Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr4
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: 30015117
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1306243 characters in sequence are not A, C, G, or T
File 24 of 85
Found at i:7914458 original size:31 final size:31
Alignment explanation
Indices: 7914420--7914479 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
7914410 CATATATATA
7914420 ACAAATATATAACAAAAAAGAAAAAAAAACT
1 ACAAATATATAACAAAAAAGAAAAAAAAACT
7914451 ACAAATATATAACAAAAAAGAAAAAAAAA
1 ACAAATATATAACAAAAAAGAAAAAAAAA
7914480 ACTTACCCCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.77, C:0.08, G:0.03, T:0.12
Consensus pattern (31 bp):
ACAAATATATAACAAAAAAGAAAAAAAAACT
Found at i:7916931 original size:3 final size:3
Alignment explanation
Indices: 7916923--7916962 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
7916913 TAGTTAGAAG
7916923 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
7916963 GTGACAAATC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:7922087 original size:33 final size:33
Alignment explanation
Indices: 7922050--7922136 Score: 122
Period size: 33 Copynumber: 2.6 Consensus size: 33
7922040 GAGCCTGTAG
*
7922050 CTTCACCTTCTATACCTGTTACCTCTATATCTC
1 CTTCACCTTCTATACCTGTTACCTCTATATCAC
* *
7922083 CTTCACCCTT-TATACCGGTTACCTCTATTTCAC
1 CTTCA-CCTTCTATACCTGTTACCTCTATATCAC
*
7922116 CTTCATCTTCTATACCTGTTA
1 CTTCACCTTCTATACCTGTTA
7922137 ATCCCTCTTC
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
32 3 0.06
33 40 0.85
34 4 0.09
ACGTcount: A:0.18, C:0.34, G:0.05, T:0.43
Consensus pattern (33 bp):
CTTCACCTTCTATACCTGTTACCTCTATATCAC
Found at i:7927004 original size:15 final size:15
Alignment explanation
Indices: 7926984--7927018 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
7926974 TCAAAAGAGG
7926984 AAATAAATCTTGAGA
1 AAATAAATCTTGAGA
7926999 AAATAAATCTTGAGA
1 AAATAAATCTTGAGA
7927014 AAATA
1 AAATA
7927019 TTATACAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.57, C:0.06, G:0.11, T:0.26
Consensus pattern (15 bp):
AAATAAATCTTGAGA
Found at i:7929409 original size:51 final size:50
Alignment explanation
Indices: 7929343--7929529 Score: 182
Period size: 51 Copynumber: 3.7 Consensus size: 50
7929333 TGAACAAGTG
* *
7929343 TGTAGTACTATGTGAAGGCTCCTACGTGTATCGATAAA-TAATGGTCACATA
1 TGTAGTACTATGTGAAGGCTACTACGTGTACCGA-AAACT-ATGGTCACATA
* * * * *
7929394 TGTAGTAGTAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGTCACATG
1 TGTAGTACTATGTGAAGGCTACTACGTGTACCGAAAA-CTATGGTCACATA
* * * * * *
7929445 TGTAGTACTATGTGAAGGCTACTACCTGAACCATAAAACT-TGATCACGTGC
1 TGTAGTACTATGTGAAGGCTACTACGTGTACC-GAAAACTATGGTCACAT-A
*
7929496 T-TAGTACTATGTGAAGGCTACTACGTGTATCGAA
1 TGTAGTACTATGTGAAGGCTACTACGTGTACCGAA
7929530 TGATAATAGT
Statistics
Matches: 112, Mismatches: 20, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
49 2 0.02
50 37 0.33
51 68 0.61
52 5 0.04
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (50 bp):
TGTAGTACTATGTGAAGGCTACTACGTGTACCGAAAACTATGGTCACATA
Found at i:7933543 original size:21 final size:21
Alignment explanation
Indices: 7933505--7933544 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
7933495 ATTTTAAAAT
**
7933505 ATTTTTAAAATACTTTTTTTA
1 ATTTTTAAAATAAATTTTTTA
7933526 ATTTTTAAAATAAATTTTT
1 ATTTTTAAAATAAATTTTT
7933545 GGTATTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTTTAAAATAAATTTTTTA
Found at i:7933551 original size:22 final size:21
Alignment explanation
Indices: 7933504--7933562 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 21
7933494 AATTTTAAAA
* *
7933504 TATTTTTAAAAT-ACTTTTTT
1 TATTTTTAAAATAAATTTTTG
7933524 TAATTTTTAAAATAAATTTTTGG
1 T-ATTTTTAAAATAAATTTTT-G
7933547 TATTTATTAAAA-AAAT
1 TATTT-TTAAAATAAAT
7933563 GGGCTGGACT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 1 0.03
21 11 0.33
22 14 0.42
23 7 0.21
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (21 bp):
TATTTTTAAAATAAATTTTTG
Found at i:7937158 original size:50 final size:51
Alignment explanation
Indices: 7937029--7937159 Score: 176
Period size: 50 Copynumber: 2.6 Consensus size: 51
7937019 TATCGATGAA
** * *
7937029 CACGTGTGTAGTACTATGTGAAGGCTACTATGTGTACCAAAAAGCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACCTGAACCAAAAAGCTTTGAT
* **
7937080 CATGTGTGTAGTACTATGTGAAGGCTACTACCTGAATCGTAAAA-C-TTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACCTGAA-CCAAAAAGCTTTGAT
7937130 CACGTGTGTAGTACTATGTGAAGGCTACTA
1 CACGTGTGTAGTACTATGTGAAGGCTACTA
7937160 TGTGTATCGA
Statistics
Matches: 71, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
50 33 0.46
51 33 0.46
52 5 0.07
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.31
Consensus pattern (51 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACCTGAACCAAAAAGCTTTGAT
Found at i:7938086 original size:345 final size:345
Alignment explanation
Indices: 7937455--7938144 Score: 1380
Period size: 345 Copynumber: 2.0 Consensus size: 345
7937445 GGAATTAACG
7937455 CTTAATGAGTCTACTTTCACATAAAAGAGAAATAATGGCCAATGGAATTATATATTCTGAGATAT
1 CTTAATGAGTCTACTTTCACATAAAAGAGAAATAATGGCCAATGGAATTATATATTCTGAGATAT
7937520 TGAAATTTTAGTGAGACAAGGTCTGAATGATTTCAAAATCCTCTGTTCTGAGTTTGGAGAATCAC
66 TGAAATTTTAGTGAGACAAGGTCTGAATGATTTCAAAATCCTCTGTTCTGAGTTTGGAGAATCAC
7937585 TAAAAATTGTAAAAAAATAATTATGTTTTTTAATTTAGATTCTTAAATTTATTATTGAGTCTATT
131 TAAAAATTGTAAAAAAATAATTATGTTTTTTAATTTAGATTCTTAAATTTATTATTGAGTCTATT
7937650 TTCAAAATAAATAAGTGGGAACATCATTTGAATTCTGTGCTAAGAGATAACTGACTTTTAGTGAA
196 TTCAAAATAAATAAGTGGGAACATCATTTGAATTCTGTGCTAAGAGATAACTGACTTTTAGTGAA
7937715 GAGATGTCAGAAATGCCAAATAGTGAAACAGGGGAACATTTATAGAATAAACTGTACTAATTGGA
261 GAGATGTCAGAAATGCCAAATAGTGAAACAGGGGAACATTTATAGAATAAACTGTACTAATTGGA
7937780 TGAACAAAAAATTCTGAAAC
326 TGAACAAAAAATTCTGAAAC
7937800 CTTAATGAGTCTACTTTCACATAAAAGAGAAATAATGGCCAATGGAATTATATATTCTGAGATAT
1 CTTAATGAGTCTACTTTCACATAAAAGAGAAATAATGGCCAATGGAATTATATATTCTGAGATAT
7937865 TGAAATTTTAGTGAGACAAGGTCTGAATGATTTCAAAATCCTCTGTTCTGAGTTTGGAGAATCAC
66 TGAAATTTTAGTGAGACAAGGTCTGAATGATTTCAAAATCCTCTGTTCTGAGTTTGGAGAATCAC
7937930 TAAAAATTGTAAAAAAATAATTATGTTTTTTAATTTAGATTCTTAAATTTATTATTGAGTCTATT
131 TAAAAATTGTAAAAAAATAATTATGTTTTTTAATTTAGATTCTTAAATTTATTATTGAGTCTATT
7937995 TTCAAAATAAATAAGTGGGAACATCATTTGAATTCTGTGCTAAGAGATAACTGACTTTTAGTGAA
196 TTCAAAATAAATAAGTGGGAACATCATTTGAATTCTGTGCTAAGAGATAACTGACTTTTAGTGAA
7938060 GAGATGTCAGAAATGCCAAATAGTGAAACAGGGGAACATTTATAGAATAAACTGTACTAATTGGA
261 GAGATGTCAGAAATGCCAAATAGTGAAACAGGGGAACATTTATAGAATAAACTGTACTAATTGGA
7938125 TGAACAAAAAATTCTGAAAC
326 TGAACAAAAAATTCTGAAAC
7938145 TTTTATGGTA
Statistics
Matches: 345, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
345 345 1.00
ACGTcount: A:0.39, C:0.10, G:0.17, T:0.33
Consensus pattern (345 bp):
CTTAATGAGTCTACTTTCACATAAAAGAGAAATAATGGCCAATGGAATTATATATTCTGAGATAT
TGAAATTTTAGTGAGACAAGGTCTGAATGATTTCAAAATCCTCTGTTCTGAGTTTGGAGAATCAC
TAAAAATTGTAAAAAAATAATTATGTTTTTTAATTTAGATTCTTAAATTTATTATTGAGTCTATT
TTCAAAATAAATAAGTGGGAACATCATTTGAATTCTGTGCTAAGAGATAACTGACTTTTAGTGAA
GAGATGTCAGAAATGCCAAATAGTGAAACAGGGGAACATTTATAGAATAAACTGTACTAATTGGA
TGAACAAAAAATTCTGAAAC
Found at i:7947014 original size:15 final size:15
Alignment explanation
Indices: 7946996--7947026 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
7946986 CCATGTTTGG
7946996 TCAATCCTAAAATGA
1 TCAATCCTAAAATGA
*
7947011 TCAATCCTGAAATGA
1 TCAATCCTAAAATGA
7947026 T
1 T
7947027 TCCACCAGAA
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:0.42, C:0.19, G:0.10, T:0.29
Consensus pattern (15 bp):
TCAATCCTAAAATGA
Found at i:7958750 original size:57 final size:57
Alignment explanation
Indices: 7958656--7958964 Score: 317
Period size: 57 Copynumber: 5.5 Consensus size: 57
7958646 TCAATTTCTG
* * * *
7958656 TAAAAGTG-AGCCATTT-TGGCTATCTCTATTAAAGGAAGCCTTTGTGGCGATCTGTGT
1 TAAAAG-GAAGCC-TTTGTGGCTATCTCTGTTAAAGGAAGCCTTTGTGGCTATCTCTAT
* * * * * *
7958713 T-AAAGGAAGCCTTTGTGGTTAACTCTGTTAAAAGGAAGTCTTTGTGGCAATCTGTGT
1 TAAAAGGAAGCCTTTGTGGCTATCTCTGTT-AAAGGAAGCCTTTGTGGCTATCTCTAT
* * *
7958770 T-AAAGGAAACCTTTGTGGCTACCTCTGTT-AAGGAAGCCTTTATGGCTATCTCTAT
1 TAAAAGGAAGCCTTTGTGGCTATCTCTGTTAAAGGAAGCCTTTGTGGCTATCTCTAT
** *
7958825 TAAAAGGAAGAATTTGTGG-TGATCTCTGTTAAAGGAAGCCTTCGTGGCTATCTCTAT
1 TAAAAGGAAGCCTTTGTGGCT-ATCTCTGTTAAAGGAAGCCTTTGTGGCTATCTCTAT
* * * * * *
7958882 TAAAAGGAAGCCTTCGTGGCTATCTCTATTAAAGGAAGTCTTTATGG-TCATCTTTTT
1 TAAAAGGAAGCCTTTGTGGCTATCTCTGTTAAAGGAAGCCTTTGTGGCT-ATCTCTAT
*
7958939 TAAAAGGAAGCCTTTTTGGCTATCTC
1 TAAAAGGAAGCCTTTGTGGCTATCTC
7958965 AATTAAATGA
Statistics
Matches: 214, Mismatches: 30, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
55 27 0.13
56 42 0.20
57 144 0.67
58 1 0.00
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (57 bp):
TAAAAGGAAGCCTTTGTGGCTATCTCTGTTAAAGGAAGCCTTTGTGGCTATCTCTAT
Found at i:7958756 original size:29 final size:28
Alignment explanation
Indices: 7958664--7958964 Score: 304
Period size: 28 Copynumber: 10.6 Consensus size: 28
7958654 TGTAAAAGTG
*
7958664 AGCCATTT-TGGCTATCTCTATTAAAGGA
1 AGCC-TTTGTGGCTATCTCTGTTAAAGGA
* *
7958692 AGCCTTTGTGGCGATCTGTGTTAAAGGA
1 AGCCTTTGTGGCTATCTCTGTTAAAGGA
* *
7958720 AGCCTTTGTGGTTAACTCTGTTAAAAGGA
1 AGCCTTTGTGGCTATCTCTGTT-AAAGGA
* * *
7958749 AGTCTTTGTGGCAATCTGTGTTAAAGGA
1 AGCCTTTGTGGCTATCTCTGTTAAAGGA
* *
7958777 AACCTTTGTGGCTACCTCTGTT-AAGGA
1 AGCCTTTGTGGCTATCTCTGTTAAAGGA
* *
7958804 AGCCTTTATGGCTATCTCTATTAAAAGGA
1 AGCCTTTGTGGCTATCTCTGTT-AAAGGA
**
7958833 AGAATTTGTGG-TGATCTCTGTTAAAGGA
1 AGCCTTTGTGGCT-ATCTCTGTTAAAGGA
* *
7958861 AGCCTTCGTGGCTATCTCTATTAAAAGGA
1 AGCCTTTGTGGCTATCTCTGTT-AAAGGA
* *
7958890 AGCCTTCGTGGCTATCTCTATTAAAGGA
1 AGCCTTTGTGGCTATCTCTGTTAAAGGA
* * * *
7958918 AGTCTTTATGG-TCATCTTTTTTAAAAGGA
1 AGCCTTTGTGGCT-ATCTCTGTT-AAAGGA
*
7958947 AGCCTTTTTGGCTATCTC
1 AGCCTTTGTGGCTATCTC
7958965 AATTAAATGA
Statistics
Matches: 226, Mismatches: 37, Indels: 19
0.80 0.13 0.07
Matches are distributed among these distances:
27 27 0.12
28 106 0.47
29 92 0.41
30 1 0.00
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.36
Consensus pattern (28 bp):
AGCCTTTGTGGCTATCTCTGTTAAAGGA
Found at i:7958994 original size:57 final size:57
Alignment explanation
Indices: 7958881--7959000 Score: 152
Period size: 57 Copynumber: 2.1 Consensus size: 57
7958871 GCTATCTCTA
* * * *
7958881 TTAAAAGGAAGCCTTCGTGGCTATCTCTATTAAAGGAAGTCTTTATGGTCATCTTTT
1 TTAAAAGGAAGCCTTCGTGGCTATCTCAATTAAAGGAAGTCCTTATGGTAAACTTTT
** * *
7958938 TTAAAAGGAAGCCTTTTTGGCTATCTCAATTAAATGAA-TACCTTGTGGTAAACTTTT
1 TTAAAAGGAAGCCTTCGTGGCTATCTCAATTAAAGGAAGT-CCTTATGGTAAACTTTT
7958995 TTAAAA
1 TTAAAA
7959001 TGACACCTTC
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
56 1 0.02
57 53 0.98
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.38
Consensus pattern (57 bp):
TTAAAAGGAAGCCTTCGTGGCTATCTCAATTAAAGGAAGTCCTTATGGTAAACTTTT
Found at i:7960388 original size:50 final size:50
Alignment explanation
Indices: 7960292--7960415 Score: 140
Period size: 50 Copynumber: 2.5 Consensus size: 50
7960282 TTATGAGGGA
* * * * * **
7960292 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCATCAAGATGAGAGG
1 TCCCACGTAAGATCATGTCTGGGACATGGCATGGGCACCAAGATGAGAAC
* * *
7960342 TCCCCCGTAAGATCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCACGTAAGATCATGTCTGGGACATGGCATGGGCACCAAGATGAGAAC
* *
7960392 TCCCATGTAAGATCATATCTGGGA
1 TCCCACGTAAGATCATGTCTGGGA
7960416 TATGTCATTG
Statistics
Matches: 61, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 61 1.00
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.23
Consensus pattern (50 bp):
TCCCACGTAAGATCATGTCTGGGACATGGCATGGGCACCAAGATGAGAAC
Found at i:7969862 original size:16 final size:16
Alignment explanation
Indices: 7969824--7969854 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7969814 ACCATAAGCC
*
7969824 CTAAAAACCTTAAAAA
1 CTAAAAACCCTAAAAA
7969840 CTAAAAACCCTAAAA
1 CTAAAAACCCTAAAA
7969855 TATAAAAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.23, G:0.00, T:0.16
Consensus pattern (16 bp):
CTAAAAACCCTAAAAA
Found at i:7982309 original size:18 final size:20
Alignment explanation
Indices: 7982275--7982314 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
7982265 AAACCTATTC
7982275 TTATATTTATCTCAATTCAA
1 TTATATTTATCTCAATTCAA
7982295 TTATATTTAT-T-AATTCAA
1 TTATATTTATCTCAATTCAA
7982313 TT
1 TT
7982315 GAATTCAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 9 0.45
19 1 0.05
20 10 0.50
ACGTcount: A:0.35, C:0.10, G:0.00, T:0.55
Consensus pattern (20 bp):
TTATATTTATCTCAATTCAA
Found at i:7983423 original size:3 final size:3
Alignment explanation
Indices: 7983415--7983446 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
7983405 TTTTAACTGT
7983415 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
7983447 TTTTTATAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:8005004 original size:16 final size:15
Alignment explanation
Indices: 8004983--8005014 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
8004973 CAATCTTCGC
8004983 ACATAATCATGCATCA
1 ACATAATCATGC-TCA
8004999 ACATAATCATGCTCA
1 ACATAATCATGCTCA
8005014 A
1 A
8005015 AAATACTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.44, C:0.25, G:0.06, T:0.25
Consensus pattern (15 bp):
ACATAATCATGCTCA
Found at i:8038303 original size:17 final size:17
Alignment explanation
Indices: 8038257--8038310 Score: 72
Period size: 17 Copynumber: 3.2 Consensus size: 17
8038247 ATTGGGCTAC
* * *
8038257 GTGGGCCACACAGATGT
1 GTGGGCCCCACATACGT
8038274 GTGGGCCCCACATACGT
1 GTGGGCCCCACATACGT
*
8038291 GTGGGCCCCACATAGGT
1 GTGGGCCCCACATACGT
8038308 GTG
1 GTG
8038311 TGGGAATATT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 33 1.00
ACGTcount: A:0.19, C:0.28, G:0.35, T:0.19
Consensus pattern (17 bp):
GTGGGCCCCACATACGT
Found at i:8040725 original size:20 final size:21
Alignment explanation
Indices: 8040700--8040741 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
8040690 CTCTCTCTAT
*
8040700 ATATATTAATT-CTTTAAAAA
1 ATATATTAATTACTATAAAAA
8040720 ATATATTAATTACTATAAAAA
1 ATATATTAATTACTATAAAAA
8040741 A
1 A
8040742 ATTATTAGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (21 bp):
ATATATTAATTACTATAAAAA
Found at i:8040747 original size:21 final size:20
Alignment explanation
Indices: 8040700--8040748 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 20
8040690 CTCTCTCTAT
*
8040700 ATATATTAATTCTTTAAAAA
1 ATATATTAATTCTTAAAAAA
8040720 ATATATTAATTACTATAAAAAA
1 ATATATTAATT-CT-TAAAAAA
8040742 AT-TATTA
1 ATATATTA
8040749 GTATGATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 11 0.42
21 7 0.27
22 8 0.31
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (20 bp):
ATATATTAATTCTTAAAAAA
Found at i:8041485 original size:16 final size:15
Alignment explanation
Indices: 8041453--8041496 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
8041443 TTAGGTAAAA
8041453 ATAATATAAAAATTT
1 ATAATATAAAAATTT
*
8041468 ATAATATATAACATTT
1 ATAATATA-AAAATTT
*
8041484 ATAA-AAAAAAATT
1 ATAATATAAAAATT
8041497 GAAGTGATCG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
14 5 0.20
15 10 0.40
16 10 0.40
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (15 bp):
ATAATATAAAAATTT
Found at i:8042033 original size:9 final size:9
Alignment explanation
Indices: 8042013--8042069 Score: 71
Period size: 9 Copynumber: 6.2 Consensus size: 9
8042003 NNNNNNNNNN
8042013 TTTTATAAAT
1 TTTTAT-AAT
*
8042023 TTTTATTAT
1 TTTTATAAT
8042032 TTTTAATAAT
1 TTTT-ATAAT
*
8042042 TTTTA-ATT
1 TTTTATAAT
8042050 TTTTATAAT
1 TTTTATAAT
8042059 TTTTATAAT
1 TTTTATAAT
8042068 TT
1 TT
8042070 CAAAATATAT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
8 7 0.17
9 20 0.49
10 14 0.34
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (9 bp):
TTTTATAAT
Found at i:8042052 original size:17 final size:18
Alignment explanation
Indices: 8042020--8042065 Score: 67
Period size: 17 Copynumber: 2.6 Consensus size: 18
8042010 NNNTTTTATA
8042020 AATTTTTATTATTTTTAAT
1 AATTTTTA-TATTTTTAAT
*
8042039 AATTTTTA-ATTTTTTAT
1 AATTTTTATATTTTTAAT
8042056 AATTTTTATA
1 AATTTTTATA
8042066 ATTTCAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 16 0.64
18 1 0.04
19 8 0.32
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
AATTTTTATATTTTTAAT
Found at i:8044507 original size:47 final size:47
Alignment explanation
Indices: 8044441--8044542 Score: 170
Period size: 47 Copynumber: 2.2 Consensus size: 47
8044431 ATAAATAAAT
* * *
8044441 AAAA-TAATAAAATCTAATAAATACAATATTTGGCTCATATATAATA
1 AAAATTAAGAAAACCTAATAAATACAATATTTGGCTAATATATAATA
8044487 AAAATTAAGAAAACCTAATAAATACAATATTTGGCTAATATATAATA
1 AAAATTAAGAAAACCTAATAAATACAATATTTGGCTAATATATAATA
8044534 AAAATTAAG
1 AAAATTAAG
8044543 CCTAAAAACC
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
46 4 0.08
47 48 0.92
ACGTcount: A:0.56, C:0.08, G:0.06, T:0.30
Consensus pattern (47 bp):
AAAATTAAGAAAACCTAATAAATACAATATTTGGCTAATATATAATA
Found at i:8044531 original size:24 final size:24
Alignment explanation
Indices: 8044457--8044531 Score: 57
Period size: 24 Copynumber: 3.2 Consensus size: 24
8044447 ATAAAATCTA
*
8044457 ATAAATACAATATTTGGCTCATAT
1 ATAAATACAATATTTGGCTAATAT
* ** **
8044481 AT-AATA-AAAATTAAGAAAACCTA-
1 ATAAATACAATATTTGGCTAA--TAT
8044504 ATAAATACAATATTTGGCTAATAT
1 ATAAATACAATATTTGGCTAATAT
8044528 ATAA
1 ATAA
8044532 TAAAAATTAA
Statistics
Matches: 35, Mismatches: 11, Indels: 10
0.62 0.20 0.18
Matches are distributed among these distances:
22 7 0.20
23 8 0.23
24 12 0.34
25 8 0.23
ACGTcount: A:0.52, C:0.09, G:0.07, T:0.32
Consensus pattern (24 bp):
ATAAATACAATATTTGGCTAATAT
Found at i:8061255 original size:3 final size:3
Alignment explanation
Indices: 8061241--8061298 Score: 62
Period size: 3 Copynumber: 19.3 Consensus size: 3
8061231 TACAAAGCGG
* * * * * *
8061241 TAA TAG TAA TAA TAA TAA CAA TAG TAG TAA TAA TTA TAA TAA TAA TAG
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
8061289 TAA TAA TAA T
1 TAA TAA TAA T
8061299 GAAATTTAAT
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:8061270 original size:21 final size:21
Alignment explanation
Indices: 8061241--8061298 Score: 89
Period size: 21 Copynumber: 2.8 Consensus size: 21
8061231 TACAAAGCGG
8061241 TAATAGTAATAATAATAACAA
1 TAATAGTAATAATAATAACAA
* * *
8061262 TAGTAGTAATAATTATAATAA
1 TAATAGTAATAATAATAACAA
8061283 TAATAGTAATAATAAT
1 TAATAGTAATAATAAT
8061299 GAAATTTAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.34
Consensus pattern (21 bp):
TAATAGTAATAATAATAACAA
Found at i:8062934 original size:44 final size:44
Alignment explanation
Indices: 8062873--8063078 Score: 208
Period size: 44 Copynumber: 4.8 Consensus size: 44
8062863 GATCATTTTG
8062873 ATCCGCTCCACTGCAACTTCAGGGAGATAGGATCTATTACTTTA
1 ATCCGCTCCACTGCAACTTCAGGGAGATAGGATCTATTACTTTA
* * * *
8062917 ATCCACTCCACTACAACTTCAGGGAGATAGGAT-TATCGACTTCA
1 ATCCGCTCCACTGCAACTTCAGGGAGATAGGATCTAT-TACTTTA
* * * * * *
8062961 ATCTGCTCCACTGCAACCTCAGGGAGATAAGACCTGA-TGC---G
1 ATCCGCTCCACTGCAACTTCAGGGAGATAGGATCT-ATTACTTTA
* * *
8063002 ATCCACTCTACTGCAACTTC-GGAGAGATAAGATCTATTACTTTA
1 ATCCGCTCCACTGCAACTTCAGG-GAGATAGGATCTATTACTTTA
* *
8063046 ATCCGCTCCACTACAACTTCAAGGAGATAGGAT
1 ATCCGCTCCACTGCAACTTCAGGGAGATAGGAT
8063079 TATCGGCTTC
Statistics
Matches: 128, Mismatches: 25, Indels: 18
0.75 0.15 0.11
Matches are distributed among these distances:
40 3 0.02
41 29 0.23
43 3 0.02
44 90 0.70
45 2 0.02
46 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (44 bp):
ATCCGCTCCACTGCAACTTCAGGGAGATAGGATCTATTACTTTA
Found at i:8063054 original size:85 final size:86
Alignment explanation
Indices: 8062837--8063074 Score: 222
Period size: 85 Copynumber: 2.8 Consensus size: 86
8062827 AATGTGGTCT
** * *
8062837 ACTCTACTGCAACTTTAGAGAGATGAGATC-A-T--TTTGATCCGCTCCACTGCAACTTCAGGGA
1 ACTCTACTGCAACTTCGGAGAGATAAGATCTATTACTTTAATCCGCTCCACTGCAACTTCAGGGA
* *
8062898 GATAGGATCTATTACTTTAATCC
66 GATAAGACCTATTAC--TAATCC
* * * * * * *
8062921 ACTCCACTACAACTTCAGG-GAGATAGGAT-TATCGACTTCAATCTGCTCCACTGCAACCTCAGG
1 ACTCTACTGCAACTTC-GGAGAGATAAGATCTAT-TACTTTAATCCGCTCCACTGCAACTTCAGG
* *
8062984 GAGATAAGACCTGA-TGC-GATCC
64 GAGATAAGACCT-ATTACTAATCC
* *
8063006 ACTCTACTGCAACTTCGGAGAGATAAGATCTATTACTTTAATCCGCTCCACTACAACTTCAAGGA
1 ACTCTACTGCAACTTCGGAGAGATAAGATCTATTACTTTAATCCGCTCCACTGCAACTTCAGGGA
8063071 GATA
66 GATA
8063075 GGATTATCGG
Statistics
Matches: 121, Mismatches: 24, Indels: 17
0.75 0.15 0.10
Matches are distributed among these distances:
84 24 0.20
85 58 0.48
86 3 0.02
88 35 0.29
89 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (86 bp):
ACTCTACTGCAACTTCGGAGAGATAAGATCTATTACTTTAATCCGCTCCACTGCAACTTCAGGGA
GATAAGACCTATTACTAATCC
Found at i:8063103 original size:129 final size:129
Alignment explanation
Indices: 8062872--8063121 Score: 403
Period size: 129 Copynumber: 1.9 Consensus size: 129
8062862 AGATCATTTT
* *
8062872 GATCCGCTCCACTGCAACTTCAGGGAGATAGGATCTATTACTTTAATCCACTCCACTACAACTTC
1 GATCCACTCCACTGCAACTTCAGGGAGATAAGATCTATTACTTTAATCCACTCCACTACAACTTC
* *
8062937 AGGGAGATAGGATTATCGACTTCAATCTGCTCCACTGCAACCTCAGGGAGATAAGACCTGATGC
66 AAGGAGATAGGATTATCGACTTCAATCTACTCCACTGCAACCTCAGGGAGATAAGACCTGATGC
* *
8063001 GATCCACTCTACTGCAACTTC-GGAGAGATAAGATCTATTACTTTAATCCGCTCCACTACAACTT
1 GATCCACTCCACTGCAACTTCAGG-GAGATAAGATCTATTACTTTAATCCACTCCACTACAACTT
* * *
8063065 CAAGGAGATAGGATTATCGGCTTCAATCTACTCTACTGCAACCTTAGGGAGATAAGA
65 CAAGGAGATAGGATTATCGACTTCAATCTACTCCACTGCAACCTCAGGGAGATAAGA
8063122 TTTACTTCTT
Statistics
Matches: 111, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
128 2 0.02
129 109 0.98
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (129 bp):
GATCCACTCCACTGCAACTTCAGGGAGATAAGATCTATTACTTTAATCCACTCCACTACAACTTC
AAGGAGATAGGATTATCGACTTCAATCTACTCCACTGCAACCTCAGGGAGATAAGACCTGATGC
Found at i:8063116 original size:44 final size:44
Alignment explanation
Indices: 8062873--8063123 Score: 203
Period size: 44 Copynumber: 5.8 Consensus size: 44
8062863 GATCATTTTG
* *
8062873 ATCCGCTCCACTGCAACTTCAGGGAGATAGGATCTAT-TACTTTA
1 ATCCACTCCACTGCAACTTCAGGGAGATAGGAT-TATCTACTTCA
* *
8062917 ATCCACTCCACTACAACTTCAGGGAGATAGGATTATCGACTTCA
1 ATCCACTCCACTGCAACTTCAGGGAGATAGGATTATCTACTTCA
** * * * * *
8062961 ATCTGCTCCACTGCAACCTCAGGGAGATA--A-GACCTGA-TGCG
1 ATCCACTCCACTGCAACTTCAGGGAGATAGGATTATCT-ACTTCA
* * *
8063002 ATCCACTCTACTGCAACTTC-GGAGAGATAAGATCTAT-TACTTTA
1 ATCCACTCCACTGCAACTTCAGG-GAGATAGGAT-TATCTACTTCA
* * * **
8063046 ATCCGCTCCACTACAACTTCAAGGAGATAGGATTATCGGCTTCA
1 ATCCACTCCACTGCAACTTCAGGGAGATAGGATTATCTACTTCA
* * *
8063090 ATCTACTCTACTGCAACCTT-AGGGAGATAAGATT
1 ATCCACTCCACTGCAA-CTTCAGGGAGATAGGATT
8063124 TACTTCTTCG
Statistics
Matches: 160, Mismatches: 36, Indels: 22
0.73 0.17 0.10
Matches are distributed among these distances:
40 2 0.01
41 26 0.16
42 2 0.01
43 8 0.05
44 117 0.73
45 5 0.03
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (44 bp):
ATCCACTCCACTGCAACTTCAGGGAGATAGGATTATCTACTTCA
Found at i:8063891 original size:17 final size:17
Alignment explanation
Indices: 8063869--8063901 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
8063859 CACACCATTC
8063869 CCGAGGTAACCTCTTCT
1 CCGAGGTAACCTCTTCT
8063886 CCGAGGTAACCTCTTC
1 CCGAGGTAACCTCTTC
8063902 CTCTTGCCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.36, G:0.18, T:0.27
Consensus pattern (17 bp):
CCGAGGTAACCTCTTCT
Found at i:8064669 original size:16 final size:17
Alignment explanation
Indices: 8064648--8064680 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
8064638 TTAGCCTCTC
8064648 CATTTTAC-TTTTTCAT
1 CATTTTACATTTTTCAT
*
8064664 CATTTTTCATTTTTCAT
1 CATTTTACATTTTTCAT
8064681 TCTTTTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.18, C:0.18, G:0.00, T:0.64
Consensus pattern (17 bp):
CATTTTACATTTTTCAT
Found at i:8079344 original size:21 final size:21
Alignment explanation
Indices: 8079307--8079356 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 21
8079297 AATTAGGTTT
8079307 GGTT-AAAAGGGTG-TTTTAA
1 GGTTAAAAAGGGTGTTTTTAA
*
8079326 TGTTAAAAAGGGATGTTTTTAA
1 GGTTAAAAAGGG-TGTTTTTAA
8079348 GGTTAAAAA
1 GGTTAAAAA
8079357 TTGGCATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 3 0.12
20 7 0.27
21 2 0.08
22 14 0.54
ACGTcount: A:0.38, C:0.00, G:0.26, T:0.36
Consensus pattern (21 bp):
GGTTAAAAAGGGTGTTTTTAA
Found at i:8081346 original size:10 final size:9
Alignment explanation
Indices: 8081324--8081356 Score: 50
Period size: 10 Copynumber: 3.7 Consensus size: 9
8081314 TTAAAGTTTT
8081324 TAAAAT-AA
1 TAAAATAAA
8081332 TAAAATAACA
1 TAAAATAA-A
8081342 TAAAATAAA
1 TAAAATAAA
8081351 TAAAAT
1 TAAAAT
8081357 TCAAGAGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 6 0.26
9 8 0.35
10 9 0.39
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (9 bp):
TAAAATAAA
Found at i:8085975 original size:21 final size:21
Alignment explanation
Indices: 8085951--8086013 Score: 60
Period size: 20 Copynumber: 3.1 Consensus size: 21
8085941 CTAAATTGCA
*
8085951 CCCCTGAATTGCACTTATGTG
1 CCCCTGAATTGCACTTACGTG
* * *
8085972 CCCCT-ATTTGTACTT-CGGTA
1 CCCCTGAATTGCACTTAC-GTG
8085992 CCCCTG-ATTGCACTTACGTG
1 CCCCTGAATTGCACTTACGTG
8086012 CC
1 CC
8086014 TCTATTTGTA
Statistics
Matches: 32, Mismatches: 7, Indels: 7
0.70 0.15 0.15
Matches are distributed among these distances:
20 26 0.81
21 6 0.19
ACGTcount: A:0.16, C:0.33, G:0.17, T:0.33
Consensus pattern (21 bp):
CCCCTGAATTGCACTTACGTG
Found at i:8085995 original size:20 final size:20
Alignment explanation
Indices: 8085972--8086032 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 20
8085962 CACTTATGTG
8085972 CCCCTATTTGTACTTCGGTA
1 CCCCTATTTGTACTTCGGTA
* *
8085992 CCCCTGA-TTGCACTTAC-GTG
1 CCCCT-ATTTGTACTT-CGGTA
*
8086012 CCTCTATTTGTACTTCGGTA
1 CCCCTATTTGTACTTCGGTA
8086032 C
1 C
8086033 TCTTGATTGC
Statistics
Matches: 32, Mismatches: 5, Indels: 8
0.71 0.11 0.18
Matches are distributed among these distances:
19 2 0.06
20 28 0.88
21 2 0.06
ACGTcount: A:0.15, C:0.31, G:0.16, T:0.38
Consensus pattern (20 bp):
CCCCTATTTGTACTTCGGTA
Found at i:8086005 original size:40 final size:40
Alignment explanation
Indices: 8085950--8086076 Score: 182
Period size: 40 Copynumber: 3.1 Consensus size: 40
8085940 CCTAAATTGC
8085950 ACCCCTGAATTGCACTTATGTGCCCCTATTTGTACTTCGGT
1 ACCCCTG-ATTGCACTTATGTGCCCCTATTTGTACTTCGGT
* *
8085991 ACCCCTGATTGCACTTACGTGCCTCTATTTGTACTTCGGT
1 ACCCCTGATTGCACTTATGTGCCCCTATTTGTACTTCGGT
* * * * *
8086031 ACTCTTGATTGCTCCTATGTGCCCCTGTTTGTACTTCGGT
1 ACCCCTGATTGCACTTATGTGCCCCTATTTGTACTTCGGT
8086071 ACCCCT
1 ACCCCT
8086077 AGTTATACTC
Statistics
Matches: 75, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
40 68 0.91
41 7 0.09
ACGTcount: A:0.14, C:0.31, G:0.17, T:0.38
Consensus pattern (40 bp):
ACCCCTGATTGCACTTATGTGCCCCTATTTGTACTTCGGT
Found at i:8086466 original size:17 final size:17
Alignment explanation
Indices: 8086446--8086478 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
8086436 TATATTATGG
8086446 ATGATCTTATATGTAAT
1 ATGATCTTATATGTAAT
*
8086463 ATGATGTTATATGTAA
1 ATGATCTTATATGTAA
8086479 AAAGAGATTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.03, G:0.15, T:0.45
Consensus pattern (17 bp):
ATGATCTTATATGTAAT
Found at i:8089579 original size:20 final size:20
Alignment explanation
Indices: 8089554--8089606 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 20
8089544 AGATCACATA
8089554 GGTATTGATA-CTCATATGAT
1 GGTATTGATATCTCATA-GAT
8089574 GGTATTGATATTTCTCATAGAT
1 GGTATTGATA--TCTCATAGAT
*
8089596 GGTATCGATAT
1 GGTATTGATAT
8089607 TGTTTAGAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
20 11 0.38
22 12 0.41
23 6 0.21
ACGTcount: A:0.28, C:0.09, G:0.21, T:0.42
Consensus pattern (20 bp):
GGTATTGATATCTCATAGAT
Found at i:8089599 original size:22 final size:23
Alignment explanation
Indices: 8089564--8089607 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
8089554 GGTATTGATA
*
8089564 CTCATATGATGGTATTGATATTT
1 CTCATATGATGGTATCGATATTT
8089587 CTCATA-GATGGTATCGATATT
1 CTCATATGATGGTATCGATATT
8089608 GTTTAGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.27, C:0.11, G:0.18, T:0.43
Consensus pattern (23 bp):
CTCATATGATGGTATCGATATTT
Found at i:8100860 original size:17 final size:17
Alignment explanation
Indices: 8100840--8100884 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 17
8100830 AAATTTTTAA
8100840 ATTTTATTTATTT-ATTT
1 ATTTTATTT-TTTGATTT
8100857 ATTTTATCTTTTTGATTT
1 ATTTTAT-TTTTTGATTT
8100875 ATTTATATTT
1 ATTT-TATTT
8100885 CCGAAAAGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 10 0.40
18 12 0.48
19 3 0.12
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.73
Consensus pattern (17 bp):
ATTTTATTTTTTGATTT
Found at i:8101801 original size:63 final size:62
Alignment explanation
Indices: 8101700--8101821 Score: 163
Period size: 63 Copynumber: 2.0 Consensus size: 62
8101690 TTTAGTGTGA
* * *
8101700 TACTTATACTTTGAAAAATGTCCAATGTAGTACATGAACTATCTATATGTGTTCTATTATAG
1 TACTTATACTTTCAAAAATGTCCAATGTAGTACATGAACTATCAATATGCGTTCTATTATAG
* * * * *
8101762 TACTTGTACTTTCATAAAATGTCTAATGTGGTACCTGAACTATCAATATGCGTTTTATTA
1 TACTTATACTTTCA-AAAATGTCCAATGTAGTACATGAACTATCAATATGCGTTCTATTA
8101822 CGGTACCTAG
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
62 12 0.24
63 39 0.76
ACGTcount: A:0.32, C:0.14, G:0.13, T:0.41
Consensus pattern (62 bp):
TACTTATACTTTCAAAAATGTCCAATGTAGTACATGAACTATCAATATGCGTTCTATTATAG
Found at i:8102805 original size:11 final size:12
Alignment explanation
Indices: 8102781--8102814 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
8102771 GCTTTGGTTG
*
8102781 AATGATAAATAA
1 AATGATAAAAAA
8102793 AATG-TAAAAAA
1 AATGATAAAAAA
8102804 AATGATAAAAA
1 AATGATAAAAA
8102815 CATAATCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.71, C:0.00, G:0.09, T:0.21
Consensus pattern (12 bp):
AATGATAAAAAA
Found at i:8110462 original size:434 final size:436
Alignment explanation
Indices: 8109650--8110517 Score: 1474
Period size: 434 Copynumber: 2.0 Consensus size: 436
8109640 ATGGTTTTAC
* * *
8109650 AAGCCTATAAATAGATATAATCTACTCCTCTTATAATCATTCGAATTTGACATAGTGAATTTTCT
1 AAGCCTATAAATAGACATAATCTACTCCTCTTATAATCATTCGAATTTGACACAGCGAATTTTCT
*
8109715 TCTCCTCTGCTCGTGGTTTTTTCTAGAAAAGGTTTTCCACATAAAAATCTGTGTGTTCTTTATTT
66 TCT-CTCTGCTCGTGGTTTTTTCTAGAAAAGGGTTTCCACATAAAAATCTGTGTGTTCTTTATTT
8109780 TTCTTTCTCTTTTCTTTGCGATATATTATCATTACTGATATTCTATTTTTTACAAATTGGTATCA
130 TTCTTTCTCTTTTCTTTGCGATATATTATCATTACTGATATTCTATTTTTTACAAATTGGTATCA
* * *
8109845 GAGCTTCTGGGTTGTTTATCTGAATCACAATAATAGCATCTTTGAAGTATGAAATTTCGTTGTTG
195 GAGCTTCCGAGTTGTTTATCTGAATCACAATAATAGCATCTTTGAAGTATGAAATTTCGCTGTTG
* *
8109910 GATCGCAACACTAGATTCGCATTGTGGCAGATTAAGATGCAATCAGTTCCTACGCAGATGAATCT
260 GATCGCAACACTAGATTCACATTGTGGCAGATTAAGATGCAATCAATTCCTACGCAGATGAATCT
* * *
8109975 GGAGGATGCCCTGCTAAGGATCGATAAGATGCCTTCGACATTGACGAAGGAAGAGAAGGAACGTA
325 GGAGGATGCCCTGCTAAAGATCGATAAGATGCCTTCAACATTGACGAAGGAAGAGAAGAAACGTA
*
8110040 AGGATTGAGAGGCACTAACATAGTTACATCTGCATTTATCTAACAAA
390 AGGATTGAGAGGCACTAACATAGTTACATATGCATTTATCTAACAAA
* *
8110087 AAGCCTATAAATAGACATAGTCTACTCCTCTTATAATCATTCGAATTTGACGCAGCGAATTTTCT
1 AAGCCTATAAATAGACATAATCTACTCCTCTTATAATCATTCGAATTTGACACAGCGAATTTTCT
*
8110152 TCT-T-TGCTCGTGGTTTTTTCTCG-AAAGGGTTTCCACATAAAAATCTGTGTGTTCTTTATTTT
66 TCTCTCTGCTCGTGGTTTTTTCTAGAAAAGGGTTTCCACATAAAAATCTGTGTGTTCTTTATTTT
* *
8110214 TCTTTCTCTTTTCTTTGTGATATATTGTCATTACTGATATTCTATTTTTTTACAAATTGGTATCA
131 TCTTTCTCTTTTCTTTGCGATATATTATCATTACTGATATTCTA-TTTTTTACAAATTGGTATCA
* *
8110279 GAGCTTCCGAGTTGTTTATCTCG-ATTACAGTAATAGCATCTTTGAAGTATGAAATTTCGCTGTT
195 GAGCTTCCGAGTTGTTTATCT-GAATCACAATAATAGCATCTTTGAAGTATGAAATTTCGCTGTT
8110343 GGATCGCAACACTAGATTCACATTGTGGCAGATTAAGATGCAATCAATTCCTACGCAGATGAATC
259 GGATCGCAACACTAGATTCACATTGTGGCAGATTAAGATGCAATCAATTCCTACGCAGATGAATC
*
8110408 TGGAGGATGCCCTGCTAAAGATCGATAAGATGCCTTCAACATTGACGGAGGAAGAGAAGAAACGT
324 TGGAGGATGCCCTGCTAAAGATCGATAAGATGCCTTCAACATTGACGAAGGAAGAGAAGAAACGT
* *
8110473 AAGGATTGAGAGGCACTAACATAGTTATATATGCATTTGTCTAAC
389 AAGGATTGAGAGGCACTAACATAGTTACATATGCATTTATCTAAC
8110518 GAAATTTTAC
Statistics
Matches: 406, Mismatches: 23, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
433 80 0.20
434 261 0.64
435 2 0.00
437 63 0.16
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (436 bp):
AAGCCTATAAATAGACATAATCTACTCCTCTTATAATCATTCGAATTTGACACAGCGAATTTTCT
TCTCTCTGCTCGTGGTTTTTTCTAGAAAAGGGTTTCCACATAAAAATCTGTGTGTTCTTTATTTT
TCTTTCTCTTTTCTTTGCGATATATTATCATTACTGATATTCTATTTTTTACAAATTGGTATCAG
AGCTTCCGAGTTGTTTATCTGAATCACAATAATAGCATCTTTGAAGTATGAAATTTCGCTGTTGG
ATCGCAACACTAGATTCACATTGTGGCAGATTAAGATGCAATCAATTCCTACGCAGATGAATCTG
GAGGATGCCCTGCTAAAGATCGATAAGATGCCTTCAACATTGACGAAGGAAGAGAAGAAACGTAA
GGATTGAGAGGCACTAACATAGTTACATATGCATTTATCTAACAAA
Found at i:8118071 original size:19 final size:19
Alignment explanation
Indices: 8118043--8118083 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
8118033 ATAAATGTGA
8118043 AAAATAAAATTAGATAACC
1 AAAATAAAATTAGATAACC
* *
8118062 AAAATTAAATTAGATAATC
1 AAAATAAAATTAGATAACC
8118081 AAA
1 AAA
8118084 TAGGAGAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.63, C:0.07, G:0.05, T:0.24
Consensus pattern (19 bp):
AAAATAAAATTAGATAACC
Found at i:8119070 original size:17 final size:18
Alignment explanation
Indices: 8119042--8119080 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
8119032 ATTCTGAATT
8119042 TTTACTTTTTCCCCCAAA
1 TTTACTTTTTCCCCCAAA
*
8119060 TTTAC-TTTTCCCCCTAA
1 TTTACTTTTTCCCCCAAA
8119077 TTTA
1 TTTA
8119081 GCCAGTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.21, C:0.31, G:0.00, T:0.49
Consensus pattern (18 bp):
TTTACTTTTTCCCCCAAA
Found at i:8120844 original size:76 final size:78
Alignment explanation
Indices: 8120681--8120855 Score: 210
Period size: 76 Copynumber: 2.3 Consensus size: 78
8120671 AAAGTATATA
* * * * *
8120681 AATTAAATTAAAGGTATGAATTTTATATATGTATATGTGAGGTTCGAAGATATATGTATATACAC
1 AATTAAATTAAAGGTATGAATATTACATATGTATATGTGAGATTAGAAGATAGATGTATATACAC
* * *
8120746 GTATAAGTTCTTG
66 ATAGAAGTACTTG
* * *
8120759 AATTAAATTAAAGGTATGAATATTACATATGTATGTGTGTGATTAG-A-ATAGATGTATATACAT
1 AATTAAATTAAAGGTATGAATATTACATATGTATATGTGAGATTAGAAGATAGATGTATATACAC
8120822 ATAGAAGTACTTG
66 ATAGAAGTACTTG
* * *
8120835 AGTTGAATTAAAAGTATGAAT
1 AATTAAATTAAAGGTATGAAT
8120856 TGTAAATACT
Statistics
Matches: 83, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
76 42 0.51
77 1 0.01
78 40 0.48
ACGTcount: A:0.40, C:0.04, G:0.18, T:0.38
Consensus pattern (78 bp):
AATTAAATTAAAGGTATGAATATTACATATGTATATGTGAGATTAGAAGATAGATGTATATACAC
ATAGAAGTACTTG
Found at i:8121251 original size:31 final size:31
Alignment explanation
Indices: 8121216--8121427 Score: 142
Period size: 31 Copynumber: 6.6 Consensus size: 31
8121206 GATAAGTATT
*
8121216 TATATGCATTCGGTTATATACCTTTGAAGTG
1 TATATGCATTCGGTTATATACATTTGAAGTG
* * * *
8121247 TATATGCTTTCGATTATA-AGTATTTGATAGGTATA
1 TATATGCATTCGGTTATATA-CATTTGA-A-G--TG
* * *
8121282 TATATGCATTTGGTTATATACCTTTGATGTG
1 TATATGCATTCGGTTATATACATTTGAAGTG
* * * *
8121313 TATGTGCATTCGATTATA-AGAATTTGATAGGTA
1 TATATGCATTCGGTTATATA-CATTTGA-A-GTG
* *
8121346 TATATGCATTCGGTTGTATACATTTGATGTG
1 TATATGCATTCGGTTATATACATTTGAAGTG
* * * *
8121377 TATATGCATCCGGTTATA-AGTAGTTGATAAGTA
1 TATATGCATTCGGTTATATA-CATTTG--AAGTG
8121410 TATATGCATTCGGTTATA
1 TATATGCATTCGGTTATA
8121428 AGTATTTGAT
Statistics
Matches: 136, Mismatches: 32, Indels: 24
0.71 0.17 0.12
Matches are distributed among these distances:
30 3 0.02
31 64 0.47
32 1 0.01
33 45 0.33
34 1 0.01
35 21 0.15
36 1 0.01
ACGTcount: A:0.28, C:0.09, G:0.20, T:0.43
Consensus pattern (31 bp):
TATATGCATTCGGTTATATACATTTGAAGTG
Found at i:8121354 original size:33 final size:32
Alignment explanation
Indices: 8121201--8121446 Score: 184
Period size: 33 Copynumber: 7.5 Consensus size: 32
8121191 ATTCATATAT
8121201 TATTTGATAAGTATTTATATGCATTCGGTTAT-A-
1 TATTTGAT-AGTA--TATATGCATTCGGTTATAAG
* * *
8121234 TACCTTTGA-AGTGTATATGCTTTCGATTATAAG
1 TA--TTTGATAGTATATATGCATTCGGTTATAAG
*
8121267 TATTTGATAGGTATATATATGCATTTGGTTAT-A-
1 TATTTGATA-G--TATATATGCATTCGGTTATAAG
* * *
8121300 TACCTTTGAT-GTGTATGTGCATTCGATTATAAG
1 TA--TTTGATAGTATATATGCATTCGGTTATAAG
* *
8121333 AATTTGATAGGTATATATGCATTCGGTTGTATA-
1 TATTTGATA-GTATATATGCATTCGGTTATA-AG
* * *
8121366 CATTTGAT-GTGTATATGCATCCGGTTATAAG
1 TATTTGATAGTATATATGCATTCGGTTATAAG
*
8121397 TAGTTGATAAGTATATATGCATTCGGTTATAAG
1 TATTTGAT-AGTATATATGCATTCGGTTATAAG
*
8121430 TATTTGATGAGTCTATA
1 TATTTGAT-AGTATATA
8121447 CATATATTTG
Statistics
Matches: 168, Mismatches: 27, Indels: 36
0.73 0.12 0.16
Matches are distributed among these distances:
30 1 0.01
31 65 0.39
32 3 0.02
33 71 0.42
34 2 0.01
35 26 0.15
ACGTcount: A:0.29, C:0.08, G:0.20, T:0.43
Consensus pattern (32 bp):
TATTTGATAGTATATATGCATTCGGTTATAAG
Found at i:8121385 original size:64 final size:64
Alignment explanation
Indices: 8121201--8121427 Score: 310
Period size: 64 Copynumber: 3.5 Consensus size: 64
8121191 ATTCATATAT
* *
8121201 TATTTGATAAGTATTTATATGCATTCGGTTATATACCTTTGAAGTGTATATGCTTTCGATTATAA
1 TATTTGATAAGTA--TATATGCATTCGGTTATATACCTTTGATGTGTATATGCATTCGATTATAA
8121266 G
64 G
* * *
8121267 TATTTGATAGGTATATATATGCATTTGGTTATATACCTTTGATGTGTATGTGCATTCGATTATAA
1 TATTTGATAAG--TATATATGCATTCGGTTATATACCTTTGATGTGTATATGCATTCGATTATAA
8121332 G
64 G
* * * * * *
8121333 AATTTGATAGGTATATATGCATTCGGTTGTATACATTTGATGTGTATATGCATCCGGTTATAAG
1 TATTTGATAAGTATATATGCATTCGGTTATATACCTTTGATGTGTATATGCATTCGATTATAAG
*
8121397 TAGTTGATAAGTATATATGCATTCGGTTATA
1 TATTTGATAAGTATATATGCATTCGGTTATA
8121428 AGTATTTGAT
Statistics
Matches: 143, Mismatches: 16, Indels: 6
0.87 0.10 0.04
Matches are distributed among these distances:
64 74 0.52
66 67 0.47
68 2 0.01
ACGTcount: A:0.29, C:0.08, G:0.19, T:0.44
Consensus pattern (64 bp):
TATTTGATAAGTATATATGCATTCGGTTATATACCTTTGATGTGTATATGCATTCGATTATAAG
Found at i:8122029 original size:23 final size:23
Alignment explanation
Indices: 8121999--8122045 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
8121989 TAGTGTTCGA
8121999 GATTTTTATTATGAAAAAGCTAT
1 GATTTTTATTATGAAAAAGCTAT
8122022 GATTTTTATTATGAAAAAGCTAT
1 GATTTTTATTATGAAAAAGCTAT
8122045 G
1 G
8122046 TAAGCTTGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.15, T:0.43
Consensus pattern (23 bp):
GATTTTTATTATGAAAAAGCTAT
Found at i:8128594 original size:86 final size:86
Alignment explanation
Indices: 8128478--8128640 Score: 211
Period size: 86 Copynumber: 1.9 Consensus size: 86
8128468 TACATGCATA
* * ** * **
8128478 AGGTTGAGTTCTTACTCTTAATAAATTCATATCCTAGGGTTTGGGTGCTCCTATTGAAACGGACT
1 AGGTTGAGTTCTTACTCTTAATAAAGTCATATCCAAAAGTTTGGGTGATCCTATTGAAACAAACT
*
8128543 TGATGAATTCACCAACATGTG
66 TGATGAACTCACCAACATGTG
* * *
8128564 AGGTTGAGTTTCTTACTCTTAAT-GAGTCATATCCAAAATTTTGGGTGATCCTATTGAGACAAAC
1 AGGTTGAG-TTCTTACTCTTAATAAAGTCATATCCAAAAGTTTGGGTGATCCTATTGAAACAAAC
8128628 TTGATGAACTCAC
65 TTGATGAACTCAC
8128641 TGAATTTAAA
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
86 51 0.78
87 14 0.22
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (86 bp):
AGGTTGAGTTCTTACTCTTAATAAAGTCATATCCAAAAGTTTGGGTGATCCTATTGAAACAAACT
TGATGAACTCACCAACATGTG
Found at i:8129604 original size:93 final size:93
Alignment explanation
Indices: 8129440--8129627 Score: 268
Period size: 93 Copynumber: 2.0 Consensus size: 93
8129430 TCTCCTCATT
* * * ** *
8129440 TTACACTACAAGGAAAGCAACAATCTTTTATCCCACAGCTCACCTGTTCCTTTTTCAGTTTTTTC
1 TTACACAACAAGGAAAACAACAATCTTTTATCCCACAGCTCACATGTTCCTTTTTCAAATTTTCC
** * *
8129505 GTTTCCTTTTTTAGAAGAGCAATACCAC
66 AATTCCTTTTCTAAAAGAGCAATACCAC
*
8129533 TTACACAACAAGGAAAACAACAATCTTTTATCCCATAGCTCACATGTTCCTTTTTCAAATTTTCC
1 TTACACAACAAGGAAAACAACAATCTTTTATCCCACAGCTCACATGTTCCTTTTTCAAATTTTCC
*
8129598 AATTCCTTTTCTAAAAGAGCAATATCAC
66 AATTCCTTTTCTAAAAGAGCAATACCAC
8129626 TT
1 TT
8129628 GTGTTCTACA
Statistics
Matches: 83, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
93 83 1.00
ACGTcount: A:0.31, C:0.25, G:0.09, T:0.36
Consensus pattern (93 bp):
TTACACAACAAGGAAAACAACAATCTTTTATCCCACAGCTCACATGTTCCTTTTTCAAATTTTCC
AATTCCTTTTCTAAAAGAGCAATACCAC
Found at i:8144860 original size:32 final size:32
Alignment explanation
Indices: 8144824--8144885 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
8144814 CCTTAGGAAT
*
8144824 GTAAGTATACTACATCAAATAAATTGGAATAG
1 GTAAGTATACTACATCAAATAAAGTGGAATAG
*
8144856 GTAAGTATACTGCATCAAATAAAGTGGAAT
1 GTAAGTATACTACATCAAATAAAGTGGAAT
8144886 GGGTTTTACA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.45, C:0.10, G:0.18, T:0.27
Consensus pattern (32 bp):
GTAAGTATACTACATCAAATAAAGTGGAATAG
Found at i:8152978 original size:15 final size:15
Alignment explanation
Indices: 8152958--8152995 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
8152948 ATTCGTAATT
*
8152958 TTAGCTTTTCCCCTA
1 TTAGCTTCTCCCCTA
8152973 TTAGCTTCTCCCCTA
1 TTAGCTTCTCCCCTA
8152988 TTAGCTTC
1 TTAGCTTC
8152996 ATTTTGATAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.13, C:0.34, G:0.08, T:0.45
Consensus pattern (15 bp):
TTAGCTTCTCCCCTA
Found at i:8153663 original size:19 final size:19
Alignment explanation
Indices: 8153629--8153675 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
8153619 TAATTAGATG
*
8153629 TTAATTAA-CTTAGTTTAA
1 TTAATTAATCATAGTTTAA
8153647 TTAATTAATCATAGTTTAA
1 TTAATTAATCATAGTTTAA
8153666 TTAATATAAT
1 TTAAT-TAAT
8153676 TTAACTTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 8 0.31
19 14 0.54
20 4 0.15
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (19 bp):
TTAATTAATCATAGTTTAA
Found at i:8155606 original size:17 final size:17
Alignment explanation
Indices: 8155584--8155637 Score: 67
Period size: 17 Copynumber: 3.2 Consensus size: 17
8155574 GAGGTTTTCA
8155584 AAGAAACAATGGGGAAG
1 AAGAAACAATGGGGAAG
*
8155601 AAGAAAC--TGTGGAAAG
1 AAGAAACAATG-GGGAAG
*
8155617 AAGAAACAATGAGGAAG
1 AAGAAACAATGGGGAAG
8155634 AAGA
1 AAGA
8155638 TCGAAAATGG
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
15 2 0.06
16 12 0.39
17 15 0.48
18 2 0.06
ACGTcount: A:0.56, C:0.06, G:0.31, T:0.07
Consensus pattern (17 bp):
AAGAAACAATGGGGAAG
Found at i:8156374 original size:21 final size:21
Alignment explanation
Indices: 8156350--8156394 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
8156340 TGTAGATCAT
8156350 ACATGTTAAGTTTGTCATGTA
1 ACATGTTAAGTTTGTCATGTA
8156371 ACATGTTAAGTTTGTCATGTA
1 ACATGTTAAGTTTGTCATGTA
8156392 ACA
1 ACA
8156395 CCCTATACCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.31, C:0.11, G:0.18, T:0.40
Consensus pattern (21 bp):
ACATGTTAAGTTTGTCATGTA
Found at i:8158910 original size:2 final size:2
Alignment explanation
Indices: 8158903--8158933 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
8158893 TTAGCCTAAC
8158903 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8158934 GTTAACTATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8162870 original size:18 final size:18
Alignment explanation
Indices: 8162847--8162895 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
8162837 CTATGTGCTG
*
8162847 GGCTGTGTGGACCACCCA
1 GGCTGTGTGGACCACACA
*
8162865 GGCTGTGTGAATCCACACA
1 GGCTGTGTGGA-CCACACA
8162884 GGCATGTG-GGAC
1 GGC-TGTGTGGAC
8162896 AAAATCCTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 11 0.42
19 11 0.42
20 4 0.15
ACGTcount: A:0.20, C:0.27, G:0.35, T:0.18
Consensus pattern (18 bp):
GGCTGTGTGGACCACACA
Found at i:8163443 original size:16 final size:16
Alignment explanation
Indices: 8163422--8163452 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
8163412 CTATTCTGCA
8163422 TTTGTATCTGATCTGT
1 TTTGTATCTGATCTGT
*
8163438 TTTGTATCTTATCTG
1 TTTGTATCTGATCTG
8163453 AATTGTTATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.13, C:0.13, G:0.16, T:0.58
Consensus pattern (16 bp):
TTTGTATCTGATCTGT
Found at i:8168581 original size:7 final size:7
Alignment explanation
Indices: 8168571--8168599 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
8168561 AAAAACGAAG
8168571 AAAAAGA
1 AAAAAGA
8168578 AAAAAGA
1 AAAAAGA
8168585 AAAAAG-
1 AAAAAGA
8168591 AAAAAGA
1 AAAAAGA
8168598 AA
1 AA
8168600 GACAATATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.29
7 15 0.71
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:8168584 original size:13 final size:14
Alignment explanation
Indices: 8168571--8168599 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
8168561 AAAAACGAAG
8168571 AAAAAGAAAAAAGA
1 AAAAAGAAAAAAGA
8168585 AAAAAG-AAAAAGA
1 AAAAAGAAAAAAGA
8168598 AA
1 AA
8168600 GACAATATAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (14 bp):
AAAAAGAAAAAAGA
Found at i:8172470 original size:678 final size:680
Alignment explanation
Indices: 8171160--8172518 Score: 2704
Period size: 678 Copynumber: 2.0 Consensus size: 680
8171150 ACTTTTTAGG
8171160 ATAATTTAGATTAATTTTAGATAAATAGTTTTTATTTTTTATTTTTATTTTATCTTGTAGTTTGG
1 ATAATTTAGATTAATTTTAGATAAATAGTTTTTATTTTTTATTTTTATTTTATCTTGTAGTTTGG
8171225 TTAAATCATTAAGTTCTCTTAAGGTTTTCTACTATAAATGAGAAGTTAATTTGCATGAGAAATGG
66 TTAAATCATTAAGTTCTCTTAAGGTTTTCTACTATAAATGAGAAGTTAATTTGCATGAGAAATGG
8171290 GCAAAAAGAAAAGGAAAGCACAGAAAATCCTATTCAAAATTCGAGGTCCTTAACTCAAAATTTTC
131 GCAAAAAGAAAAGGAAAGCACAGAAAATCCTATTCAAAATTCGAGGTCCTTAACTCAAAATTTTC
8171355 CCTTTTCTCTTTTTCCATCTTTTGCCTTAATTTTTTTTAGCTAATTATTATCCAATAATCTTTTG
196 CCTTTTCTCTTTTTCCATCTTTTGCCTTAATTTTTTTTAGCTAATTATTATCCAATAATCTTTTG
8171420 AAGTTTTCGTCGCAAGCAATGGAAGTGCTTTAAGTTCTTTGATGACGGAATGTGCTAATATATAA
261 AAGTTTTCGTCGCAAGCAATGGAAGTGCTTTAAGTTCTTTGATGACGGAATGTGCTAATATATAA
8171485 AAAAAAAAAATGAAAGACTATTCTAATCTCTTTTTTTTTTTCAATTTAATTGAACTTTGAAAATT
326 AAAAAAAAAATGAAAGACTATTCTAATCTCTTTTTTTTTTTCAATTTAATTGAACTTTGAAAATT
8171550 CAATTTAAATATGAGCTTCTCATTTTAATTCTTCTTTACTTTTTAAAATATCAATTTTAATCCTT
391 CAATTTAAATATGAGCTTCTCATTTTAATTCTTCTTTACTTTTTAAAATATCAATTTTAATCCTT
8171615 CAAATTCTTTTGAAACTCTTAAAAGTTTTCAAATTGTAAAAGTGCTCACCATATCACTTTGTTTC
456 CAAATTCTTTTGAAACTCTTAAAAGTTTTCAAATTGTAAAAGTGCTCACCATATCACTTTGTTTC
8171680 CCATATTGTCCTTAATTTTAAGATTTAATATTTTATATATCTTGGTAAAGTCAATTTTATTTCCA
521 CCATATTGTCCTTAATTTTAAGATTTAATATTTTATATATCTTGGTAAAGTCAATTTTATTTCCA
8171745 ATTTTTTATTGATGTATGTATATAATGTATATCGTTTTTTATGCATGTATGATTGGTACGATTAA
586 ATTTTTTATTGATGTATGTATATAATGTATATCGTTTTTTATGCATGTATGATTGGTACGATTAA
8171810 TATGTACAGTATAAATATGGTTCATTTATA
651 TATGTACAGTATAAATATGGTTCATTTATA
8171840 ATAATTTAGA-T-ATTTTAGATAAATAGTTTTTATTTTTTATTTTTATTTTATCTTGTAGTTTGG
1 ATAATTTAGATTAATTTTAGATAAATAGTTTTTATTTTTTATTTTTATTTTATCTTGTAGTTTGG
8171903 TTAAATCATTAAGTTCTCTTAAGGTTTTCTACTATAAATGAGAAGTTAATTTGCATGAGAAATGG
66 TTAAATCATTAAGTTCTCTTAAGGTTTTCTACTATAAATGAGAAGTTAATTTGCATGAGAAATGG
8171968 GCAAAAAGAAAAGGAAAGCACAGAAAATCCTATTCAAAATTCGAGGTCCTTAACTCAAAATTTTC
131 GCAAAAAGAAAAGGAAAGCACAGAAAATCCTATTCAAAATTCGAGGTCCTTAACTCAAAATTTTC
8172033 CCTTTTCTCTTTTTCCATCTTTTGCCTTAATTTTTTTTAGCTAATTATTATCCAATAATCTTTTG
196 CCTTTTCTCTTTTTCCATCTTTTGCCTTAATTTTTTTTAGCTAATTATTATCCAATAATCTTTTG
8172098 AAGTTTTCGTCGCAAGCAATGGAAGTGCTTTAAGTTCTTTGATGACGGAATGTGCTAATATATAA
261 AAGTTTTCGTCGCAAGCAATGGAAGTGCTTTAAGTTCTTTGATGACGGAATGTGCTAATATATAA
8172163 AAAAAAAAAATGAAAGACTATTCTAATCTCTTTTTTTTTTTCAATTTAATTGAACTTTGAAAATT
326 AAAAAAAAAATGAAAGACTATTCTAATCTCTTTTTTTTTTTCAATTTAATTGAACTTTGAAAATT
8172228 CAATTTAAATATGAGCTTCTCATTTTAATTCTTCTTTACTTTTTAAAATATCAATTTTAATCCTT
391 CAATTTAAATATGAGCTTCTCATTTTAATTCTTCTTTACTTTTTAAAATATCAATTTTAATCCTT
8172293 CAAATTCTTTTGAAACTCTTAAAAGTTTTCAAATTGTAAAAGTGCTCACCATATCACTTTGTTTC
456 CAAATTCTTTTGAAACTCTTAAAAGTTTTCAAATTGTAAAAGTGCTCACCATATCACTTTGTTTC
8172358 CCATATTGTCCTTAATTTTAAGATTTAATATTTTATATATCTTGGTAAAGTCAATTTTATTTCCA
521 CCATATTGTCCTTAATTTTAAGATTTAATATTTTATATATCTTGGTAAAGTCAATTTTATTTCCA
8172423 ATTTTTTATTGATGTATGTATATAATGTATATCGTTTTTTATGCATGTATGATTGGTACGATTAA
586 ATTTTTTATTGATGTATGTATATAATGTATATCGTTTTTTATGCATGTATGATTGGTACGATTAA
8172488 TATGTACAGTATAAATATGGTTCATTTATA
651 TATGTACAGTATAAATATGGTTCATTTATA
8172518 A
1 A
8172519 CTGTCAATTT
Statistics
Matches: 679, Mismatches: 0, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
678 668 0.98
679 1 0.00
680 10 0.01
ACGTcount: A:0.32, C:0.12, G:0.11, T:0.44
Consensus pattern (680 bp):
ATAATTTAGATTAATTTTAGATAAATAGTTTTTATTTTTTATTTTTATTTTATCTTGTAGTTTGG
TTAAATCATTAAGTTCTCTTAAGGTTTTCTACTATAAATGAGAAGTTAATTTGCATGAGAAATGG
GCAAAAAGAAAAGGAAAGCACAGAAAATCCTATTCAAAATTCGAGGTCCTTAACTCAAAATTTTC
CCTTTTCTCTTTTTCCATCTTTTGCCTTAATTTTTTTTAGCTAATTATTATCCAATAATCTTTTG
AAGTTTTCGTCGCAAGCAATGGAAGTGCTTTAAGTTCTTTGATGACGGAATGTGCTAATATATAA
AAAAAAAAAATGAAAGACTATTCTAATCTCTTTTTTTTTTTCAATTTAATTGAACTTTGAAAATT
CAATTTAAATATGAGCTTCTCATTTTAATTCTTCTTTACTTTTTAAAATATCAATTTTAATCCTT
CAAATTCTTTTGAAACTCTTAAAAGTTTTCAAATTGTAAAAGTGCTCACCATATCACTTTGTTTC
CCATATTGTCCTTAATTTTAAGATTTAATATTTTATATATCTTGGTAAAGTCAATTTTATTTCCA
ATTTTTTATTGATGTATGTATATAATGTATATCGTTTTTTATGCATGTATGATTGGTACGATTAA
TATGTACAGTATAAATATGGTTCATTTATA
Found at i:8172800 original size:24 final size:24
Alignment explanation
Indices: 8172773--8172827 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
8172763 TAACATTATT
*
8172773 TGTATATTGTCATATGTATTTTTA
1 TGTATATTGTCATATATATTTTTA
* * * *
8172797 TGTACATTTTCATGTATATTTTTG
1 TGTATATTGTCATATATATTTTTA
8172821 TGTATAT
1 TGTATAT
8172828 AATTTCATTT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.24, C:0.05, G:0.13, T:0.58
Consensus pattern (24 bp):
TGTATATTGTCATATATATTTTTA
Found at i:8172824 original size:12 final size:12
Alignment explanation
Indices: 8172789--8172827 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
8172779 TTGTCATATG
8172789 TATTTTTATGTA
1 TATTTTTATGTA
* *
8172801 CATTTTCATGTA
1 TATTTTTATGTA
*
8172813 TATTTTTGTGTA
1 TATTTTTATGTA
8172825 TAT
1 TAT
8172828 AATTTCATTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.23, C:0.05, G:0.10, T:0.62
Consensus pattern (12 bp):
TATTTTTATGTA
Found at i:8177479 original size:40 final size:40
Alignment explanation
Indices: 8177416--8177514 Score: 146
Period size: 40 Copynumber: 2.5 Consensus size: 40
8177406 TTATACTCTT
* **
8177416 TGTCTGGTGTGTTTCAATTGGATTAGCTCTTATGAGCTTC
1 TGTCTGGCGTGTTTCGGTTGGATTAGCTCTTATGAGCTTC
*
8177456 TGTTTGGCGTGTTTCGGTTGGATTAGCTCTTATGAGCTTC
1 TGTCTGGCGTGTTTCGGTTGGATTAGCTCTTATGAGCTTC
*
8177496 TGTCTGGTGTG-TTCGGTTG
1 TGTCTGGCGTGTTTCGGTTG
8177515 ATCTGACTAT
Statistics
Matches: 53, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
39 8 0.15
40 45 0.85
ACGTcount: A:0.10, C:0.14, G:0.30, T:0.45
Consensus pattern (40 bp):
TGTCTGGCGTGTTTCGGTTGGATTAGCTCTTATGAGCTTC
Found at i:8179052 original size:13 final size:13
Alignment explanation
Indices: 8179034--8179064 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
8179024 GGCACTGGCA
8179034 TGTGTCTCAGCCG
1 TGTGTCTCAGCCG
8179047 TGTGTCTCAGCCG
1 TGTGTCTCAGCCG
8179060 TGTGT
1 TGTGT
8179065 GACACATGGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.06, C:0.26, G:0.32, T:0.35
Consensus pattern (13 bp):
TGTGTCTCAGCCG
Found at i:8184523 original size:50 final size:50
Alignment explanation
Indices: 8184409--8184690 Score: 280
Period size: 50 Copynumber: 5.6 Consensus size: 50
8184399 GCCGCAAAGG
* * *
8184409 CTTTCCAGAAAACTTCGCCACTAAGGCTTCCCAAATAATATGCCACCATAGGC
1 CTTT-CAGATAAC-TCGCCACAAAGGCTTTCCAAATAATATGCCA-CATAGGC
* * * * * *
8184462 CTTTCAAATAACTCGTCATAAAGCCTTTCCAGATAATATGCCACATATGC
1 CTTTCAGATAACTCGCCACAAAGGCTTTCCAAATAATATGCCACATAGGC
* * *
8184512 CTTTCAGATAACTCACCACAAAGGCTTTCCAGATAATATGCAACATAGGC
1 CTTTCAGATAACTCGCCACAAAGGCTTTCCAAATAATATGCCACATAGGC
* * * *
8184562 CTCTT-AGATAGCTCACTACAAAGGCTTTCCAAATAATATGTCACATAGGC
1 CT-TTCAGATAACTCGCCACAAAGGCTTTCCAAATAATATGCCACATAGGC
* * * * *
8184612 CTCTCAAATAACTTGCCCACAAATGCTTTCTAAATAATATGCCACATAGGC
1 CTTTCAGATAACTCG-CCACAAAGGCTTTCCAAATAATATGCCACATAGGC
* * *
8184663 CTATT-TGAAAACTCGCCATAAAGGCTTT
1 CT-TTCAGATAACTCGCCACAAAGGCTTT
8184691 GTTTGGTTTG
Statistics
Matches: 188, Mismatches: 37, Indels: 11
0.80 0.16 0.05
Matches are distributed among these distances:
49 1 0.01
50 110 0.59
51 66 0.35
52 7 0.04
53 4 0.02
ACGTcount: A:0.34, C:0.27, G:0.12, T:0.27
Consensus pattern (50 bp):
CTTTCAGATAACTCGCCACAAAGGCTTTCCAAATAATATGCCACATAGGC
Found at i:8184561 original size:25 final size:25
Alignment explanation
Indices: 8184486--8184561 Score: 77
Period size: 25 Copynumber: 3.0 Consensus size: 25
8184476 GTCATAAAGC
*
8184486 CTTTCCAGATAATATGCCACATATGC
1 CTTTCCAGATAATATGCCACATA-GG
*
8184512 CTTT-CAGATAACTCA--CCACAAAGG
1 CTTTCCAGATAA-T-ATGCCACATAGG
*
8184536 CTTTCCAGATAATATGCAACATAGG
1 CTTTCCAGATAATATGCCACATAGG
8184561 C
1 C
8184562 CTCTTAGATA
Statistics
Matches: 41, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
23 1 0.02
24 6 0.15
25 28 0.68
26 5 0.12
27 1 0.02
ACGTcount: A:0.34, C:0.26, G:0.13, T:0.26
Consensus pattern (25 bp):
CTTTCCAGATAATATGCCACATAGG
Found at i:8184607 original size:100 final size:101
Alignment explanation
Indices: 8184426--8184664 Score: 261
Period size: 101 Copynumber: 2.4 Consensus size: 101
8184416 GAAAACTTCG
* * * * * * *
8184426 CCACTAAGGCTTCCCAAATAATATGCCACCATAGGCCT-TTCAAATAACTC-GTCATAAAGCCTT
1 CCACAAAGGCTTTCCAAATAATATG-CAACATAGGCCTCTT-AGATAGCTCACT-ACAAAGCCTT
* * * *
8184489 TCCAGATAATATGCCACATATGCCTTTCAGATAAC-T-C
63 TCCAAATAATATGCCACATAGGCCTCTCAAATAACTTGC
* *
8184526 ACCACAAAGGCTTTCCAGATAATATGCAACATAGGCCTCTTAGATAGCTCACTACAAAGGCTTTC
1 -CCACAAAGGCTTTCCAAATAATATGCAACATAGGCCTCTTAGATAGCTCACTACAAAGCCTTTC
*
8184591 CAAATAATATGTCACATAGGCCTCTCAAATAACTTGC
65 CAAATAATATGCCACATAGGCCTCTCAAATAACTTGC
* * *
8184628 CCACAAATGCTTTCTAAATAATATGCCACATAGGCCT
1 CCACAAAGGCTTTCCAAATAATATGCAACATAGGCCT
8184665 ATTTGAAAAC
Statistics
Matches: 116, Mismatches: 18, Indels: 8
0.82 0.13 0.06
Matches are distributed among these distances:
100 56 0.48
101 59 0.51
102 1 0.01
ACGTcount: A:0.34, C:0.27, G:0.12, T:0.26
Consensus pattern (101 bp):
CCACAAAGGCTTTCCAAATAATATGCAACATAGGCCTCTTAGATAGCTCACTACAAAGCCTTTCC
AAATAATATGCCACATAGGCCTCTCAAATAACTTGC
Found at i:8184611 original size:25 final size:25
Alignment explanation
Indices: 8184583--8184662 Score: 74
Period size: 25 Copynumber: 3.2 Consensus size: 25
8184573 CTCACTACAA
*
8184583 AGGCTTTCCAAATAATATGTCACAT
1 AGGCTTTCCAAATAATATGCCACAT
* *
8184608 AGGC-CTCTCAAATAACT-TGCCCACAA
1 AGGCTTTC-CAAATAA-TATG-CCACAT
* *
8184634 ATGCTTTCTAAATAATATGCCACAT
1 AGGCTTTCCAAATAATATGCCACAT
8184659 AGGC
1 AGGC
8184663 CTATTTGAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 10
0.70 0.13 0.17
Matches are distributed among these distances:
24 2 0.05
25 22 0.52
26 16 0.38
27 2 0.05
ACGTcount: A:0.35, C:0.25, G:0.12, T:0.28
Consensus pattern (25 bp):
AGGCTTTCCAAATAATATGCCACAT
Found at i:8191990 original size:17 final size:17
Alignment explanation
Indices: 8191964--8191999 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
8191954 TTATTTCATA
8191964 TTTTAAGTTTTATTAAT
1 TTTTAAGTTTTATTAAT
* *
8191981 TTTTAGGTTTTATTTAT
1 TTTTAAGTTTTATTAAT
8191998 TT
1 TT
8192000 ACCAAATTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.69
Consensus pattern (17 bp):
TTTTAAGTTTTATTAAT
Found at i:8192032 original size:3 final size:3
Alignment explanation
Indices: 8192024--8192068 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
8192014 GATTGGTTTT
8192024 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
8192069 TGCCTATAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:8195976 original size:19 final size:19
Alignment explanation
Indices: 8195952--8196005 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
8195942 TACGGGATTG
8195952 CACTTCGGTGCCTCTATTA
1 CACTTCGGTGCCTCTATTA
8195971 CACTTCGGTGCCTCTATTA
1 CACTTCGGTGCCTCTATTA
*
8195990 CACTTTGGTGCCTCTA
1 CACTTCGGTGCCTCTA
8196006 ATTGCACAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.15, C:0.31, G:0.17, T:0.37
Consensus pattern (19 bp):
CACTTCGGTGCCTCTATTA
Found at i:8199196 original size:12 final size:12
Alignment explanation
Indices: 8199160--8199200 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
8199150 ACCATTTTTT
8199160 AAACA-AAAAGA
1 AAACAGAAAAGA
8199171 CAAA-AGAAAA-A
1 -AAACAGAAAAGA
8199182 AAACAGAAAAGA
1 AAACAGAAAAGA
8199194 AAACAGA
1 AAACAGA
8199201 GAACCGAATG
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
10 3 0.12
11 8 0.31
12 15 0.58
ACGTcount: A:0.78, C:0.10, G:0.12, T:0.00
Consensus pattern (12 bp):
AAACAGAAAAGA
Found at i:8200314 original size:43 final size:43
Alignment explanation
Indices: 8200223--8200305 Score: 114
Period size: 43 Copynumber: 1.9 Consensus size: 43
8200213 CATGGTTTAG
*
8200223 CACACGACCTGCGACATGGCCATGTGGCCCTATTTCGAATACA
1 CACACGACCTGCGACAAGGCCATGTGGCCCTATTTCGAATACA
* * *
8200266 CACACGAGCTGGGACAAGGCCATGTGTCCCTACTTT-GAAT
1 CACACGACCTGCGACAAGGCCATGTGGCCCTA-TTTCGAAT
8200306 GTCCACACGG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
43 32 0.91
44 3 0.09
ACGTcount: A:0.25, C:0.30, G:0.23, T:0.22
Consensus pattern (43 bp):
CACACGACCTGCGACAAGGCCATGTGGCCCTATTTCGAATACA
Found at i:8200843 original size:50 final size:52
Alignment explanation
Indices: 8200768--8200908 Score: 143
Period size: 51 Copynumber: 2.8 Consensus size: 52
8200758 TTTATTTAGT
* *
8200768 ATTTATCTCTT-ATTAACTT-AATTAATTAGAGATAAAATAATCA-TTTAAT-
1 ATTTATCACTTAATTAATTTAAATTAATTAGAGATAAAATAAT-ATTTTAATG
* ** * * *
8200817 A-TTATCACTTAATTATTTTATTTTAATTAGTGATAATATAA-ATTTTTATG
1 ATTTATCACTTAATTAATTTAAATTAATTAGAGATAAAATAATATTTTAATG
*
8200867 ATTTATCTCTTAATTAATTTAAATTAATTAGAGA-AAAATAAT
1 ATTTATCACTTAATTAATTTAAATTAATTAGAGATAAAATAAT
8200909 TATAACACAT
Statistics
Matches: 72, Mismatches: 14, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
48 9 0.12
49 12 0.17
50 24 0.33
51 27 0.38
ACGTcount: A:0.42, C:0.06, G:0.05, T:0.48
Consensus pattern (52 bp):
ATTTATCACTTAATTAATTTAAATTAATTAGAGATAAAATAATATTTTAATG
Found at i:8203428 original size:40 final size:40
Alignment explanation
Indices: 8203266--8203421 Score: 240
Period size: 40 Copynumber: 3.9 Consensus size: 40
8203256 ATAAAAAAGA
* *
8203266 CGCTATAGATTGAGCATTAGCGGCGCTTTTCGAAAAACGC
1 CGCTATAGATCGAGCATTAGCGGCGCTTTTTGAAAAACGC
* * * *
8203306 CTCTATAGATCGAGCATTAACGGTGCTTTTTGAAAAATGC
1 CGCTATAGATCGAGCATTAGCGGCGCTTTTTGAAAAACGC
*
8203346 CGCTATAGATCGAGCATTAGCGGCGCGTTTTGAAAAACGC
1 CGCTATAGATCGAGCATTAGCGGCGCTTTTTGAAAAACGC
*
8203386 CGCTATAGATAGAGCATTAGCGGCGCTTTTTGAAAA
1 CGCTATAGATCGAGCATTAGCGGCGCTTTTTGAAAA
8203422 TTGCCGCAAA
Statistics
Matches: 103, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 103 1.00
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (40 bp):
CGCTATAGATCGAGCATTAGCGGCGCTTTTTGAAAAACGC
Found at i:8203519 original size:40 final size:40
Alignment explanation
Indices: 8203463--8203800 Score: 262
Period size: 40 Copynumber: 8.6 Consensus size: 40
8203453 AGCTTTAGTG
* *
8203463 GCATTAGCGGCTCTTTTTGAAAAACGCCGCTATAGATTGA
1 GCATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCGA
* **
8203503 GCATTAGCGGCACTTTTTGAAAAACGTTGCTATAGATCGA
1 GCATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCGA
* *
8203543 GAATTAGCGACGCTTTTTGAAAAACGCCGCTATAGATCGA
1 GCATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCGA
* * ** * * * * **
8203583 TCTTTAATGGCGCTTTTTGAAAAGCGCCGCAAAAAAATTAA
1 GCATTAGCGGCGCTTTTTGAAAAACGCCGC-TATAGATCGA
* * * * ** * *
8203624 GCA-CAACGTCATCTTTTATG----TTG-AGCTTTAG-T-G-
1 GCATTAGCGGC-GCTTTT-TGAAAAACGCCGCTATAGATCGA
* **
8203657 GCATTAGCGGTGCTTTTTGAAAAACAACGCTATAGATCGA
1 GCATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCGA
8203697 GCATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCGA
1 GCATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCGA
* * * * * *
8203737 ACATTAGCGACGTTTTTTTAAAAAACGGCGTTATAGATCGA
1 GCATTAGCGGCG-CTTTTTGAAAAACGCCGCTATAGATCGA
*
8203778 GCTTTAGCGGCGCTTTTTGAAAA
1 GCATTAGCGGCGCTTTTTGAAAA
8203801 TCACCGCAAA
Statistics
Matches: 226, Mismatches: 59, Indels: 26
0.73 0.19 0.08
Matches are distributed among these distances:
32 2 0.01
33 8 0.04
34 3 0.01
35 1 0.00
36 1 0.00
37 8 0.04
38 2 0.01
39 1 0.00
40 154 0.68
41 44 0.19
42 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (40 bp):
GCATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCGA
Found at i:8203597 original size:184 final size:186
Alignment explanation
Indices: 8203279--8203860 Score: 731
Period size: 184 Copynumber: 3.1 Consensus size: 186
8203269 TATAGATTGA
* * * * * *
8203279 GCATTAGCGGCGCTTTTCGAAAAACGCCTCTATAGATCGAGCATTAACGGTGCTTTTTGAAAAAT
1 GCATTAGCGGCTCTTTTTGAAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTGAAAAAC
* * * * *
8203344 GCCGCTATAGATCGAGCATTAGCGGCGCGTTTTGAAAAACGCCGCTATAGATAGAGCATTAGCGG
66 GCCGCTATAGATCGAGAATTAGCGACGCTTTTTGAAAAACGCCGCTATAGATCGAGCTTTAGCGG
*
8203409 CGCTTTTTGAAAATTGCCGC-AAAAAATTAAGCACA-TTTATGTTGAGCTTTAGTG
131 CGCTTTTTGAAAATCGCCGCAAAAAAATTAAGCACACTTTATGTTGAGCTTTAGTG
* *
8203463 GCATTAGCGGCTCTTTTTGAAAAACGCCGCTATAGATTGAGCATTAGCGGCACTTTTTGAAAAAC
1 GCATTAGCGGCTCTTTTTGAAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTGAAAAAC
** * **
8203528 GTTGCTATAGATCGAGAATTAGCGACGCTTTTTGAAAAACGCCGCTATAGATCGATCTTTAATGG
66 GCCGCTATAGATCGAGAATTAGCGACGCTTTTTGAAAAACGCCGCTATAGATCGAGCTTTAGCGG
*
8203593 CGCTTTTTGAAAAGCGCCGCAAAAAAATTAAGCACAACGTCATCTTTTATGTTGAGCTTTAGTG
131 CGCTTTTTGAAAATCGCCGCAAAAAAATTAAG--C-A---CA-C-TTTATGTTGAGCTTTAGTG
**
8203657 GCATTAGCGG-TGCTTTTTGAAAAACAACGCTATAGATCGAGCATTAGCGGCGCTTTTTGAAAAA
1 GCATTAGCGGCT-CTTTTTGAAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTGAAAAA
* * * *
8203721 CGCCGCTATAGATCGA-ACATTAGCGACGTTTTTTTAAAAAACGGCGTTATAGATCGAGCTTTAG
65 CGCCGCTATAGATCGAGA-ATTAGCGACG-CTTTTTGAAAAACGCCGCTATAGATCGAGCTTTAG
* *
8203785 CGGCGCTTTTTGAAAATCACCGCAAAAAAATTAAACACAACGCGGTTTTATGTTGAGCTTTAGTG
128 CGGCGCTTTTTGAAAATCGCCGCAAAAAAATTAAGCAC-A--C---TTTATGTTGAGCTTTAGTG
8203850 GCATTAGCGGC
1 GCATTAGCGGC
8203861 GCTTATAGAT
Statistics
Matches: 343, Mismatches: 37, Indels: 26
0.84 0.09 0.06
Matches are distributed among these distances:
184 130 0.38
185 11 0.03
187 1 0.00
188 1 0.00
189 1 0.00
190 1 0.00
191 3 0.01
192 1 0.00
193 33 0.10
194 101 0.29
195 60 0.17
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (186 bp):
GCATTAGCGGCTCTTTTTGAAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTGAAAAAC
GCCGCTATAGATCGAGAATTAGCGACGCTTTTTGAAAAACGCCGCTATAGATCGAGCTTTAGCGG
CGCTTTTTGAAAATCGCCGCAAAAAAATTAAGCACACTTTATGTTGAGCTTTAGTG
Found at i:8204220 original size:7 final size:7
Alignment explanation
Indices: 8204199--8204315 Score: 69
Period size: 7 Copynumber: 16.4 Consensus size: 7
8204189 TTAATTATCA
*
8204199 TTATAGT
1 TTATGGT
*
8204206 TTAGGGT
1 TTATGGT
8204213 TTATGGT
1 TTATGGT
*
8204220 TTAGGGT
1 TTATGGT
*
8204227 ATATGGT
1 TTATGGT
*
8204234 TTAAGGT
1 TTATGGT
*
8204241 TTAAGGT
1 TTATGGT
*
8204248 TTAAGAGT
1 TTATG-GT
8204256 TACTAT--T
1 T--TATGGT
*
8204263 TTAAGGT
1 TTATGGT
*
8204270 TTATGGA
1 TTATGGT
8204277 TTATGGGT
1 TTAT-GGT
*
8204285 TTA-GAGA
1 TTATG-GT
8204292 TTATGGT
1 TTATGGT
8204299 TTATGGT
1 TTATGGT
*
8204306 TTATAGT
1 TTATGGT
8204313 TTA
1 TTA
8204316 AGGATTGGGG
Statistics
Matches: 86, Mismatches: 16, Indels: 16
0.73 0.14 0.14
Matches are distributed among these distances:
5 2 0.02
6 1 0.01
7 72 0.84
8 9 0.10
10 2 0.02
ACGTcount: A:0.25, C:0.01, G:0.26, T:0.48
Consensus pattern (7 bp):
TTATGGT
Found at i:8204221 original size:14 final size:14
Alignment explanation
Indices: 8204199--8204400 Score: 92
Period size: 14 Copynumber: 14.2 Consensus size: 14
8204189 TTAATTATCA
*
8204199 TTATAGTTTAGGGT
1 TTATGGTTTAGGGT
8204213 TTATGGTTTAGGGT
1 TTATGGTTTAGGGT
* *
8204227 ATATGGTTTAAGGT
1 TTATGGTTTAGGGT
* *
8204241 TTAAGGTTTAAGAGT
1 TTATGGTTT-AGGGT
*
8204256 TACTAT--TTTAAGGT
1 T--TATGGTTTAGGGT
*
8204270 TTATGGATTATGGGT
1 TTATGGTTTA-GGGT
* *
8204285 TTA-GAGATTATGGT
1 TTATG-GTTTAGGGT
**
8204299 TTATGGTTTATAGT
1 TTATGGTTTAGGGT
* * *
8204313 TTAAGGATTGGGGT
1 TTATGGTTTAGGGT
8204327 TTAAT-GTTTAAGGG-
1 TT-ATGGTTT-AGGGT
*
8204341 TTAGTGGTTAAGGG-
1 TTA-TGGTTTAGGGT
*
8204355 TTAGGGGTTTAGGGT
1 TTA-TGGTTTAGGGT
* * *
8204370 TTAGGGTTTATGTT
1 TTATGGTTTAGGGT
* *
8204384 TTATGATTCAGGGT
1 TTATGGTTTAGGGT
8204398 TTA
1 TTA
8204401 GGGGATAAGG
Statistics
Matches: 142, Mismatches: 33, Indels: 26
0.71 0.16 0.13
Matches are distributed among these distances:
12 3 0.02
13 1 0.01
14 107 0.75
15 29 0.20
17 2 0.01
ACGTcount: A:0.23, C:0.01, G:0.31, T:0.46
Consensus pattern (14 bp):
TTATGGTTTAGGGT
Found at i:8204378 original size:7 final size:7
Alignment explanation
Indices: 8204204--8204403 Score: 66
Period size: 7 Copynumber: 28.1 Consensus size: 7
8204194 TATCATTATA
8204204 GTTTAGG
1 GTTTAGG
*
8204211 GTTTATG
1 GTTTAGG
8204218 GTTTAGG
1 GTTTAGG
* *
8204225 GTATATG
1 GTTTAGG
*
8204232 GTTTAAG
1 GTTTAGG
*
8204239 GTTTAAG
1 GTTTAGG
*
8204246 GTTTAAGA
1 GTTT-AGG
8204254 GTTACTA--
1 GTT--TAGG
* *
8204261 TTTTAAG
1 GTTTAGG
*
8204268 GTTTATG
1 GTTTAGG
*
8204275 GATTATGG
1 GTTTA-GG
*
8204283 GTTTAGA
1 GTTTAGG
* *
8204290 GATTATG
1 GTTTAGG
*
8204297 GTTTATG
1 GTTTAGG
**
8204304 GTTTATA
1 GTTTAGG
*
8204311 GTTTAAG
1 GTTTAGG
* *
8204318 GATTGGG
1 GTTTAGG
**
8204325 GTTTAAT
1 GTTTAGG
8204332 GTTTAAGG
1 GTTT-AGG
8204340 G-TTAGTG
1 GTTTAG-G
*
8204347 GTTAAGG
1 GTTTAGG
8204354 G-TTAGGG
1 GTTTA-GG
8204361 GTTTAGG
1 GTTTAGG
8204368 GTTTAGG
1 GTTTAGG
*
8204375 GTTTATG
1 GTTTAGG
* *
8204382 TTTTATG
1 GTTTAGG
* *
8204389 ATTCAGG
1 GTTTAGG
8204396 GTTTAGG
1 GTTTAGG
8204403 G
1 G
8204404 GATAAGGGAT
Statistics
Matches: 142, Mismatches: 40, Indels: 22
0.70 0.20 0.11
Matches are distributed among these distances:
5 2 0.01
6 4 0.03
7 117 0.82
8 17 0.12
9 1 0.01
10 1 0.01
ACGTcount: A:0.22, C:0.01, G:0.33, T:0.45
Consensus pattern (7 bp):
GTTTAGG
Found at i:8210213 original size:43 final size:43
Alignment explanation
Indices: 8210150--8210376 Score: 219
Period size: 43 Copynumber: 5.3 Consensus size: 43
8210140 TTTCATGACA
* * *
8210150 TTTAGCGGCGTTTTT-GGGAAAGTGTCGCTAAAAGTCATGTTC
1 TTTAGCTGCGTTTTTGGGGAAAGCGTCGCTAAAGGTCATGTTC
* * * * *
8210192 TTCAGCTGCATTTTAGGGGAAAGCG-CTGCCT-AAGGTTATGTTT
1 TTTAGCTGCGTTTTTGGGGAAAGCGTC-G-CTAAAGGTCATGTTC
* * *
8210235 TTTAGCTGCGTTTTTGGGGAAAGCGCCGTTAAAGGTTATGTTC
1 TTTAGCTGCGTTTTTGGGGAAAGCGTCGCTAAAGGTCATGTTC
*
8210278 TTTAG-TGGCGTTTTTGGGGAAAGCGTCGCTAAATGTCATGTTC
1 TTTAGCT-GCGTTTTTGGGGAAAGCGTCGCTAAAGGTCATGTTC
* * * * * *
8210321 TTTAGCGGCGTTTTTTGGAAAAGCGCCACTAAATGTCATGTTC
1 TTTAGCTGCGTTTTTGGGGAAAGCGTCGCTAAAGGTCATGTTC
* *
8210364 TATAGCGGCGTTT
1 TTTAGCTGCGTTT
8210377 GTCCACATAA
Statistics
Matches: 155, Mismatches: 23, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
42 14 0.09
43 138 0.89
44 3 0.02
ACGTcount: A:0.20, C:0.15, G:0.28, T:0.36
Consensus pattern (43 bp):
TTTAGCTGCGTTTTTGGGGAAAGCGTCGCTAAAGGTCATGTTC
Found at i:8221975 original size:35 final size:35
Alignment explanation
Indices: 8221874--8221976 Score: 118
Period size: 35 Copynumber: 2.9 Consensus size: 35
8221864 AATCCACCTA
* * * *
8221874 AAACACACCAGATGCTCATACGAGCCAATCCCACCG
1 AAACACA-CAAATGCTCATAAGAGCTAATCCCTCCG
* * *
8221910 -TACACACCATTGCTCATAAGAGCTAATCCCTCCG
1 AAACACACAAATGCTCATAAGAGCTAATCCCTCCG
*
8221944 AAACACACAAATGTTCATAAGAGCTAATCCCTC
1 AAACACACAAATGCTCATAAGAGCTAATCCCTC
8221977 TAGAACACAC
Statistics
Matches: 55, Mismatches: 11, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
34 22 0.40
35 33 0.60
ACGTcount: A:0.36, C:0.34, G:0.12, T:0.18
Consensus pattern (35 bp):
AAACACACAAATGCTCATAAGAGCTAATCCCTCCG
Found at i:8226877 original size:17 final size:17
Alignment explanation
Indices: 8226855--8226888 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
8226845 AAATTCTTTC
8226855 GAAAACTTAATGCTACA
1 GAAAACTTAATGCTACA
8226872 GAAAACTTAATGCTACA
1 GAAAACTTAATGCTACA
8226889 AAATAAAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.18, G:0.12, T:0.24
Consensus pattern (17 bp):
GAAAACTTAATGCTACA
Found at i:8226898 original size:21 final size:21
Alignment explanation
Indices: 8226873--8226982 Score: 99
Period size: 21 Copynumber: 5.4 Consensus size: 21
8226863 AATGCTACAG
8226873 AAAACTTAATGCTACAAAATA
1 AAAACTTAATGCTACAAAATA
* *
8226894 AAAACTTAA-GCTTC-CAATA
1 AAAACTTAATGCTACAAAATA
* *
8226913 CATACAC-CAATGCATACAAAATA
1 -A-AAACTTAATGC-TACAAAATA
*
8226936 AAAACTTAATGCTAC---A-G
1 AAAACTTAATGCTACAAAATA
8226953 AAAACTTAATGCTACAAAATA
1 AAAACTTAATGCTACAAAATA
8226974 AAAACTTAA
1 AAAACTTAA
8226983 GCTTCCAATA
Statistics
Matches: 69, Mismatches: 10, Indels: 20
0.70 0.10 0.20
Matches are distributed among these distances:
17 15 0.22
18 1 0.01
19 4 0.06
20 8 0.12
21 29 0.42
22 8 0.12
23 4 0.06
ACGTcount: A:0.54, C:0.18, G:0.05, T:0.23
Consensus pattern (21 bp):
AAAACTTAATGCTACAAAATA
Found at i:8226935 original size:42 final size:41
Alignment explanation
Indices: 8226880--8227005 Score: 163
Period size: 38 Copynumber: 3.1 Consensus size: 41
8226870 CAGAAAACTT
8226880 AATGCTACAAAATAAAAACTTAAGCTTCCAATACATACACC
1 AATGCTACAAAATAAAAACTTAAGCTTCCAATACATACACC
* **
8226921 AATGCATACAAAATAAAAACTTAATGC-TACAGA-A-A-AC-TT
1 AATGC-TACAAAATAAAAACTTAA-GCTTCCA-ATACATACACC
8226960 AATGCTACAAAATAAAAACTTAAGCTTCCAATACATACACC
1 AATGCTACAAAATAAAAACTTAAGCTTCCAATACATACACC
8227001 AATGC
1 AATGC
8227006 ATCAGCGTCA
Statistics
Matches: 71, Mismatches: 6, Indels: 16
0.76 0.06 0.17
Matches are distributed among these distances:
37 3 0.04
38 22 0.31
39 6 0.08
40 4 0.06
41 11 0.15
42 22 0.31
43 3 0.04
ACGTcount: A:0.50, C:0.21, G:0.06, T:0.22
Consensus pattern (41 bp):
AATGCTACAAAATAAAAACTTAAGCTTCCAATACATACACC
Found at i:8226958 original size:17 final size:17
Alignment explanation
Indices: 8226936--8226968 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
8226926 ATACAAAATA
8226936 AAAACTTAATGCTACAG
1 AAAACTTAATGCTACAG
8226953 AAAACTTAATGCTACA
1 AAAACTTAATGCTACA
8226969 AAATAAAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.18, G:0.09, T:0.24
Consensus pattern (17 bp):
AAAACTTAATGCTACAG
Found at i:8226978 original size:38 final size:38
Alignment explanation
Indices: 8226856--8226982 Score: 159
Period size: 38 Copynumber: 3.2 Consensus size: 38
8226846 AATTCTTTCG
8226856 AAAACTTAATGCTACAGAAAACTTAATGCTACAAAATA
1 AAAACTTAATGCTACAGAAAACTTAATGCTACAAAATA
* **
8226894 AAAACTTAA-GCTTCCA-ATACATACACCAATGCATACAAAATA
1 AAAACTTAATGC-TACAGA-A-A-AC-TTAATGC-TACAAAATA
8226936 AAAACTTAATGCTACAGAAAACTTAATGCTACAAAATA
1 AAAACTTAATGCTACAGAAAACTTAATGCTACAAAATA
8226974 AAAACTTAA
1 AAAACTTAA
8226983 GCTTCCAATA
Statistics
Matches: 75, Mismatches: 6, Indels: 16
0.77 0.06 0.16
Matches are distributed among these distances:
37 3 0.04
38 31 0.41
39 6 0.08
40 4 0.05
41 6 0.08
42 22 0.29
43 3 0.04
ACGTcount: A:0.53, C:0.18, G:0.06, T:0.23
Consensus pattern (38 bp):
AAAACTTAATGCTACAGAAAACTTAATGCTACAAAATA
Found at i:8226989 original size:80 final size:80
Alignment explanation
Indices: 8226856--8227007 Score: 304
Period size: 80 Copynumber: 1.9 Consensus size: 80
8226846 AATTCTTTCG
8226856 AAAACTTAATGCTACAGAAAACTTAATGCTACAAAATAAAAACTTAAGCTTCCAATACATACACC
1 AAAACTTAATGCTACAGAAAACTTAATGCTACAAAATAAAAACTTAAGCTTCCAATACATACACC
8226921 AATGCATACAAAATA
66 AATGCATACAAAATA
8226936 AAAACTTAATGCTACAGAAAACTTAATGCTACAAAATAAAAACTTAAGCTTCCAATACATACACC
1 AAAACTTAATGCTACAGAAAACTTAATGCTACAAAATAAAAACTTAAGCTTCCAATACATACACC
8227001 AATGCAT
66 AATGCAT
8227008 CAGCGTCAGC
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
80 72 1.00
ACGTcount: A:0.50, C:0.20, G:0.07, T:0.23
Consensus pattern (80 bp):
AAAACTTAATGCTACAGAAAACTTAATGCTACAAAATAAAAACTTAAGCTTCCAATACATACACC
AATGCATACAAAATA
Found at i:8228357 original size:15 final size:15
Alignment explanation
Indices: 8228336--8228367 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
8228326 ATAAATGAAA
8228336 AATATATA-T-AATT
1 AATATATATTAAATT
8228349 AATATATATTAAATT
1 AATATATATTAAATT
8228364 AATA
1 AATA
8228368 ATAATACGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 8 0.47
14 1 0.06
15 8 0.47
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
AATATATATTAAATT
Found at i:8228632 original size:29 final size:29
Alignment explanation
Indices: 8228586--8228643 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
8228576 TAAAAATTAA
8228586 GACTCGTATTTCAAGTTAAGCTAGGCTTG
1 GACTCGTATTTCAAGTTAAGCTAGGCTTG
*
8228615 GACTCGTATTTCATGTTAAGCTAGGCTTG
1 GACTCGTATTTCAAGTTAAGCTAGGCTTG
8228644 AACAAATATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.22, C:0.17, G:0.24, T:0.36
Consensus pattern (29 bp):
GACTCGTATTTCAAGTTAAGCTAGGCTTG
Found at i:8229259 original size:7 final size:7
Alignment explanation
Indices: 8229247--8229436 Score: 59
Period size: 7 Copynumber: 26.7 Consensus size: 7
8229237 CTAGTTAATC
8229247 TAAACCA
1 TAAACCA
8229254 TAAACCA
1 TAAACCA
8229261 TAAACC-
1 TAAACCA
*
8229267 TAAACCT
1 TAAACCA
*
8229274 TAAAACCC
1 T-AAACCA
*
8229282 TAAACCC
1 TAAACCA
* *
8229289 TTAA-CG
1 TAAACCA
*
8229295 TATAACCTC
1 TA-AACC-A
*
8229304 TAAACCT
1 TAAACCA
8229311 TAAACC-
1 TAAACCA
** *
8229317 CCAACCTT
1 TAAACC-A
8229325 TAAACCA
1 TAAACCA
8229332 TAAACCA
1 TAAACCA
*
8229339 TAAATCA
1 TAAACCA
* *
8229346 TAACCCC
1 TAAACCA
*
8229353 TAAATGCA
1 TAAA-CCA
*
8229361 TAATCCA
1 TAAACCA
*
8229368 TAAACCT
1 TAAACCA
8229375 TAAA--A
1 TAAACCA
*
8229380 TAGTAGCTCA
1 TA--AAC-CA
*
8229390 TAAACCT
1 TAAACCA
8229397 TAAACTC-
1 TAAAC-CA
8229404 TAAACCA
1 TAAACCA
* *
8229411 TATACCC
1 TAAACCA
8229418 TAAACCA
1 TAAACCA
* *
8229425 AAAACCT
1 TAAACCA
8229432 TAAAC
1 TAAAC
8229437 TATAGTGATA
Statistics
Matches: 135, Mismatches: 33, Indels: 30
0.68 0.17 0.15
Matches are distributed among these distances:
5 2 0.01
6 13 0.10
7 93 0.69
8 22 0.16
9 2 0.01
10 3 0.02
ACGTcount: A:0.46, C:0.29, G:0.02, T:0.22
Consensus pattern (7 bp):
TAAACCA
Found at i:8229308 original size:29 final size:28
Alignment explanation
Indices: 8229245--8229342 Score: 76
Period size: 28 Copynumber: 3.5 Consensus size: 28
8229235 CACTAGTTAA
*
8229245 TCTAAACCATAAACCATAAACCTAAACC
1 TCTAAACCATAAACCCTAAACCTAAACC
* * *
8229273 T-TAAAACCCTAAACCCTTAACGTATAACC
1 TCT-AAACCATAAACCCTAAACCTA-AACC
* *
8229302 TCTAAACCTTAAACCC-CAACCTTTAAACC
1 TCTAAACCATAAACCCTAAACC--TAAACC
*
8229331 -ATAAACCATAAA
1 TCTAAACCATAAA
8229343 TCATAACCCC
Statistics
Matches: 56, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
27 1 0.02
28 31 0.55
29 21 0.38
30 3 0.05
ACGTcount: A:0.46, C:0.32, G:0.01, T:0.21
Consensus pattern (28 bp):
TCTAAACCATAAACCCTAAACCTAAACC
Found at i:8229820 original size:41 final size:41
Alignment explanation
Indices: 8229763--8229935 Score: 242
Period size: 41 Copynumber: 4.2 Consensus size: 41
8229753 CGCTAAAATA
* *
8229763 GAGCATTAGCGGCGCTTCTTCAAAAACACCGCTAAAGCCCT
1 GAGCATTAGCGACGCTTCTTCAAAAACGCCGCTAAAGCCCT
*
8229804 GAGCATTAGCGACGCTTCTTTAAAAACGCCGCTAAAGCCCT
1 GAGCATTAGCGACGCTTCTTCAAAAACGCCGCTAAAGCCCT
** * *
8229845 GAGCATTAGCGGTGCTTTTTCAAAAACGCTGCTAAAGACCC-
1 GAGCATTAGCGACGCTTCTTCAAAAACGCCGCTAAAG-CCCT
*
8229886 GAGCATTAGCGACGCTTCTT-AAAAAGCGCCGCTAAAACCCT
1 GAGCATTAGCGACGCTTCTTCAAAAA-CGCCGCTAAAGCCCT
8229927 GAGCATTAG
1 GAGCATTAG
8229936 TGCCGCTAAA
Statistics
Matches: 116, Mismatches: 13, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
40 8 0.07
41 105 0.91
42 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (41 bp):
GAGCATTAGCGACGCTTCTTCAAAAACGCCGCTAAAGCCCT
Found at i:8229871 original size:82 final size:82
Alignment explanation
Indices: 8229763--8229935 Score: 269
Period size: 82 Copynumber: 2.1 Consensus size: 82
8229753 CGCTAAAATA
8229763 GAGCATTAGCGGCGCTTCTTCAAAAACACCGCTAAAG-CCCTGAGCATTAGCGACGCTTCTTTAA
1 GAGCATTAGCGGCGCTTCTTCAAAAACACCGCTAAAGACCC-GAGCATTAGCGACGCTTC-TTAA
*
8229827 AAA-CGCCGCTAAAGCCCT
64 AAAGCGCCGCTAAAACCCT
* * * *
8229845 GAGCATTAGCGGTGCTTTTTCAAAAACGCTGCTAAAGACCCGAGCATTAGCGACGCTTCTTAAAA
1 GAGCATTAGCGGCGCTTCTTCAAAAACACCGCTAAAGACCCGAGCATTAGCGACGCTTCTTAAAA
8229910 AGCGCCGCTAAAACCCT
66 AGCGCCGCTAAAACCCT
8229927 GAGCATTAG
1 GAGCATTAG
8229936 TGCCGCTAAA
Statistics
Matches: 84, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
81 7 0.08
82 74 0.88
83 3 0.04
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (82 bp):
GAGCATTAGCGGCGCTTCTTCAAAAACACCGCTAAAGACCCGAGCATTAGCGACGCTTCTTAAAA
AGCGCCGCTAAAACCCT
Found at i:8229981 original size:39 final size:40
Alignment explanation
Indices: 8229937--8230025 Score: 101
Period size: 41 Copynumber: 2.2 Consensus size: 40
8229927 GAGCATTAGT
8229937 GCCGCTAAA-AATAGAGCACTAGC-GCGCTTCTTCAAAAAC
1 GCCGCTAAACAAT-GAGCACTAGCGGCGCTTCTTCAAAAAC
** * *
8229976 GCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTTTCAAAAAC
1 GCCGCTAAA-CAATGAGCACTAGCGGCGCTTCTTCAAAAAC
*
8230017 GCCGTTAAA
1 GCCGCTAAA
8230026 GCCCAAAGCA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
39 9 0.21
40 9 0.21
41 24 0.57
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.20
Consensus pattern (40 bp):
GCCGCTAAACAATGAGCACTAGCGGCGCTTCTTCAAAAAC
Found at i:8230012 original size:41 final size:41
Alignment explanation
Indices: 8229950--8230155 Score: 220
Period size: 41 Copynumber: 5.0 Consensus size: 41
8229940 GCTAAAAATA
* *
8229950 GAGCACTAGC-GCGCTTCTTCAAAAACGCCGCTAAAGCCCT
1 GAGCATTAGCAGCGCTTTTTCAAAAACGCCGCTAAAGCCCT
* * *
8229990 GAGCATTAGCGGCGCTTTTTCAAAAACGCCGTTAAAGCCCA
1 GAGCATTAGCAGCGCTTTTTCAAAAACGCCGCTAAAGCCCT
* * * * * * *
8230031 AAGCATTAGCAGCTCTTTATAAAAAATGCCACTAAAACCCT
1 GAGCATTAGCAGCGCTTTTTCAAAAACGCCGCTAAAGCCCT
* *
8230072 GAGCATTAGCGGCGCTTTTTCAAAAATGCCGCTAAAGCCTCAT
1 GAGCATTAGCAGCGCTTTTTCAAAAACGCCGCTAAAGCC-C-T
* * *
8230115 GA--ATTAGCAACGCTTTTTAAAAAACGCCACTAAAGCCCT
1 GAGCATTAGCAGCGCTTTTTCAAAAACGCCGCTAAAGCCCT
8230154 GA
1 GA
8230156 AAACTCAGAA
Statistics
Matches: 137, Mismatches: 26, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
39 3 0.02
40 10 0.07
41 120 0.88
42 1 0.01
43 3 0.02
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.22
Consensus pattern (41 bp):
GAGCATTAGCAGCGCTTTTTCAAAAACGCCGCTAAAGCCCT
Found at i:8230078 original size:186 final size:186
Alignment explanation
Indices: 8229751--8230107 Score: 499
Period size: 186 Copynumber: 1.9 Consensus size: 186
8229741 TTTCAAAATC
*
8229751 GCCGCTAAAATAGAGCATTAGCGGCGCTTCTTCAAAAACACCGCTAAAGCCCTGAGCATTAGCGA
1 GCCGCTAAAATAGAGCACTAGCGGCGCTTCTTCAAAAACACCGCTAAAGCCCTGAGCATTAGCGA
** * * * **
8229816 CGCTTCTTTAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGTGCTTTTTCAAAAACGCTGCTAAA
66 CGCTTCTTTAAAAACGCCGCTAAAGCCCAAAGCATTAGCGCTGCTTTATAAAAAACGCCACTAAA
8229881 GACCCGAGCATTAGCGACGCTTCTT-AAAAAGCGCCGCTAAAACCCTGAGCATTAGT
131 GACCCGAGCATTAGCGACGCTTCTTCAAAAA-CGCCGCTAAAACCCTGAGCATTAGT
*
8229937 GCCGCTAAAAATAGAGCACTAGC-GCGCTTCTTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCG
1 GCCGCT-AAAATAGAGCACTAGCGGCGCTTCTTCAAAAACACCGCTAAAGCCCTGAGCATTAGCG
* * *
8230001 GCGCTT-TTTCAAAAACGCCGTTAAAGCCCAAAGCATTAGCAGCT-CTTTATAAAAAATGCCACT
65 ACGCTTCTTT-AAAAACGCCGCTAAAGCCCAAAGCATTAGC-GCTGCTTTATAAAAAACGCCACT
* * *
8230064 AAA-ACCCTGAGCATTAGCGGCGCTTTTTCAAAAATGCCGCTAAA
128 AAAGACCC-GAGCATTAGCGACGCTTCTTCAAAAACGCCGCTAAA
8230108 GCCTCATGAA
Statistics
Matches: 151, Mismatches: 15, Indels: 10
0.86 0.09 0.06
Matches are distributed among these distances:
185 7 0.05
186 122 0.81
187 22 0.15
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (186 bp):
GCCGCTAAAATAGAGCACTAGCGGCGCTTCTTCAAAAACACCGCTAAAGCCCTGAGCATTAGCGA
CGCTTCTTTAAAAACGCCGCTAAAGCCCAAAGCATTAGCGCTGCTTTATAAAAAACGCCACTAAA
GACCCGAGCATTAGCGACGCTTCTTCAAAAACGCCGCTAAAACCCTGAGCATTAGT
Found at i:8230079 original size:145 final size:146
Alignment explanation
Indices: 8229804--8230080 Score: 409
Period size: 145 Copynumber: 1.9 Consensus size: 146
8229794 CTAAAGCCCT
* * *
8229804 GAGCATTAGCGACGCTTCTTTAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGTGCTTTTTCAAA
1 GAGCACTAGCGACGCTTCTTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTTTCAAA
* * * *
8229869 AACGCTGCTAAAGACCCGAGCATTAGCGACGCTTCTTAAAAAGCGCCGCTAAAACCCTGAGCATT
66 AACGCCGCTAAAGACCCAAGCATTAGCGACGCTTCTTAAAAAACGCCACTAAAACCCTGAGCATT
8229934 AGTGCCGCTAAAAATA
131 AGTGCCGCTAAAAATA
8229950 GAGCACTAGCG-CGCTTCTTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTTTCAAA
1 GAGCACTAGCGACGCTTCTTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTTTCAAA
* * *
8230014 AACGCCGTTAAAG-CCCAAAGCATTAGC-A-GCTCTTTATAAAAAATGCCACTAAAACCCTGAGC
66 AACGCCGCTAAAGACCC-AAGCATTAGCGACGCT-TCT-TAAAAAACGCCACTAAAACCCTGAGC
8230076 ATTAG
128 ATTAG
8230081 CGGCGCTTTT
Statistics
Matches: 118, Mismatches: 10, Indels: 7
0.87 0.07 0.05
Matches are distributed among these distances:
143 3 0.03
144 6 0.05
145 99 0.84
146 10 0.08
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (146 bp):
GAGCACTAGCGACGCTTCTTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTTTCAAA
AACGCCGCTAAAGACCCAAGCATTAGCGACGCTTCTTAAAAAACGCCACTAAAACCCTGAGCATT
AGTGCCGCTAAAAATA
Found at i:8230108 original size:82 final size:82
Alignment explanation
Indices: 8229970--8230155 Score: 266
Period size: 82 Copynumber: 2.3 Consensus size: 82
8229960 GCGCTTCTTC
* *
8229970 AAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTTTCAAAAACGCCGTTAAAGCC-CAAAG
1 AAAAACGCCACTAAAGCCCTGAGCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCCTC-AAG
* * *
8230034 CATTAGCAGCTCTTTATA
65 AATTAGCAACGCTTTATA
* * * *
8230052 AAAAATGCCACTAAAACCCTGAGCATTAGCGGCGCTTTTTCAAAAATGCCGCTAAAGCCTCATGA
1 AAAAACGCCACTAAAGCCCTGAGCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCCTCAAGA
*
8230117 ATTAGCAACGCTTTTTA
66 ATTAGCAACGCTTTATA
8230134 AAAAACGCCACTAAAGCCCTGA
1 AAAAACGCCACTAAAGCCCTGA
8230156 AAACTCAGAA
Statistics
Matches: 91, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
82 90 0.99
83 1 0.01
ACGTcount: A:0.35, C:0.26, G:0.17, T:0.22
Consensus pattern (82 bp):
AAAAACGCCACTAAAGCCCTGAGCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCCTCAAGA
ATTAGCAACGCTTTATA
Found at i:8234240 original size:17 final size:18
Alignment explanation
Indices: 8234198--8234245 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 18
8234188 TGAACTTTAA
8234198 AAATTCTTTATTCAAAAAC
1 AAATT-TTTATTCAAAAAC
8234217 AAATTTTTATTCAAAAAC
1 AAATTTTTATTCAAAAAC
**
8234235 ATTTTTTTATT
1 AAATTTTTATT
8234246 ATATCAAAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 22 0.81
19 5 0.19
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.48
Consensus pattern (18 bp):
AAATTTTTATTCAAAAAC
Found at i:8236175 original size:30 final size:31
Alignment explanation
Indices: 8236113--8236175 Score: 78
Period size: 30 Copynumber: 2.1 Consensus size: 31
8236103 CACATCAGCG
*
8236113 GACTGTTTTGTCACTTTTTTATAACGTTAGT
1 GACTGTTTTGTCACTTTTTTATAAAGTTAGT
8236144 GACTGTTTTGGT-A-TTTTTTA-AAAGTTGAGT
1 GACTGTTTT-GTCACTTTTTTATAAAGTT-AGT
8236174 GA
1 GA
8236176 TTGAAATGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
29 5 0.17
30 12 0.41
31 10 0.34
32 2 0.07
ACGTcount: A:0.22, C:0.08, G:0.21, T:0.49
Consensus pattern (31 bp):
GACTGTTTTGTCACTTTTTTATAAAGTTAGT
Found at i:8240562 original size:253 final size:253
Alignment explanation
Indices: 8240263--8240772 Score: 977
Period size: 253 Copynumber: 2.0 Consensus size: 253
8240253 CTTGGTTTTT
8240263 GTTGATCACTCCAACCCTCCCTCCCTCTTTTGACATTTTATCTAATGTCTGGTTTCTGATGGTGC
1 GTTGATCACTCCAACCCTCCCTCCCTCTTTTGACATTTTATCTAATGTCTGGTTTCTGATGGTGC
* *
8240328 TTGTAAACTTATATTAGAATTTGTTTGGTTGTAGAACTTGGGCTTTTATTTAATAATGGTCAAAT
66 TTGTAAACTTATATTAGAAGTTGTTTAGTTGTAGAACTTGGGCTTTTATTTAATAATGGTCAAAT
8240393 TCTGATCCTTTCTATCTTGTTTATAACTTGTTTTATTACTTCAGCTTTGTTCCCTTTAAATGACT
131 TCTGATCCTTTCTATCTTGTTTATAACTTGTTTTATTACTTCAGCTTTGTTCCCTTTAAATGACT
8240458 TTGTTTACTCTTAGAATCAGAATGACCATGTTCCAAGCGTTCCAATTGCTCCACTTGG
196 TTGTTTACTCTTAGAATCAGAATGACCATGTTCCAAGCGTTCCAATTGCTCCACTTGG
8240516 GTTGATCACTCCAACCCTCCCTCCCTCTTTCT-ACATTTTATCTAATGTCTGGTTTCTGATGGTG
1 GTTGATCACTCCAACCCTCCCTCCCTCTTT-TGACATTTTATCTAATGTCTGGTTTCTGATGGTG
8240580 CTTGTAAACTTATATTAGAAGTTGTTTAGTTGTAGAACTTGGGCTTTTATTTAATAATGGTCAAA
65 CTTGTAAACTTATATTAGAAGTTGTTTAGTTGTAGAACTTGGGCTTTTATTTAATAATGGTCAAA
8240645 TTCTGATCCTTTCTATCTTGTTTATAACTTGTTTTATTACTTCAGCTTTGTTCCCTTTAAATGAC
130 TTCTGATCCTTTCTATCTTGTTTATAACTTGTTTTATTACTTCAGCTTTGTTCCCTTTAAATGAC
*
8240710 TTTGTTTACTCTTAGAATCAGAATGACCATGTTCCAAGTGTTCCAATTGCTCCACTTGG
195 TTTGTTTACTCTTAGAATCAGAATGACCATGTTCCAAGCGTTCCAATTGCTCCACTTGG
8240769 GTTG
1 GTTG
8240773 CCTACATACC
Statistics
Matches: 253, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
253 252 1.00
254 1 0.00
ACGTcount: A:0.22, C:0.20, G:0.15, T:0.44
Consensus pattern (253 bp):
GTTGATCACTCCAACCCTCCCTCCCTCTTTTGACATTTTATCTAATGTCTGGTTTCTGATGGTGC
TTGTAAACTTATATTAGAAGTTGTTTAGTTGTAGAACTTGGGCTTTTATTTAATAATGGTCAAAT
TCTGATCCTTTCTATCTTGTTTATAACTTGTTTTATTACTTCAGCTTTGTTCCCTTTAAATGACT
TTGTTTACTCTTAGAATCAGAATGACCATGTTCCAAGCGTTCCAATTGCTCCACTTGG
Found at i:8243908 original size:20 final size:20
Alignment explanation
Indices: 8243883--8243922 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
8243873 AAGAAACACC
*
8243883 AAAAAATTATTTTAAAAATA
1 AAAAAAGTATTTTAAAAATA
8243903 AAAAAAGTATTTTAAAAATA
1 AAAAAAGTATTTTAAAAATA
8243923 TTTTAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (20 bp):
AAAAAAGTATTTTAAAAATA
Found at i:8244019 original size:7 final size:7
Alignment explanation
Indices: 8244007--8244055 Score: 98
Period size: 7 Copynumber: 7.0 Consensus size: 7
8243997 GGCCAGCGGA
8244007 AAACCCT
1 AAACCCT
8244014 AAACCCT
1 AAACCCT
8244021 AAACCCT
1 AAACCCT
8244028 AAACCCT
1 AAACCCT
8244035 AAACCCT
1 AAACCCT
8244042 AAACCCT
1 AAACCCT
8244049 AAACCCT
1 AAACCCT
8244056 CGGGCCGAGC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 42 1.00
ACGTcount: A:0.43, C:0.43, G:0.00, T:0.14
Consensus pattern (7 bp):
AAACCCT
Found at i:8244556 original size:27 final size:27
Alignment explanation
Indices: 8244473--8244550 Score: 120
Period size: 27 Copynumber: 2.9 Consensus size: 27
8244463 TAGGTTGCGG
* * *
8244473 CTATTTGATAGGCACGACTAGTTGAGC
1 CTATCTGACAGGCGCGACTAGTTGAGC
*
8244500 CTATCTGACAGACGCGACTAGTTGAGC
1 CTATCTGACAGGCGCGACTAGTTGAGC
8244527 CTATCTGACAGGCGCGACTAGTTG
1 CTATCTGACAGGCGCGACTAGTTG
8244551 TACCTAACTT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (27 bp):
CTATCTGACAGGCGCGACTAGTTGAGC
Found at i:8244566 original size:27 final size:27
Alignment explanation
Indices: 8244482--8244568 Score: 104
Period size: 27 Copynumber: 3.2 Consensus size: 27
8244472 GCTATTTGAT
* *
8244482 AGGCACGACTAGTTGAGCCTATCTGAC
1 AGGCGCGACTAGTTGAGCCTAACTGAC
* *
8244509 AGACGCGACTAGTTGAGCCTATCTGAC
1 AGGCGCGACTAGTTGAGCCTAACTGAC
* *
8244536 AGGCGCGACTAGTTGTA-CCTAACTTAG
1 AGGCGCGACTAGTTG-AGCCTAACTGAC
8244563 AGGCGC
1 AGGCGC
8244569 AAATGGTGGG
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 52 0.98
28 1 0.02
ACGTcount: A:0.25, C:0.25, G:0.28, T:0.22
Consensus pattern (27 bp):
AGGCGCGACTAGTTGAGCCTAACTGAC
Found at i:8249544 original size:41 final size:42
Alignment explanation
Indices: 8249456--8249552 Score: 151
Period size: 42 Copynumber: 2.3 Consensus size: 42
8249446 ATATGGATGT
* * *
8249456 CACTAAGTGTGCGAAATTAAAATGATGATGTTGAATAACGGG
1 CACTAAGTGTGCGAAACTAAAATGACGATGTTGAATAACAGG
8249498 CACTAAGTGTGCGAAACTAAAATGACGATG-TGAATAACAGG
1 CACTAAGTGTGCGAAACTAAAATGACGATGTTGAATAACAGG
*
8249539 CACTAAATGTGCGA
1 CACTAAGTGTGCGA
8249553 TACCGAGATC
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
41 23 0.45
42 28 0.55
ACGTcount: A:0.39, C:0.13, G:0.25, T:0.23
Consensus pattern (42 bp):
CACTAAGTGTGCGAAACTAAAATGACGATGTTGAATAACAGG
Found at i:8253662 original size:49 final size:49
Alignment explanation
Indices: 8253607--8253702 Score: 165
Period size: 49 Copynumber: 2.0 Consensus size: 49
8253597 TACTAAAACT
* * *
8253607 AAACACAACAATTTATAACTTAATCCTAAATTACTAATAAATTAATTAC
1 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTAC
8253656 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATT
1 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATT
8253703 TTAAAGTAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (49 bp):
AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTAC
Found at i:8253836 original size:17 final size:18
Alignment explanation
Indices: 8253814--8253866 Score: 63
Period size: 17 Copynumber: 2.8 Consensus size: 18
8253804 CATTACCTTT
8253814 TTTTCTTCTTCTTCT-TC
1 TTTTCTTCTTCTTCTCTC
*
8253831 TTTTCTTCTCCTTTCTCTC
1 TTTTCTTCTTC-TTCTCTC
8253850 TTTTCTTTCTCTCTTCT
1 TTTTC-TTCT-TCTTCT
8253867 GGATGGGGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
17 10 0.33
18 4 0.13
19 7 0.23
20 8 0.27
21 1 0.03
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTTCTTCTTCTTCTCTC
Found at i:8253839 original size:20 final size:21
Alignment explanation
Indices: 8253810--8253866 Score: 57
Period size: 20 Copynumber: 2.8 Consensus size: 21
8253800 AATACATTAC
*
8253810 CTTTTTTTCTTCTTCTTCT-T
1 CTTTTCTTCTTCTTCTTCTCT
*
8253830 CTTTTCTTC-TCCT-TTCTCT
1 CTTTTCTTCTTCTTCTTCTCT
8253849 CTTTTCTTTCTCTCTTCT
1 CTTTTC-TTCT-TCTTCT
8253867 GGATGGGGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
18 4 0.14
19 10 0.34
20 11 0.38
22 3 0.10
23 1 0.03
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (21 bp):
CTTTTCTTCTTCTTCTTCTCT
Found at i:8254046 original size:27 final size:27
Alignment explanation
Indices: 8254008--8254069 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
8253998 TCTACCTGTT
*
8254008 AGGCACGATTAGTCATACCTATCTAAC
1 AGGCTCGATTAGTCATACCTATCTAAC
* *
8254035 AGGCTCGATTAGTCGTACCTATCTAAT
1 AGGCTCGATTAGTCATACCTATCTAAC
8254062 AGGCTCGA
1 AGGCTCGA
8254070 CCCGTTTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.27
Consensus pattern (27 bp):
AGGCTCGATTAGTCATACCTATCTAAC
Found at i:8272218 original size:30 final size:30
Alignment explanation
Indices: 8272182--8272264 Score: 96
Period size: 29 Copynumber: 2.8 Consensus size: 30
8272172 GTATGCTAAA
8272182 CGATGGTCGAAACCATCCATTTTCTTTAAC
1 CGATGGTCGAAACCATCCATTTTCTTTAAC
** * * *
8272212 CGATGGTTAAAACCAT-CTTTTTTTTTAAT
1 CGATGGTCGAAACCATCCATTTTCTTTAAC
* *
8272241 CGATAGTCGAAACCATCCCTTTTC
1 CGATGGTCGAAACCATCCATTTTC
8272265 AAATTTGATA
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
29 23 0.55
30 19 0.45
ACGTcount: A:0.27, C:0.24, G:0.12, T:0.37
Consensus pattern (30 bp):
CGATGGTCGAAACCATCCATTTTCTTTAAC
Found at i:8272404 original size:33 final size:33
Alignment explanation
Indices: 8272367--8272442 Score: 95
Period size: 33 Copynumber: 2.3 Consensus size: 33
8272357 CGACCTTGCC
*
8272367 ATGGTCTTACGCTCA-TAG-TGCCATAACCCAGTT
1 ATGGTCTTA--CTCATTAGATGCCATAACCCAGCT
8272400 ATGGTCTTA-TCATTAGAATGCCATAACCCAGCT
1 ATGGTCTTACTCATTAG-ATGCCATAACCCAGCT
8272433 ATGGTCTTAC
1 ATGGTCTTAC
8272443 ATATATATAT
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
30 3 0.08
31 3 0.08
33 32 0.84
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (33 bp):
ATGGTCTTACTCATTAGATGCCATAACCCAGCT
Found at i:8273889 original size:15 final size:15
Alignment explanation
Indices: 8273869--8273904 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
8273859 TTGCCCCAAA
8273869 ACCACTATTTTCGAC
1 ACCACTATTTTCGAC
8273884 ACCACTATTTTCGAC
1 ACCACTATTTTCGAC
8273899 ACCACT
1 ACCACT
8273905 GAAAAATGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.28, C:0.36, G:0.06, T:0.31
Consensus pattern (15 bp):
ACCACTATTTTCGAC
Done.