364013 GACAAAAATATGACTTGATTTATGAGGTTTTAAATTGTCTGTTGATGTTTTACCGAATTTACATG
326 GACAAAAATATGACTTGATTTATGAGATTTTAAATTGTCTGTTGATGTTTTACCGAATTTACATG
* * *
24364078 AAATATTGATTTTTAACAGAATATGGTTCTAGGAAAAATTTTTGTTGTGGTTTTTATCTGCAATT
391 AAATATTGATTTTTAACAAAATATGGTTCTAGGAAAAATTTTCGTTGTGGTTCTTATCTGCAATT
24364143 CTAAGAAACAAGTTTTTAATAAAATTAGAC
456 CTAAGAAACAAGTTTTTAATAAAATTAGAC
24364173 TTAGTTTT
1 TTAGTTTT
24364181 CAAAATTACT
Statistics
Matches: 463, Mismatches: 29, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
484 435 0.94
485 28 0.06
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.41
Consensus pattern (485 bp):
TTAGTTTTTTGATTTTATAGATAACCCCGAGGTTAGGATTCGATAACAACATTTGGAGGAGTTTC
TCGAAATTCTTTTTAAATTAAAGTAATTAAAGTTTATCTTAATATTTTTTATTTTGGGATTGTAA
TAAGTTTGAATATGCACTATGGCATAAGACTTTACTTTGGGGATTTTTCATTCTGATATGCAAGA
GTTGATTGCATGACATCAAGTTTTAAAAACTGCATAAATTAGTATTTGATAAGAATACACATGAA
ACTTGGTTTCTATTAAAACTTGACAAAATCACTATTTTCCGCTTCGAAAATGGAAATAAGTTTTA
GACAAAAATATGACTTGATTTATGAGATTTTAAATTGTCTGTTGATGTTTTACCGAATTTACATG
AAATATTGATTTTTAACAAAATATGGTTCTAGGAAAAATTTTCGTTGTGGTTCTTATCTGCAATT
CTAAGAAACAAGTTTTTAATAAAATTAGAC
Found at i:24364496 original size:78 final size:78
Alignment explanation
Indices: 24364367--24364524 Score: 307
Period size: 78 Copynumber: 2.0 Consensus size: 78
24364357 TATTTGAATC
24364367 ATTGATTTATATAATTCTCATATTTTTGTGAGATTAAGTTAAATATTTGATTTCATTAGTTTTGA
1 ATTGATTTATATAATTCTCATATTTTTGTGAGATTAAGTTAAATATTTGATTTCATTAGTTTTGA
24364432 ATGATTTACACAA
66 ATGATTTACACAA
*
24364445 ATTGATTTCTATAATTCTCATATTTTTGTGAGATTAAGTTAAATATTTGATTTCATTAGTTTTGA
1 ATTGATTTATATAATTCTCATATTTTTGTGAGATTAAGTTAAATATTTGATTTCATTAGTTTTGA
24364510 ATGATTTACACAA
66 ATGATTTACACAA
24364523 AT
1 AT
24364525 GGTTTAAAAA
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 79 1.00
ACGTcount: A:0.33, C:0.07, G:0.11, T:0.49
Consensus pattern (78 bp):
ATTGATTTATATAATTCTCATATTTTTGTGAGATTAAGTTAAATATTTGATTTCATTAGTTTTGA
ATGATTTACACAA
Found at i:24368434 original size:35 final size:34
Alignment explanation
Indices: 24368362--24368434 Score: 83
Period size: 34 Copynumber: 2.1 Consensus size: 34
24368352 TTCCATGCTA
* * *
24368362 AATTCAATTCGGCAATGTAGTTATACATACATAC
1 AATTCAATTCGGCAATGTAATAATAAATACATAC
* * *
24368396 AATTCAGTTCGGCTATGTACATAATAAATACATTC
1 AATTCAATTCGGCAATGTA-ATAATAAATACATAC
24368431 AATT
1 AATT
24368435 TAACATCATT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
34 17 0.53
35 15 0.47
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.34
Consensus pattern (34 bp):
AATTCAATTCGGCAATGTAATAATAAATACATAC
Found at i:24370567 original size:19 final size:19
Alignment explanation
Indices: 24370543--24370579 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
24370533 TTACTTTCTA
24370543 TTTTT-GTTGATTTTCTTGC
1 TTTTTGGTTG-TTTTCTTGC
24370562 TTTTTGGTTGTTTTCTTG
1 TTTTTGGTTGTTTTCTTG
24370580 TATGGTGACT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.03, C:0.08, G:0.19, T:0.70
Consensus pattern (19 bp):
TTTTTGGTTGTTTTCTTGC
Found at i:24372163 original size:18 final size:17
Alignment explanation
Indices: 24372137--24372172 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
24372127 TTTGGTTATA
24372137 TTTAATTTTCGATATGTT
1 TTTAATTTT-GATATGTT
*
24372155 TTTATTTTTGATATGTT
1 TTTAATTTTGATATGTT
24372172 T
1 T
24372173 CATTTAAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.19, C:0.03, G:0.11, T:0.67
Consensus pattern (17 bp):
TTTAATTTTGATATGTT
Found at i:24372303 original size:47 final size:47
Alignment explanation
Indices: 24372234--24372329 Score: 174
Period size: 47 Copynumber: 2.0 Consensus size: 47
24372224 TTTGGTCTTC
* *
24372234 AAACAATGTTTTATATTACTTATATTGTTTGATTAAAAATTATAATT
1 AAACAATGTTTCATATTACTTATATTATTTGATTAAAAATTATAATT
24372281 AAACAATGTTTCATATTACTTATATTATTTGATTAAAAATTATAATT
1 AAACAATGTTTCATATTACTTATATTATTTGATTAAAAATTATAATT
24372328 AA
1 AA
24372330 CATTACAAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.47
Consensus pattern (47 bp):
AAACAATGTTTCATATTACTTATATTATTTGATTAAAAATTATAATT
Found at i:24372905 original size:17 final size:17
Alignment explanation
Indices: 24372878--24372911 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
24372868 AAACACATTC
24372878 TTTTCTTTTCTTTATTTG
1 TTTTCTTTTCTTT-TTTG
24372896 TTTT-TTTTCTTTTTTG
1 TTTTCTTTTCTTTTTTG
24372912 GGTGATTGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 8 0.50
18 4 0.25
ACGTcount: A:0.03, C:0.09, G:0.06, T:0.82
Consensus pattern (17 bp):
TTTTCTTTTCTTTTTTG
Found at i:24377931 original size:41 final size:41
Alignment explanation
Indices: 24377874--24377977 Score: 154
Period size: 41 Copynumber: 2.5 Consensus size: 41
24377864 CCAGTGAGAT
*
24377874 AATTCAGACTCTATGTCTAGCAAGCTGGATGCCGGTGAAAC
1 AATTCAGACTCTATGTCTAGCAAGCTGGATGCCGATGAAAC
*
24377915 AATTCAGACTCTATGTCTAGCAGGCTGGATGCCGATGAAAC
1 AATTCAGACTCTATGTCTAGCAAGCTGGATGCCGATGAAAC
* * * *
24377956 ATTTCGGACTTTAAGTCTAGCA
1 AATTCAGACTCTATGTCTAGCA
24377978 GGCTAAAAGC
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 57 1.00
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (41 bp):
AATTCAGACTCTATGTCTAGCAAGCTGGATGCCGATGAAAC
Found at i:24379529 original size:21 final size:21
Alignment explanation
Indices: 24379488--24379530 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
24379478 AATAAAGTAG
*
24379488 ATTATATATTATTTTTATAGT
1 ATTATATATTATATTTATAGT
24379509 ATTATATATTATGATTT-TAGT
1 ATTATATATTAT-ATTTATAGT
24379530 A
1 A
24379531 AATTCATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (21 bp):
ATTATATATTATATTTATAGT
Found at i:24379609 original size:58 final size:57
Alignment explanation
Indices: 24379513--24379677 Score: 183
Period size: 58 Copynumber: 2.9 Consensus size: 57
24379503 TATAGTATTA
* * *
24379513 TATATTATGATTTTAGTAAATTCATA--TAATAATAATTATATTAAGAATTTTATTAAAT
1 TATA-TATTATTTTATTAAATT-ATATTTAATAATAATTATATTAA-AATTTGATTAAAT
* * *
24379571 TATATATTATTTTATTAAATTATATTTAATAATAATTATGTTAAAATATGGTTAAAT
1 TATATATTATTTTATTAAATTATATTTAATAATAATTATATTAAAATTTGATTAAAT
* * *
24379628 TATTTATTATTTTTATTAAATTATTTTTAATATTAATCT-TATTAAAATTT
1 TATATATTA-TTTTATTAAATTATATTTAATAATAAT-TATATTAAAATTT
24379678 AATAACAATA
Statistics
Matches: 92, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
56 3 0.03
57 33 0.36
58 55 0.60
59 1 0.01
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (57 bp):
TATATATTATTTTATTAAATTATATTTAATAATAATTATATTAAAATTTGATTAAAT
Found at i:24379862 original size:16 final size:16
Alignment explanation
Indices: 24379841--24379876 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
24379831 TAAATTACTG
*
24379841 ATTACATCTCTATTCA
1 ATTACAGCTCTATTCA
*
24379857 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCA
24379873 ATTA
1 ATTA
24379877 TTCCATTACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.31, C:0.25, G:0.03, T:0.42
Consensus pattern (16 bp):
ATTACAGCTCTATTCA
Found at i:24382511 original size:26 final size:26
Alignment explanation
Indices: 24382482--24382531 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
24382472 TTTGGTATAG
24382482 ACTAGTCTTGTCCATGTAAAGTTTTC
1 ACTAGTCTTGTCCATGTAAAGTTTTC
24382508 ACTAGTCTTGTCCATGTAAAGTTT
1 ACTAGTCTTGTCCATGTAAAGTTT
24382532 CCTTTCAGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.24, C:0.18, G:0.16, T:0.42
Consensus pattern (26 bp):
ACTAGTCTTGTCCATGTAAAGTTTTC
Found at i:24395960 original size:13 final size:13
Alignment explanation
Indices: 24395942--24395997 Score: 73
Period size: 13 Copynumber: 4.5 Consensus size: 13
24395932 AATTTAGAAT
24395942 TATTTAGTGATAA
1 TATTTAGTGATAA
24395955 TATTTAGTGATAA
1 TATTTAGTGATAA
*
24395968 TATTTA--GA-AT
1 TATTTAGTGATAA
*
24395978 TATTTAGTGATTA
1 TATTTAGTGATAA
24395991 TATTTAG
1 TATTTAG
24395998 GAAAAATCTA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
10 7 0.19
11 2 0.05
12 2 0.05
13 26 0.70
ACGTcount: A:0.36, C:0.00, G:0.14, T:0.50
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:24399477 original size:43 final size:43
Alignment explanation
Indices: 24399413--24399497 Score: 125
Period size: 43 Copynumber: 2.0 Consensus size: 43
24399403 TGGAGACAAT
* *
24399413 TAATTCTAATGCCAAAAGTTATAGTCTATATTGACTAACAAGC
1 TAATTCTAATACCAAAAGTTATAGACTATATTGACTAACAAGC
* * *
24399456 TAATTCTAATACCAAATGTTATAGACTATTTTGACTTACAAG
1 TAATTCTAATACCAAAAGTTATAGACTATATTGACTAACAAG
24399498 GTACTATCCA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.39, C:0.15, G:0.11, T:0.35
Consensus pattern (43 bp):
TAATTCTAATACCAAAAGTTATAGACTATATTGACTAACAAGC
Found at i:24404267 original size:16 final size:17
Alignment explanation
Indices: 24404216--24404274 Score: 59
Period size: 17 Copynumber: 3.5 Consensus size: 17
24404206 TATAAAAATA
*
24404216 TAATAAAAATAAAATAAG
1 TAATAAAAA-AACATAAG
* *
24404234 T-ATAATAAAACATTAG
1 TAATAAAAAAACATAAG
24404250 TAATAAAAAAACA-AAG
1 TAATAAAAAAACATAAG
24404266 TAATGAAAA
1 TAAT-AAAA
24404275 GAAAGAGAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
16 13 0.38
17 20 0.59
18 1 0.03
ACGTcount: A:0.68, C:0.03, G:0.07, T:0.22
Consensus pattern (17 bp):
TAATAAAAAAACATAAG
Found at i:24411649 original size:22 final size:23
Alignment explanation
Indices: 24411623--24411667 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
24411613 CCAGGTTAGA
24411623 TAAAACAATTAAAATA-AATAAT
1 TAAAACAATTAAAATAGAATAAT
*
24411645 TAAAATAATTAAAATAGAATAAT
1 TAAAACAATTAAAATAGAATAAT
24411668 AAATCTATGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 15 0.71
23 6 0.29
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (23 bp):
TAAAACAATTAAAATAGAATAAT
Found at i:24412149 original size:8 final size:8
Alignment explanation
Indices: 24412138--24412195 Score: 98
Period size: 8 Copynumber: 7.2 Consensus size: 8
24412128 TTAAAAATTC
24412138 AAAATAAT
1 AAAATAAT
24412146 AAAATAAT
1 AAAATAAT
24412154 AAAATAAT
1 AAAATAAT
24412162 AAAATAAT
1 AAAATAAT
*
24412170 AAGATAAT
1 AAAATAAT
24412178 AAAATAAT
1 AAAATAAT
*
24412186 AAAACAAT
1 AAAATAAT
24412194 AA
1 AA
24412196 GAGCTGATAA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
8 47 1.00
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.22
Consensus pattern (8 bp):
AAAATAAT
Found at i:24416266 original size:8 final size:8
Alignment explanation
Indices: 24416253--24416277 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
24416243 TAAAAATTTG
24416253 AAATAATA
1 AAATAATA
24416261 AAATAATA
1 AAATAATA
24416269 AAATAATA
1 AAATAATA
24416277 A
1 A
24416278 GAGTTGATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AAATAATA
Found at i:24425337 original size:57 final size:57
Alignment explanation
Indices: 24425263--24425426 Score: 206
Period size: 57 Copynumber: 2.9 Consensus size: 57
24425253 TTTTTCAGGT
* * * ***
24425263 CATTGTCATTTTCATTTTGGTGAAAACCACGTTCATTTCCAAATGATTTC-ATCACTC
1 CATTTTCATTTTAATTTTGGAGAAAACCATAATCATTTCCAAATG-TTTCTATCACTC
* **
24425320 CATTTTCATTTTAATTTTGGAGAAAACCATAATCATTTTCAAATGTTTCTATTTCTC
1 CATTTTCATTTTAATTTTGGAGAAAACCATAATCATTTCCAAATGTTTCTATCACTC
*
24425377 CATTTTCA-TTTAATTTAGGAGAAAACCATAATCATTTCCAAATGCTTTCT
1 CATTTTCATTTTAATTTTGGAGAAAACCATAATCATTTCCAAATG-TTTCT
24425427 TGTTTCTCTA
Statistics
Matches: 94, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
56 38 0.40
57 56 0.60
ACGTcount: A:0.30, C:0.19, G:0.09, T:0.43
Consensus pattern (57 bp):
CATTTTCATTTTAATTTTGGAGAAAACCATAATCATTTCCAAATGTTTCTATCACTC
Found at i:24426669 original size:66 final size:69
Alignment explanation
Indices: 24426542--24426676 Score: 213
Period size: 66 Copynumber: 2.0 Consensus size: 69
24426532 TGTTTGAAAT
* * * *
24426542 TTGACAATTTTATTGTTAAAATGGCTACTGTTTAGTTGTGTGTGAAAGGCATTTAAACTGTCCAA
1 TTGACAAATTTATTGCTAAAATGGCTACTGTTTAGTCGTGTGTGAAAGACATTTAAACTGTCCAA
24426607 ATTG
66 ATTG
24426611 TTGACAAATTTATTGCT-AAATGGCTACTGTTTAG-CG-GTGTGAAAGACATTTAAACTGTCCAA
1 TTGACAAATTTATTGCTAAAATGGCTACTGTTTAGTCGTGTGTGAAAGACATTTAAACTGTCCAA
24426673 ATTG
66 ATTG
24426677 ATGATAAAAT
Statistics
Matches: 62, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
66 29 0.47
67 1 0.02
68 17 0.27
69 15 0.24
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.38
Consensus pattern (69 bp):
TTGACAAATTTATTGCTAAAATGGCTACTGTTTAGTCGTGTGTGAAAGACATTTAAACTGTCCAA
ATTG
Found at i:24432378 original size:15 final size:15
Alignment explanation
Indices: 24432358--24432387 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
24432348 TGATAGCTTC
24432358 TTTTTAGTTTAATTT
1 TTTTTAGTTTAATTT
*
24432373 TTTTTAGTTTTATTT
1 TTTTTAGTTTAATTT
24432388 ATCTAATTAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.77
Consensus pattern (15 bp):
TTTTTAGTTTAATTT
Found at i:24450920 original size:49 final size:49
Alignment explanation
Indices: 24450851--24450991 Score: 151
Period size: 51 Copynumber: 2.8 Consensus size: 49
24450841 GATACTGGTT
* *
24450851 CACATAGTAGCCTACGCATAGTACTACATGTGACCATCACTATCCGATA
1 CACATAGTAGCCTGCACATAGTACTACATGTGACCATCACTATCCGATA
* * * *
24450900 CACGTAGTAGCTTGCACATAGTACTACACATGTGATCGA--AGCTATCCGGTA
1 CACATAGTAGCCTGCACATAGTACT--ACATGTGA-CCATCA-CTATCCGATA
* * *
24450951 CGCATAGTAGCCTGCACATAGTACTACACGTAACCATCACT
1 CACATAGTAGCCTGCACATAGTACTACATGTGACCATCACT
24450992 TTCACTTTCA
Statistics
Matches: 74, Mismatches: 12, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
48 2 0.03
49 29 0.39
50 2 0.03
51 39 0.53
52 2 0.03
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (49 bp):
CACATAGTAGCCTGCACATAGTACTACATGTGACCATCACTATCCGATA
Found at i:24464645 original size:69 final size:67
Alignment explanation
Indices: 24464517--24464655 Score: 197
Period size: 69 Copynumber: 2.0 Consensus size: 67
24464507 TTATTTTATT
* * *
24464517 TTATTTAATATTAAATTAAATTTAATACTTATGTTAATAGTATTTTATTAATTTAATATTAAAGT
1 TTATTTAATATTAAATTAAATCTAATACTTATCTTAATAGTATTATATTAATTTAATATTAAAGT
24464582 GA
66 GA
* * * *
24464584 TTATATTAATATTAAATTTAATCTAATATTTATCTTGATAAGTATTATATTAATTTAATATTAAT
1 TTAT-TTAATATTAAATTAAATCTAATACTTATCTTAAT-AGTATTATATTAATTTAATATTAAA
24464649 GTGA
64 GTGA
24464653 TTA
1 TTA
24464656 AGTTTAATCA
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
67 4 0.06
68 29 0.46
69 30 0.48
ACGTcount: A:0.41, C:0.02, G:0.06, T:0.51
Consensus pattern (67 bp):
TTATTTAATATTAAATTAAATCTAATACTTATCTTAATAGTATTATATTAATTTAATATTAAAGT
GA
Found at i:24466922 original size:49 final size:49
Alignment explanation
Indices: 24466868--24466967 Score: 200
Period size: 49 Copynumber: 2.0 Consensus size: 49
24466858 GTTTTCAAGC
24466868 TCCTAAAGTGCAAAAATTAGTTTAATTTGCTTCACCAAATTACAGCAGA
1 TCCTAAAGTGCAAAAATTAGTTTAATTTGCTTCACCAAATTACAGCAGA
24466917 TCCTAAAGTGCAAAAATTAGTTTAATTTGCTTCACCAAATTACAGCAGA
1 TCCTAAAGTGCAAAAATTAGTTTAATTTGCTTCACCAAATTACAGCAGA
24466966 TC
1 TC
24466968 AAACTCCCCC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (49 bp):
TCCTAAAGTGCAAAAATTAGTTTAATTTGCTTCACCAAATTACAGCAGA
Found at i:24474524 original size:23 final size:22
Alignment explanation
Indices: 24474481--24474526 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
24474471 ATTTTGTTCA
*
24474481 ACTTTAACTTTTATTTAAAAAC
1 ACTTTAACTTTTATATAAAAAC
* *
24474503 ACTTTAATTTGTTATATCAAAAC
1 ACTTTAACTT-TTATATAAAAAC
24474526 A
1 A
24474527 TATTATCAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.41, C:0.13, G:0.02, T:0.43
Consensus pattern (22 bp):
ACTTTAACTTTTATATAAAAAC
Found at i:24476143 original size:42 final size:42
Alignment explanation
Indices: 24476084--24476168 Score: 152
Period size: 42 Copynumber: 2.0 Consensus size: 42
24476074 GTTACTAGAC
*
24476084 TTCGTCAGTAATTATAATCAGTTATCATAGAATATTGAAATT
1 TTCGTCAGTAATTATAATCAGTTATCATAAAATATTGAAATT
*
24476126 TTCGTCAGTAATTATAATTAGTTATCATAAAATATTGAAATT
1 TTCGTCAGTAATTATAATCAGTTATCATAAAATATTGAAATT
24476168 T
1 T
24476169 ATCTTTGTAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.39, C:0.08, G:0.11, T:0.42
Consensus pattern (42 bp):
TTCGTCAGTAATTATAATCAGTTATCATAAAATATTGAAATT
Found at i:24477293 original size:25 final size:23
Alignment explanation
Indices: 24477248--24477293 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
24477238 AAATGACTTT
**
24477248 TGAAAAATAAAAATGAAAATATG
1 TGAAAAATAAAAAACAAAATATG
24477271 TGAAAAATCAAAAAACAATAATA
1 TGAAAAAT-AAAAAACAA-AATA
24477294 AAGTTATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 8 0.42
24 7 0.37
25 4 0.21
ACGTcount: A:0.67, C:0.04, G:0.09, T:0.20
Consensus pattern (23 bp):
TGAAAAATAAAAAACAAAATATG
Found at i:24481394 original size:91 final size:90
Alignment explanation
Indices: 24481286--24481452 Score: 203
Period size: 91 Copynumber: 1.8 Consensus size: 90
24481276 AATATCATAA
* ** * * *
24481286 TAATACAAAACTGATAGTTTAAG-TACCACATTCGATATTTTCAAAGTATAAGTACCACA-TCAA
1 TAATACAAAACTGATAG-TTAAGATACCACAATAAATATTTTCAAAATACAAGTACAACACTCAA
24481349 TCATTTTATAAAAGTACAAGTATTAAG
65 -CATTTTATAAAAGTACAAGTATTAAG
* * * *
24481376 TAATACACAAATTGATAGTTCAGATATCACAATAAATATTTTCAAAATACAAGTACAATACTCAA
1 TAATACA-AAACTGATAGTTAAGATACCACAATAAATATTTTCAAAATACAAGTACAACACTCAA
24481441 CATTTTATAAAA
65 CATTTTATAAAA
24481453 ATCTTTCAAA
Statistics
Matches: 64, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
90 11 0.17
91 49 0.77
92 4 0.06
ACGTcount: A:0.46, C:0.14, G:0.08, T:0.32
Consensus pattern (90 bp):
TAATACAAAACTGATAGTTAAGATACCACAATAAATATTTTCAAAATACAAGTACAACACTCAAC
ATTTTATAAAAGTACAAGTATTAAG
Found at i:24493168 original size:23 final size:20
Alignment explanation
Indices: 24493119--24493168 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
24493109 TTGACATTAG
*
24493119 ACAATTAAATAAATTAATGC
1 ACAAATAAATAAATTAATGC
*
24493139 ACCAATAAATAAATCTAATATGC
1 ACAAATAAATAAAT-T-A-ATGC
24493162 ACAAATA
1 ACAAATA
24493169 CTAAAAAACC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 12 0.50
21 1 0.04
22 1 0.04
23 10 0.42
ACGTcount: A:0.56, C:0.14, G:0.04, T:0.26
Consensus pattern (20 bp):
ACAAATAAATAAATTAATGC
Found at i:24493829 original size:3 final size:3
Alignment explanation
Indices: 24493821--24493850 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
24493811 ATTCGATCTT
24493821 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
24493851 AAAGATTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:24494614 original size:10 final size:10
Alignment explanation
Indices: 24494592--24494625 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
24494582 AATAGACATG
24494592 AAAATAAATA
1 AAAATAAATA
*
24494602 AAAATGAA-A
1 AAAATAAATA
24494611 AAAATAAATA
1 AAAATAAATA
24494621 AAAAT
1 AAAAT
24494626 TATATAAGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
9 8 0.38
10 13 0.62
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (10 bp):
AAAATAAATA
Found at i:24494617 original size:15 final size:16
Alignment explanation
Indices: 24494579--24494618 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
24494569 ATAAAAAAAT
* *
24494579 ATAAATAGACATGAAA
1 ATAAATAAAAATGAAA
24494595 ATAAATAAAAATGAAA
1 ATAAATAAAAATGAAA
24494611 A-AAATAAA
1 ATAAATAAA
24494619 TAAAAATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 7 0.32
16 15 0.68
ACGTcount: A:0.72, C:0.03, G:0.07, T:0.17
Consensus pattern (16 bp):
ATAAATAAAAATGAAA
Found at i:24495595 original size:153 final size:149
Alignment explanation
Indices: 24495220--24495632 Score: 509
Period size: 149 Copynumber: 2.8 Consensus size: 149
24495210 ATCTTATTTC
* * *
24495220 GAAATAGTT--AAAAAAATCAAAAATTTATTTTAAAATTTTAAACTTTCCTTTAAAATGACT-TA
1 GAAATAGTTGAAAAAAAATCAAAACTTTGTTTTAAAATTTTAAACTTTCCTTTAAAATGACTAAA
* * * *
24495282 AAATTTTCTTTTTATTTTTCAAAATCTAAATTTTCTCCTTTAAAAAAAAACACTATTTTTCTTAA
66 AAAATATATTTTTATTTTTCAAAATCTAAATTCTCTCCTTTAAAAAAAAACACTATTTTTCTTAA
* *
24495347 AGATTAAAGCTTTTATTTT
131 AGATTAAAACTTTTACTTT
* *
24495366 GAAGTAGTTGAAAAAAAAATCAAAACTTTGTTTTAAAATTTTAAAATTTCCTTTAAAATGACTAA
1 GAAATAGTTG-AAAAAAAATCAAAACTTTGTTTTAAAATTTTAAACTTTCCTTTAAAATGACTAA
** *
24495431 AAAAA-ATATTTTTATTTTTCAAAATCTAAACTTACTCATTTTTTAAAGAAAGAACACTATTTTT
65 AAAAATATATTTTTATTTTTCAAAATCTAAA-TT-CTC-TCCTTTAAA-AAAAAACACTATTTTT
* *
24495495 CTTACAGATTAAAATTTTTACTTT
126 CTTAAAGATTAAAACTTTTACTTT
*
24495519 GAAATAGTTGAAAAAAAAT-AAAAGCTTTGTTTTAAAATTTTAAACTTTCCTTTAAAATAACTAA
1 GAAATAGTTGAAAAAAAATCAAAA-CTTTGTTTTAAAATTTTAAACTTTCCTTTAAAATGACTAA
* * *
24495583 AAAAATAGATTTTT-TTTCCTT-AAAATCAAAACTT-TCTCTTTTAAAAAAAA
65 AAAAATATATTTTTATTT--TTCAAAATCTAAA-TTCTCTCCTTTAAAAAAAA
24495633 TCAAAACTTT
Statistics
Matches: 232, Mismatches: 23, Indels: 21
0.84 0.08 0.08
Matches are distributed among these distances:
146 8 0.03
149 75 0.32
150 14 0.06
151 8 0.03
152 62 0.27
153 63 0.27
154 2 0.01
ACGTcount: A:0.44, C:0.10, G:0.05, T:0.42
Consensus pattern (149 bp):
GAAATAGTTGAAAAAAAATCAAAACTTTGTTTTAAAATTTTAAACTTTCCTTTAAAATGACTAAA
AAAATATATTTTTATTTTTCAAAATCTAAATTCTCTCCTTTAAAAAAAAACACTATTTTTCTTAA
AGATTAAAACTTTTACTTT
Found at i:24506390 original size:4 final size:4
Alignment explanation
Indices: 24506376--24506433 Score: 55
Period size: 4 Copynumber: 14.5 Consensus size: 4
24506366 GTGCCCCAAT
* * * * *
24506376 TTCA ATCA TTCA TTCA TTCG TTCA TTCA TTCA TCCA TTTA TTAA CTT-A
1 TTCA TTCA TTCA TTCA TTCA TTCA TTCA TTCA TTCA TTCA TTCA -TTCA
24506424 TTCA TTCA TT
1 TTCA TTCA TT
24506434 TGTTTATTTA
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
3 2 0.05
4 40 0.91
5 2 0.05
ACGTcount: A:0.26, C:0.22, G:0.02, T:0.50
Consensus pattern (4 bp):
TTCA
Found at i:24517820 original size:22 final size:22
Alignment explanation
Indices: 24517792--24517837 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
24517782 TTTATCCCAA
24517792 CTTTACTTAAAAAAATACAGAC
1 CTTTACTTAAAAAAATACAGAC
24517814 CTTTACTTAAAAAAATACAGAC
1 CTTTACTTAAAAAAATACAGAC
24517836 CT
1 CT
24517838 AAAAGTAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.48, C:0.20, G:0.04, T:0.28
Consensus pattern (22 bp):
CTTTACTTAAAAAAATACAGAC
Found at i:24520711 original size:469 final size:469
Alignment explanation
Indices: 24519831--24520742 Score: 1393
Period size: 469 Copynumber: 1.9 Consensus size: 469
24519821 CGCCACAATC
* *
24519831 TCAATTCACATATACCCAATAGCTCACAAGAAGGACAAGCTCACGGATCCAGCTCGCTAAAGTTT
1 TCAATTCACATATACCCAATAGCTCACAAGAAGGACAAGCTCACGGAGCCAGCTCGCCAAAGTTT
* * * * *
24519896 CAGTTCGTCTATACCCACGAAGCGTGCAGTCACCCAGACACATGTGTACCACCCCTAATCCGTAT
66 CAATTCGCCTATACCCACGAAGCGCGCAGTCACCCAGACACATGTGTAACACCCCTAATCCATAT
* * *
24519961 CATTCGTCGAAATAGAGTTACGGAGCATTACCGTAAAATCGTAACTTAAAACATTCATTTTCAAA
131 CATTCGTCGAAATAGAGTTACGGAGCATTACCGTAAAAACATAACTTAAAACATTCATTTCCAAA
* * **
24520026 CAGTTCATTAATCATAGTATAATTCATTCATACACATGCATATTGTCCCTTATTCAAGCCCTCGA
196 CAGTTCATTAATCATAGAATAATTCATTCATACACATGCAAATCATCCCTTATTCAAGCCCTCGA
*
24520091 GGCCTTAGAAACACTTTAGAAACGATTCAGGACTAAATCAGGAACATTTGAACCATTGAGAACAA
261 GGCCTTAGAAACACTTTAGAAACGATTCAGGACTAAATCAGGAACATTTGAAACATTGAGAACAA
** * *
24520156 AGTTAGAAAAATTTTCACAGCAGGAGTCACATGACTGTGTGACTCACACGGCCGAGACACATGCC
326 AGTTAGAAAAATTCACACAGCAGGAGTCACACGACTGTGTGACTCACACAGCCGAGACACATGCC
*
24520221 CATGTCTCAAGCCATGTAACATTCGAAATAGGGACACGCAGCCGTGTCCCACCTCGTGTCCCTTC
391 CATGTCTCAAGCCATGTAACATTCGAAATAGGGACACACAGCCGTGTCCCACCTCGTGTCCCTTC
24520286 AACCTGCCATAGTA
456 AACCTGCCATAGTA
* * *
24520300 TCAATTCATATATACCCAATAGCTCGCAAGAAGGACAAGCTCACGGAGCCAGCTCGCCACAGTTT
1 TCAATTCACATATACCCAATAGCTCACAAGAAGGACAAGCTCACGGAGCCAGCTCGCCAAAGTTT
* * *
24520365 TAATTCGCCTATACCCACGAAGCGCGTAGTCACCCAGACACATGTGTAACACCCTTAA-CTCATA
66 CAATTCGCCTATACCCACGAAGCGCGCAGTCACCCAGACACATGTGTAACACCCCTAATC-CATA
* * *
24520429 TCATTTGTC-AGAATAGGGTTACGGAGCATTACCGTAAAAACATAACTTAAAGCATTCATTTCCA
130 TCATTCGTCGA-AATAGAGTTACGGAGCATTACCGTAAAAACATAACTTAAAACATTCATTTCCA
* * *
24520493 AACATTTCATTAATCATGGAATAATTCATTCATACACATGCAAATCATCCCTTATTCGAGCCCTC
194 AACAGTTCATTAATCATAGAATAATTCATTCATACACATGCAAATCATCCCTTATTCAAGCCCTC
*
24520558 GAGGTCTTAGAAACACTTTAGAAACGATTCAGGACTAAATCAGGAACATTTGAAACATTGAGGAA
259 GAGGCCTTAGAAACACTTTAGAAACGATTCAGGACTAAATCAGGAACATTTGAAACATTGA-GAA
* * *
24520623 -AAAGTTAGAAAAATTCACACTA-CAGGGGTCACACGATTGTGTGACTCACACAGCTGAGACACA
323 CAAAGTTAGAAAAATTCACAC-AGCAGGAGTCACACGACTGTGTGACTCACACAGCCGAGACACA
* * *
24520686 TGCCCGTGTCTCAGGCCGA-GTAACATTCGAAATAGGGACACACAGTCGTGTCCCACC
387 TGCCCATGTCTCAAGCC-ATGTAACATTCGAAATAGGGACACACAGCCGTGTCCCACC
24520743 CCATGTCTGT
Statistics
Matches: 399, Mismatches: 39, Indels: 10
0.89 0.09 0.02
Matches are distributed among these distances:
468 2 0.01
469 392 0.98
470 5 0.01
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (469 bp):
TCAATTCACATATACCCAATAGCTCACAAGAAGGACAAGCTCACGGAGCCAGCTCGCCAAAGTTT
CAATTCGCCTATACCCACGAAGCGCGCAGTCACCCAGACACATGTGTAACACCCCTAATCCATAT
CATTCGTCGAAATAGAGTTACGGAGCATTACCGTAAAAACATAACTTAAAACATTCATTTCCAAA
CAGTTCATTAATCATAGAATAATTCATTCATACACATGCAAATCATCCCTTATTCAAGCCCTCGA
GGCCTTAGAAACACTTTAGAAACGATTCAGGACTAAATCAGGAACATTTGAAACATTGAGAACAA
AGTTAGAAAAATTCACACAGCAGGAGTCACACGACTGTGTGACTCACACAGCCGAGACACATGCC
CATGTCTCAAGCCATGTAACATTCGAAATAGGGACACACAGCCGTGTCCCACCTCGTGTCCCTTC
AACCTGCCATAGTA
Found at i:24525214 original size:35 final size:33
Alignment explanation
Indices: 24525175--24525443 Score: 301
Period size: 35 Copynumber: 8.0 Consensus size: 33
24525165 TTGTCTTTTC
* *
24525175 TTGCAGGGAATATTTCCTGTTCACGCATTATTCTG
1 TTGCAGGGAATCTCTCCTGTTCA-GCATTATT-TG
* * *
24525210 TTGCAGGGAATCTTTCCTGTTCA-CATCATTTC
1 TTGCAGGGAATCTCTCCTGTTCAGCATTATTTG
*
24525242 TTGCAGAGAATCTCTCCTGTTCACGCATTATTTTG
1 TTGCAGGGAATCTCTCCTGTTCA-GCATTA-TTTG
*
24525277 TTGCAGGGAATCTCTCCTGTTCACACATTATTTTG
1 TTGCAGGGAATCTCTCCTGTTCA-GCATTA-TTTG
* * *
24525312 TTGCAGGGAATCTTTCCTGTTCA-CATCATTTC
1 TTGCAGGGAATCTCTCCTGTTCAGCATTATTTG
*
24525344 TTGCAGGGAATCTCTCCTGTTCATGGATTATTTTG
1 TTGCAGGGAATCTCTCCTGTTCA-GCATTA-TTTG
* * *
24525379 TTGTAGGGAATCTCTCCTGTTCA-CATCATTTC
1 TTGCAGGGAATCTCTCCTGTTCAGCATTATTTG
*
24525411 TTGCAGGGAATCTCTCCTGTTCATGTATTATTT
1 TTGCAGGGAATCTCTCCTGTTCA-GCATTATTT
24525444 CTTTTTGGAC
Statistics
Matches: 203, Mismatches: 23, Indels: 17
0.84 0.09 0.07
Matches are distributed among these distances:
32 72 0.35
33 13 0.06
34 13 0.06
35 105 0.52
ACGTcount: A:0.19, C:0.22, G:0.18, T:0.41
Consensus pattern (33 bp):
TTGCAGGGAATCTCTCCTGTTCAGCATTATTTG
Found at i:24525355 original size:102 final size:102
Alignment explanation
Indices: 24525170--24525433 Score: 399
Period size: 102 Copynumber: 2.6 Consensus size: 102
24525160 TTCACTTGTC
* * * * *
24525170 TTTTCTTGCAGGGAATATTTCCTGTTCACGCATTATTCTGTTGCAGGGAATCTTTCCTGTTCACA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTATTTTGTTGCAGGGAATCTTTCCTGTTCACA
24525235 TCATTTCTTGCAGAGAATCTCTCCTGTTCACGCATTA
66 TCATTTCTTGCAGAGAATCTCTCCTGTTCACGCATTA
24525272 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTATTTTGTTGCAGGGAATCTTTCCTGTTCACA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTATTTTGTTGCAGGGAATCTTTCCTGTTCACA
* * *
24525337 TCATTTCTTGCAGGGAATCTCTCCTGTTCATGGATTA
66 TCATTTCTTGCAGAGAATCTCTCCTGTTCACGCATTA
* * * *
24525374 TTTTGTTGTAGGGAATCTCTCCTGTT--CACATCA-TTTCTTGCAGGGAATCTCTCCTGTTCA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTATTTTGTTGCAGGGAATCTTTCCTGTTCA
24525434 TGTATTATTT
Statistics
Matches: 150, Mismatches: 12, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
99 25 0.17
100 6 0.04
102 119 0.79
ACGTcount: A:0.19, C:0.23, G:0.18, T:0.41
Consensus pattern (102 bp):
TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTATTTTGTTGCAGGGAATCTTTCCTGTTCACA
TCATTTCTTGCAGAGAATCTCTCCTGTTCACGCATTA
Found at i:24525434 original size:67 final size:67
Alignment explanation
Indices: 24525170--24525443 Score: 320
Period size: 67 Copynumber: 4.0 Consensus size: 67
24525160 TTCACTTGTC
* * * * * *
24525170 TTTTCTTGCAGGGAATATTTCCTGTTCACGCATTATTCTGTTGCAGGGAATCTTTCCTGTTCA--
1 TTTTGTTGCAGGGAATCTCTCCTGTTCA--CATCATT-TCTTGCAGGGAATCTCTCCTGTTCATG
*
24525233 CATCA
63 CATTA
* * * * **
24525238 -TTTCTTGCAGAGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCA--CATCA-TTTCTTGCAGGGAATCTCTCCTGTTCATG
24525302 CATTA
63 CATTA
* *
24525307 TTTTGTTGCAGGGAATCTTTCCTGTTCACATCATTTCTTGCAGGGAATCTCTCCTGTTCATGGAT
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACATCATTTCTTGCAGGGAATCTCTCCTGTTCATGCAT
24525372 TA
66 TA
* *
24525374 TTTTGTTGTAGGGAATCTCTCCTGTTCACATCATTTCTTGCAGGGAATCTCTCCTGTTCATGTAT
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACATCATTTCTTGCAGGGAATCTCTCCTGTTCATGCAT
24525439 TA
66 TA
24525441 TTT
1 TTT
24525444 CTTTTTGGAC
Statistics
Matches: 186, Mismatches: 16, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
67 152 0.82
68 6 0.03
69 4 0.02
70 24 0.13
ACGTcount: A:0.19, C:0.22, G:0.18, T:0.42
Consensus pattern (67 bp):
TTTTGTTGCAGGGAATCTCTCCTGTTCACATCATTTCTTGCAGGGAATCTCTCCTGTTCATGCAT
TA
Found at i:24527899 original size:137 final size:137
Alignment explanation
Indices: 24527652--24527925 Score: 336
Period size: 137 Copynumber: 2.0 Consensus size: 137
24527642 ATGTCATTAG
* * * * *
24527652 GGTTACCATGTTTCAGGTGCTAGTCCTGAATGTCCTACTAGTGGCTGAGTTCCAGCATGTGTTGC
1 GGTTACCATGGTTCAGGTGCTAGTCCTGAATGTCCTACCAATGGCTGAGGTCCAACATGTGTTGC
* * * * * * *
24527717 GGATACTTGATAGCTTGTGTGAGCAACACCGTGTAGCTACGTTTTGACCGACAAGTTGTGTGAGA
66 GGATACTTGACAGCTTGTGTGAGCAACACCATGTAGCTACATTTTGACCAAAAACTTGGGTGAGA
24527782 AGACCCA
131 AGACCCA
* * * *
24527789 GGTTACTATGGTTCAGGTGCTGGTCTTGAATGTCTTACCAATGGCTGAGGTCCAACAT-TAGTTG
1 GGTTACCATGGTTCAGGTGCTAGTCCTGAATGTCCTACCAATGGCTGAGGTCCAACATGT-GTTG
* **
24527853 -TGATACTTGACAGCTTGTGTGAGCAACATTATGTAGCTTACATTTTGACCAAAAACTTGGGTGA
65 CGGATACTTGACAGCTTGTGTGAGCAACACCATGTAGC-TACATTTTGACCAAAAACTTGGGTGA
*
24527917 GCAGACCCA
129 GAAGACCCA
24527926 TTTTACATCT
Statistics
Matches: 115, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
136 33 0.29
137 82 0.71
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (137 bp):
GGTTACCATGGTTCAGGTGCTAGTCCTGAATGTCCTACCAATGGCTGAGGTCCAACATGTGTTGC
GGATACTTGACAGCTTGTGTGAGCAACACCATGTAGCTACATTTTGACCAAAAACTTGGGTGAGA
AGACCCA
Found at i:24543491 original size:24 final size:20
Alignment explanation
Indices: 24543442--24543493 Score: 52
Period size: 24 Copynumber: 2.5 Consensus size: 20
24543432 TTAATGTTTA
24543442 AATATTT-TATTATTTTAAT
1 AATATTTATATTATTTTAAT
*
24543461 AAGATTTAATATTATATTTAATCT
1 AATATTT-ATATTAT-TTTAA--T
24543485 AATATTTAT
1 AATATTTAT
24543494 CTTGATAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
19 6 0.23
21 6 0.23
22 5 0.19
23 2 0.08
24 7 0.27
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (20 bp):
AATATTTATATTATTTTAAT
Found at i:24545027 original size:212 final size:212
Alignment explanation
Indices: 24544660--24545076 Score: 708
Period size: 212 Copynumber: 2.0 Consensus size: 212
24544650 GTTTCTTTAT
* ** *
24544660 TTCTTTCAGTTATACTGTGTCTTTGATGTGTTTATTTTCAAGTATGGACTAGCTCTCTAAATACC
1 TTCTTTCAGTTATACTGTGTCTTGGATGTGTTTATTTTCAAGTATAAACTAGCTCCCTAAATACC
*
24544725 TAGGGAGATGAACTCTATGATGGATTCAGTTGTTTAATTTTTATTTACGCAATAAATACTTAATT
66 TAGGGAGATGAACTCTATGATGGATTCAGTCGTTTAATTTTTATTTACGCAATAAATACTTAATT
* *
24544790 TCGTATTCTAAATTATGTGTGCTTAATTCTTGGTTTGATATTTTTAGATTATTGATCCATGTTTG
131 TCGTATTCTAAATTATGTGTGCTTAATTCTTGGTTTCATATTTTTAGATTACTGATCCATGTTTG
24544855 ATGTGCTTAATTCTTGA
196 ATGTGCTTAATTCTTGA
* *
24544872 TTCTTTCAGTTATACTGTGTCTTGGATGTGTTTATTTTTAAGTATAAACTAGTTCCCTAAATACC
1 TTCTTTCAGTTATACTGTGTCTTGGATGTGTTTATTTTCAAGTATAAACTAGCTCCCTAAATACC
24544937 TAGGGAGATGAACTCTATGATGGATTCAGTCGTTTAATTTTTATTTACGCAATAAATACTTAATT
66 TAGGGAGATGAACTCTATGATGGATTCAGTCGTTTAATTTTTATTTACGCAATAAATACTTAATT
* * * *
24545002 TCTTATTCTCAATTATGTGTGCTTAATTCTTGGTTTCATTTTTTTAGATTACTGATCTATGTTTG
131 TCGTATTCTAAATTATGTGTGCTTAATTCTTGGTTTCATATTTTTAGATTACTGATCCATGTTTG
*
24545067 ATGTGTTTAA
196 ATGTGCTTAA
24545077 ATCAGTGGTT
Statistics
Matches: 191, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
212 191 1.00
ACGTcount: A:0.25, C:0.12, G:0.16, T:0.47
Consensus pattern (212 bp):
TTCTTTCAGTTATACTGTGTCTTGGATGTGTTTATTTTCAAGTATAAACTAGCTCCCTAAATACC
TAGGGAGATGAACTCTATGATGGATTCAGTCGTTTAATTTTTATTTACGCAATAAATACTTAATT
TCGTATTCTAAATTATGTGTGCTTAATTCTTGGTTTCATATTTTTAGATTACTGATCCATGTTTG
ATGTGCTTAATTCTTGA
Found at i:24545825 original size:19 final size:20
Alignment explanation
Indices: 24545801--24545850 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
24545791 CATTGAATTA
24545801 ATAAAATTA-TATTTAGAT-T
1 ATAAAATTATTATTTA-ATAT
24545820 ATAAAAATATATTATTTAATAT
1 AT-AAAAT-TATTATTTAATAT
24545842 ATAAAATTA
1 ATAAAATTA
24545851 CATGCAATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
19 2 0.07
20 7 0.26
21 9 0.33
22 9 0.33
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (20 bp):
ATAAAATTATTATTTAATAT
Found at i:24545844 original size:22 final size:20
Alignment explanation
Indices: 24545803--24545847 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 20
24545793 TTGAATTAAT
24545803 AAAATTATATTTAGATTATA
1 AAAATTATATTTAGATTATA
24545823 AAAATATATTATTTA-ATATATA
1 AAAAT-TA-TATTTAGAT-TATA
24545845 AAA
1 AAA
24545848 TTACATGCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 5 0.23
21 4 0.18
22 13 0.59
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (20 bp):
AAAATTATATTTAGATTATA
Found at i:24546349 original size:29 final size:31
Alignment explanation
Indices: 24546308--24546387 Score: 85
Period size: 29 Copynumber: 2.6 Consensus size: 31
24546298 GAATTAGATC
*
24546308 AATCAGAATTTCATATATAA-AATTACACA-A
1 AATCA-AAATTCATATATAACAATTACACATA
* *
24546338 AATCAAAATTCATGTA-AACAATTACTCATTA
1 AATCAAAATTCATATATAACAATTACACA-TA
*
24546369 AACCAAAATTCATATATAA
1 AATCAAAATTCATATATAA
24546388 TTTTAAGATT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
28 2 0.05
29 17 0.41
30 5 0.12
31 15 0.37
32 2 0.05
ACGTcount: A:0.53, C:0.15, G:0.03, T:0.30
Consensus pattern (31 bp):
AATCAAAATTCATATATAACAATTACACATA
Found at i:24548909 original size:18 final size:19
Alignment explanation
Indices: 24548881--24548920 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
24548871 CCTCTTCTCC
24548881 CTTCTTTCATCATCATCTT
1 CTTCTTTCATCATCATCTT
*
24548900 CTTC-TTCATCATCCTCTT
1 CTTCTTTCATCATCATCTT
24548918 CTT
1 CTT
24548921 TGTATCAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.12, C:0.35, G:0.00, T:0.53
Consensus pattern (19 bp):
CTTCTTTCATCATCATCTT
Found at i:24548910 original size:15 final size:15
Alignment explanation
Indices: 24548890--24548920 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
24548880 CCTTCTTTCA
*
24548890 TCATCATCTTCTTCT
1 TCATCATCCTCTTCT
24548905 TCATCATCCTCTTCT
1 TCATCATCCTCTTCT
24548920 T
1 T
24548921 TGTATCAGTT
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:0.13, C:0.35, G:0.00, T:0.52
Consensus pattern (15 bp):
TCATCATCCTCTTCT
Found at i:24549465 original size:2 final size:2
Alignment explanation
Indices: 24549460--24549503 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
24549450 AAACCGAAGA
*
24549460 AG AG AG AG AG AG AC AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
24549502 AG
1 AG
24549504 TAACTTTTGA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.02, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:24551751 original size:27 final size:27
Alignment explanation
Indices: 24551720--24551776 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
24551710 TCTTTTACTT
*
24551720 AAAAGAGACGGAACTATACGCAAACTA
1 AAAAGAGACCGAACTATACGCAAACTA
24551747 AAAAGAGACCGAACTATACGCAAACTA
1 AAAAGAGACCGAACTATACGCAAACTA
24551774 AAA
1 AAA
24551777 CGTTTGCTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.54, C:0.19, G:0.16, T:0.11
Consensus pattern (27 bp):
AAAAGAGACCGAACTATACGCAAACTA
Found at i:24551853 original size:15 final size:15
Alignment explanation
Indices: 24551833--24551865 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
24551823 ATTTTGTCTC
24551833 TTAACTCTACTAAAA
1 TTAACTCTACTAAAA
24551848 TTAACTCTACTAAAA
1 TTAACTCTACTAAAA
24551863 TTA
1 TTA
24551866 TGGTGGGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.45, C:0.18, G:0.00, T:0.36
Consensus pattern (15 bp):
TTAACTCTACTAAAA
Found at i:24552080 original size:15 final size:16
Alignment explanation
Indices: 24552060--24552095 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
24552050 AATCATTTAA
*
24552060 AAAATATTAAGA-TAT
1 AAAATATTAAAATTAT
24552075 AAAATATTAAAATTAT
1 AAAATATTAAAATTAT
24552091 AAAAT
1 AAAAT
24552096 TATATTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.58
16 8 0.42
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (16 bp):
AAAATATTAAAATTAT
Found at i:24555165 original size:12 final size:12
Alignment explanation
Indices: 24555148--24555176 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
24555138 TCATTGATAT
24555148 GAATGGATCATG
1 GAATGGATCATG
24555160 GAATGGATCATG
1 GAATGGATCATG
24555172 GAATG
1 GAATG
24555177 TATACTAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.34, C:0.07, G:0.34, T:0.24
Consensus pattern (12 bp):
GAATGGATCATG
Found at i:24556146 original size:43 final size:43
Alignment explanation
Indices: 24556008--24556147 Score: 158
Period size: 43 Copynumber: 3.3 Consensus size: 43
24555998 AATTATGTGG
**
24556008 AAAAACGTTGCTATAGAACATGACCTTTAGCGGCG--TTTCCC
1 AAAAACGCCGCTATAGAACATGACCTTTAGCGGCGCTTTTCCC
* * *
24556049 AAAAAGGCCGCTATAGAACATAACTTTTAGCGGCGCTTTTCCC
1 AAAAACGCCGCTATAGAACATGACCTTTAGCGGCGCTTTTCCC
* * * * * *
24556092 ACAAACACCGCTATAGGACTTGACCATTAGCGGCGCTTTTCCT
1 AAAAACGCCGCTATAGAACATGACCTTTAGCGGCGCTTTTCCC
*
24556135 AAAAATGCCGCTA
1 AAAAACGCCGCTA
24556148 AAGGTCTTGT
Statistics
Matches: 80, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
41 30 0.38
43 50 0.62
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (43 bp):
AAAAACGCCGCTATAGAACATGACCTTTAGCGGCGCTTTTCCC
Found at i:24556165 original size:43 final size:43
Alignment explanation
Indices: 24556074--24556205 Score: 113
Period size: 43 Copynumber: 3.1 Consensus size: 43
24556064 GAACATAACT
* * ** * * **
24556074 TTTAGCGGCGCTTTTCCCACAAACACCGCTATAGGACTTGACC
1 TTTAGCGGCGCTTTTCCTAAAAATGCCGCTAAAGGTCTTGTTC
*
24556117 ATTAGCGGCGCTTTTCCTAAAAATGCCGCTAAAGGTCTTGTTC
1 TTTAGCGGCGCTTTTCCTAAAAATGCCGCTAAAGGTCTTGTTC
* ** * * *
24556160 TTTAGCGGCGTTTTTAATAAAAGTGCCACTACAA-GTCATGTTC
1 TTTAGCGGCGCTTTTCCTAAAAATGCCGCTA-AAGGTCTTGTTC
24556203 TTT
1 TTT
24556206 GTCGGTGTTT
Statistics
Matches: 72, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
43 70 0.97
44 2 0.03
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.33
Consensus pattern (43 bp):
TTTAGCGGCGCTTTTCCTAAAAATGCCGCTAAAGGTCTTGTTC
Found at i:24556588 original size:66 final size:65
Alignment explanation
Indices: 24556505--24556642 Score: 179
Period size: 66 Copynumber: 2.1 Consensus size: 65
24556495 TCATATTCTG
* *
24556505 AAGTTGTAGCTAGAGTTCGTCATATTTTCTACTT-GCCTTTGCTTCCCTCGCTACCGCCTCCGCT
1 AAGTTGTAGCTAGAGTTCGTCATATTTTCT--TTAGCCTCTGCTTCCCTCGATACCGCCTCCGCT
24556569 TT
64 TT
* * * * *
24556571 AAGTTGTAGCTGGAGTTCTTCATATTTTCTTTGAGCCTCTGCTTCTCTCGATGCTGCCTCCGCTT
1 AAGTTGTAGCTAGAGTTCGTCATATTTTCTTT-AGCCTCTGCTTCCCTCGATACCGCCTCCGCTT
24556636 T
65 T
24556637 AAGTTG
1 AAGTTG
24556643 AGTAATTTGC
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
64 2 0.03
66 61 0.97
ACGTcount: A:0.14, C:0.27, G:0.19, T:0.41
Consensus pattern (65 bp):
AAGTTGTAGCTAGAGTTCGTCATATTTTCTTTAGCCTCTGCTTCCCTCGATACCGCCTCCGCTTT
Found at i:24562207 original size:9 final size:9
Alignment explanation
Indices: 24562193--24562386 Score: 125
Period size: 9 Copynumber: 22.0 Consensus size: 9
24562183 TAAGTAGAAT
*
24562193 TAAGTTATA
1 TAAGTTATG
24562202 TAAGTTATG
1 TAAGTTATG
* * *
24562211 ATATGATATA
1 -TAAGTTATG
*
24562221 T-ATTTATG
1 TAAGTTATG
24562229 TAAGTTATG
1 TAAGTTATG
24562238 TAAGTTATG
1 TAAGTTATG
24562247 TAAGTTATG
1 TAAGTTATG
* * *
24562256 ATATGATATA
1 -TAAGTTATG
*
24562266 T-ATTTATG
1 TAAGTTATG
24562274 T-A-TTATG
1 TAAGTTATG
24562281 TAAGTTATG
1 TAAGTTATG
*
24562290 TAAGTTATAA
1 TAAGTTAT-G
* * *
24562300 TATGATATA
1 TAAGTTATG
*
24562309 T-ATTTATG
1 TAAGTTATG
*
24562317 TAGGTTATG
1 TAAGTTATG
24562326 TAAGTTATG
1 TAAGTTATG
* * *
24562335 ATATGATATA
1 -TAAGTTATG
*
24562345 T-ATTTATG
1 TAAGTTATG
24562353 T-A-TTATG
1 TAAGTTATG
24562360 TAAGTTATG
1 TAAGTTATG
24562369 TAAGTTATG
1 TAAGTTATG
24562378 TAAGTTATG
1 TAAGTTATG
24562387 ATCCAAAGTC
Statistics
Matches: 142, Mismatches: 33, Indels: 20
0.73 0.17 0.10
Matches are distributed among these distances:
7 12 0.08
8 20 0.14
9 86 0.61
10 24 0.17
ACGTcount: A:0.36, C:0.00, G:0.17, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Found at i:24562234 original size:36 final size:36
Alignment explanation
Indices: 24562233--24562368 Score: 177
Period size: 36 Copynumber: 3.6 Consensus size: 36
24562223 TTTATGTAAG
24562233 TTATGTAAGTTATGTAAGTTATGATATGATATATATTTATGT
1 TTATGTAAGTTATGTAAGTTATGATATG--ATATA--TA--T
*
24562275 ATTATGTAAGTTATGTAAGTTATAATATGATATATAT
1 -TTATGTAAGTTATGTAAGTTATGATATGATATATAT
*
24562312 TTATGTAGGTTATGTAAGTTATGATATGATATATAT
1 TTATGTAAGTTATGTAAGTTATGATATGATATATAT
24562348 TTATGT-A-TTATGTAAGTTATG
1 TTATGTAAGTTATGTAAGTTATG
24562369 TAAGTTATGT
Statistics
Matches: 89, Mismatches: 4, Indels: 9
0.87 0.04 0.09
Matches are distributed among these distances:
34 14 0.16
36 40 0.45
37 1 0.01
39 2 0.02
41 5 0.06
43 27 0.30
ACGTcount: A:0.35, C:0.00, G:0.17, T:0.49
Consensus pattern (36 bp):
TTATGTAAGTTATGTAAGTTATGATATGATATATAT
Found at i:24562280 original size:43 final size:43
Alignment explanation
Indices: 24562193--24562377 Score: 285
Period size: 43 Copynumber: 4.4 Consensus size: 43
24562183 TAAGTAGAAT
*
24562193 TAAGTTATATAAGTTATGATATGATATATATTTATGTAAGTTATG
1 TAAGTTATGTAAGTTATGATATGATATATATTTATGT-A-TTATG
24562238 TAAGTTATGTAAGTTATGATATGATATATATTTATGTATTATG
1 TAAGTTATGTAAGTTATGATATGATATATATTTATGTATTATG
*
24562281 TAAGTTATGTAAGTTATAATATGATATATATTTATG---TA-G
1 TAAGTTATGTAAGTTATGATATGATATATATTTATGTATTATG
24562320 ---GTTATGTAAGTTATGATATGATATATATTTATGTATTATG
1 TAAGTTATGTAAGTTATGATATGATATATATTTATGTATTATG
24562360 TAAGTTATGTAAGTTATG
1 TAAGTTATGTAAGTTATG
24562378 TAAGTTATGA
Statistics
Matches: 130, Mismatches: 3, Indels: 16
0.87 0.02 0.11
Matches are distributed among these distances:
36 32 0.25
39 3 0.02
40 3 0.02
43 55 0.42
44 1 0.01
45 36 0.28
ACGTcount: A:0.36, C:0.00, G:0.17, T:0.48
Consensus pattern (43 bp):
TAAGTTATGTAAGTTATGATATGATATATATTTATGTATTATG
Done.