Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009175.1 Hibiscus syriacus cultivar Beakdansim tig00112738_pilon, whole genome shotgun sequence
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: 10629029
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 50 of 51
Found at i:10352877 original size:14 final size:14
Alignment explanation
Indices: 10352855--10352888 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
10352845 GGACCGGTTT
*
10352855 GACCGGTCTGACCC
1 GACCCGTCTGACCC
10352869 GACCCGTCTGACCC
1 GACCCGTCTGACCC
*
10352883 AACCCG
1 GACCCG
10352889 ACTGTTGACC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.18, C:0.47, G:0.24, T:0.12
Consensus pattern (14 bp):
GACCCGTCTGACCC
Found at i:10352912 original size:17 final size:16
Alignment explanation
Indices: 10352863--10352914 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 16
10352853 TTGACCGGTC
10352863 TGACCCGACCCGTC--
1 TGACCCGACCCGTCGT
* *
10352877 TGACCCAACCCGACTGT
1 TGACCCGACCCGTC-GT
10352894 TGACCCGACCCGGTCGT
1 TGACCCGACCC-GTCGT
10352911 TGAC
1 TGAC
10352915 TTTCTTTGAC
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
14 12 0.40
17 16 0.53
18 2 0.07
ACGTcount: A:0.17, C:0.42, G:0.23, T:0.17
Consensus pattern (16 bp):
TGACCCGACCCGTCGT
Found at i:10353648 original size:13 final size:13
Alignment explanation
Indices: 10353630--10353654 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10353620 TATGTCACGG
10353630 TGGAATTGAATTT
1 TGGAATTGAATTT
10353643 TGGAATTGAATT
1 TGGAATTGAATT
10353655 ACGATGGAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.24, T:0.44
Consensus pattern (13 bp):
TGGAATTGAATTT
Found at i:10356215 original size:24 final size:24
Alignment explanation
Indices: 10356165--10356217 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
10356155 AGGTGCCACA
* **
10356165 TAGAATTTGGCCCGAATGACTGTG
1 TAGAATTTGGCCCGAAGGACTACG
* *
10356189 TAGAATTTGTCCCTAAGGACTACG
1 TAGAATTTGGCCCGAAGGACTACG
10356213 TAGAA
1 TAGAA
10356218 ATATCCTGAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (24 bp):
TAGAATTTGGCCCGAAGGACTACG
Found at i:10360361 original size:17 final size:17
Alignment explanation
Indices: 10360339--10360372 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
10360329 GAAATCTACC
*
10360339 ATGAACATTCTTCATGA
1 ATGAACATTATTCATGA
10360356 ATGAACATTATTCATGA
1 ATGAACATTATTCATGA
10360373 CTCATGCAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (17 bp):
ATGAACATTATTCATGA
Found at i:10367255 original size:18 final size:18
Alignment explanation
Indices: 10367232--10367266 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
10367222 AATCAAATTT
*
10367232 TGGTATCAATACTCAAGA
1 TGGTATCAATACCCAAGA
*
10367250 TGGTATCGATACCCAAG
1 TGGTATCAATACCCAAG
10367267 TTCAGAAGTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (18 bp):
TGGTATCAATACCCAAGA
Found at i:10369427 original size:22 final size:21
Alignment explanation
Indices: 10369389--10369430 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
10369379 CTTGAAAAAT
10369389 AAAAGAAAAGAGAAAAACTTG
1 AAAAGAAAAGAGAAAAACTTG
10369410 AAAAGTAAAA-AGATAAAACTT
1 AAAAG-AAAAGAGA-AAAACTT
10369431 TAATAAAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.67, C:0.05, G:0.14, T:0.14
Consensus pattern (21 bp):
AAAAGAAAAGAGAAAAACTTG
Found at i:10371930 original size:32 final size:32
Alignment explanation
Indices: 10371884--10371964 Score: 126
Period size: 32 Copynumber: 2.5 Consensus size: 32
10371874 GTTTTTGGGT
* *
10371884 TTTGCTAACATGCGCCACCCTCCTCCAAGGGC
1 TTTGCTAACGTGCGCCACCCTCCTACAAGGGC
*
10371916 TTTGCTAACGTGCGCCACCCTCCTACAATGGC
1 TTTGCTAACGTGCGCCACCCTCCTACAAGGGC
*
10371948 TTTGCTAATGTGCGCCA
1 TTTGCTAACGTGCGCCA
10371965 TTTAATGAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 45 1.00
ACGTcount: A:0.19, C:0.36, G:0.20, T:0.26
Consensus pattern (32 bp):
TTTGCTAACGTGCGCCACCCTCCTACAAGGGC
Found at i:10373234 original size:108 final size:106
Alignment explanation
Indices: 10373047--10373264 Score: 375
Period size: 108 Copynumber: 2.0 Consensus size: 106
10373037 ATTTGTCTCA
* *
10373047 TTTTGTGATGAAACATCCTTTGTGACTCTAATCTCCTCACATTTGAGTCAGATGGCTATTCTGCT
1 TTTTGTGATGAAACATCCTTTGTGACTCTAATCTCCTCACATTTAAGCCAGATGGCTATTCTGCT
10373112 TGTCTATCTCTTGGAAGTGGGTTTCAGTACGAATCTGAAAT
66 TGTCTATCTCTTGGAAGTGGGTTTCAGTACGAATCTGAAAT
*
10373153 TTTTGTGATGATAGCATCCTTTGTGACTCTAATCTCCTCACAGTTTAAGCCAGATGGCTCA-TCT
1 TTTTGTGATGA-AACATCCTTTGTGACTCTAATCTCCTCACA-TTTAAGCCAGATGGCT-ATTCT
10373217 GCTTGTCTATCTCTTGGAAGTGGGTTTCAGTACGAATCTGAAAT
63 GCTTGTCTATCTCTTGGAAGTGGGTTTCAGTACGAATCTGAAAT
10373261 TTTT
1 TTTT
10373265 CCTGGGAAAG
Statistics
Matches: 106, Mismatches: 3, Indels: 4
0.94 0.03 0.04
Matches are distributed among these distances:
106 11 0.10
107 29 0.27
108 65 0.61
109 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.20, T:0.39
Consensus pattern (106 bp):
TTTTGTGATGAAACATCCTTTGTGACTCTAATCTCCTCACATTTAAGCCAGATGGCTATTCTGCT
TGTCTATCTCTTGGAAGTGGGTTTCAGTACGAATCTGAAAT
Found at i:10382091 original size:18 final size:19
Alignment explanation
Indices: 10382065--10382101 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
10382055 TTTTTTGTTA
10382065 TTTTGAATTAATT-AAATT
1 TTTTGAATTAATTCAAATT
*
10382083 TTTTTAATTAATTCAAATT
1 TTTTGAATTAATTCAAATT
10382102 AAATATCCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (19 bp):
TTTTGAATTAATTCAAATT
Found at i:10386149 original size:19 final size:21
Alignment explanation
Indices: 10386108--10386149 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
10386098 CGAAATATCA
10386108 TTCATGATAAATATCATATATG
1 TTCATGATAAATATCA-ATATG
10386130 TTCATGAT-AATATC-ATATG
1 TTCATGATAAATATCAATATG
10386149 T
1 T
10386150 AATGATCAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
21 6 0.30
22 8 0.40
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.43
Consensus pattern (21 bp):
TTCATGATAAATATCAATATG
Found at i:10392546 original size:40 final size:40
Alignment explanation
Indices: 10392463--10392548 Score: 111
Period size: 40 Copynumber: 2.2 Consensus size: 40
10392453 TATGCATCGT
* * * **
10392463 AGTGC-TTACACATAAGGCCGTGCCCACCATATGTAGCGG
1 AGTGCATTACACATAAGGCCGTACCCACCATATGCACCAA
*
10392502 AGTGCATTACACATAAGGTCGTACCCACCATATGCACCAA
1 AGTGCATTACACATAAGGCCGTACCCACCATATGCACCAA
10392542 AGTGCAT
1 AGTGCAT
10392549 AATCGATATG
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 5 0.12
40 35 0.88
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (40 bp):
AGTGCATTACACATAAGGCCGTACCCACCATATGCACCAA
Found at i:10392737 original size:19 final size:21
Alignment explanation
Indices: 10392696--10392737 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
10392686 CAAAATATCA
10392696 TTCATGATAAATATCATATATG
1 TTCATGATAAATATCA-ATATG
10392718 TTCATGAT-AATATC-ATATG
1 TTCATGATAAATATCAATATG
10392737 T
1 T
10392738 AACAATCAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
21 6 0.30
22 8 0.40
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.43
Consensus pattern (21 bp):
TTCATGATAAATATCAATATG
Found at i:10394159 original size:20 final size:20
Alignment explanation
Indices: 10394130--10394223 Score: 116
Period size: 20 Copynumber: 4.7 Consensus size: 20
10394120 GCAACCTTCG
*
10394130 TGCATGGATGCACAGCAGGA
1 TGCATCGATGCACAGCAGGA
10394150 TGCATCGATGCACAGCAGGA
1 TGCATCGATGCACAGCAGGA
* *
10394170 TGCAACGATGCACAGCCGTGA
1 TGCATCGATGCACAGCAG-GA
* ** *
10394191 TGCATCAATAAACAGAAGGA
1 TGCATCGATGCACAGCAGGA
10394211 TGCATCGATGCAC
1 TGCATCGATGCAC
10394224 TAATTGTATT
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
20 47 0.77
21 14 0.23
ACGTcount: A:0.33, C:0.23, G:0.28, T:0.16
Consensus pattern (20 bp):
TGCATCGATGCACAGCAGGA
Found at i:10394211 original size:41 final size:40
Alignment explanation
Indices: 10394136--10394223 Score: 113
Period size: 41 Copynumber: 2.2 Consensus size: 40
10394126 TTCGTGCATG
* ** *
10394136 GATGCACAGCAGGATGCATCGATGCACAGCAGGATGCAAC
1 GATGCACAGCAGGATGCATCAATAAACAGAAGGATGCAAC
* *
10394176 GATGCACAGCCGTGATGCATCAATAAACAGAAGGATGCATC
1 GATGCACAGCAG-GATGCATCAATAAACAGAAGGATGCAAC
10394217 GATGCAC
1 GATGCAC
10394224 TAATTGTATT
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
40 11 0.27
41 30 0.73
ACGTcount: A:0.34, C:0.24, G:0.27, T:0.15
Consensus pattern (40 bp):
GATGCACAGCAGGATGCATCAATAAACAGAAGGATGCAAC
Found at i:10394421 original size:29 final size:29
Alignment explanation
Indices: 10394400--10394457 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 29
10394390 AAACTTTGAA
10394400 TAAATTCAATT-AAGTCCAAAAACATTTTG
1 TAAATTCAATTCAAGTCCAAAAACA-TTTG
10394429 TAAATTCAATTCAAGTCCAAAAACCATTT
1 TAAATTCAATTCAAGTCCAAAAA-CATTT
10394458 TGCCTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 11 0.41
30 14 0.52
31 2 0.07
ACGTcount: A:0.45, C:0.17, G:0.05, T:0.33
Consensus pattern (29 bp):
TAAATTCAATTCAAGTCCAAAAACATTTG
Found at i:10394447 original size:30 final size:30
Alignment explanation
Indices: 10394400--10394459 Score: 104
Period size: 29 Copynumber: 2.0 Consensus size: 30
10394390 AAACTTTGAA
10394400 TAAATTCAATTAAGTCCAAAAA-CATTTTG
1 TAAATTCAATTAAGTCCAAAAACCATTTTG
10394429 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATT-AAGTCCAAAAACCATTTTG
10394460 CCTTAAATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 11 0.38
31 7 0.24
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (30 bp):
TAAATTCAATTAAGTCCAAAAACCATTTTG
Found at i:10396168 original size:20 final size:20
Alignment explanation
Indices: 10396139--10396232 Score: 98
Period size: 20 Copynumber: 4.7 Consensus size: 20
10396129 GCAACCTTCG
*
10396139 TGCATGGATGCACAGCAGGA
1 TGCATCGATGCACAGCAGGA
10396159 TGCATCGATGCACAGCAGGA
1 TGCATCGATGCACAGCAGGA
* **
10396179 TGCAACGATGCACAGCCTTGA
1 TGCATCGATGCACAG-CAGGA
* ** * *
10396200 TGCATCAATAAATAGAAGGA
1 TGCATCGATGCACAGCAGGA
10396220 TGCATCGATGCAC
1 TGCATCGATGCAC
10396233 TAATTGTATT
Statistics
Matches: 57, Mismatches: 16, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
20 44 0.77
21 13 0.23
ACGTcount: A:0.33, C:0.22, G:0.27, T:0.18
Consensus pattern (20 bp):
TGCATCGATGCACAGCAGGA
Found at i:10396431 original size:29 final size:29
Alignment explanation
Indices: 10396410--10396467 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 29
10396400 AAACTTTGAA
10396410 TAAATTCAATT-AAGTCCAAAAACATTTTG
1 TAAATTCAATTCAAGTCCAAAAACA-TTTG
10396439 TAAATTCAATTCAAGTCCAAAAACCATTT
1 TAAATTCAATTCAAGTCCAAAAA-CATTT
10396468 TTCCTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 11 0.41
30 14 0.52
31 2 0.07
ACGTcount: A:0.45, C:0.17, G:0.05, T:0.33
Consensus pattern (29 bp):
TAAATTCAATTCAAGTCCAAAAACATTTG
Found at i:10396457 original size:30 final size:30
Alignment explanation
Indices: 10396410--10396468 Score: 102
Period size: 29 Copynumber: 2.0 Consensus size: 30
10396400 AAACTTTGAA
10396410 TAAATTCAATTAAGTCCAAAAA-CATTTTG
1 TAAATTCAATTAAGTCCAAAAACCATTTTG
10396439 TAAATTCAATTCAAGTCCAAAAACCATTTT
1 TAAATTCAATT-AAGTCCAAAAACCATTTT
10396469 TCCTTAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 11 0.39
30 11 0.39
31 6 0.21
ACGTcount: A:0.44, C:0.17, G:0.05, T:0.34
Consensus pattern (30 bp):
TAAATTCAATTAAGTCCAAAAACCATTTTG
Found at i:10397801 original size:34 final size:32
Alignment explanation
Indices: 10397741--10397810 Score: 86
Period size: 34 Copynumber: 2.1 Consensus size: 32
10397731 CCTTACAAAC
* *
10397741 TCCCTAGTTTTTCCGAGCTAAACTAGAACCTT
1 TCCCTAGTTTTACCGAGCTAAACTAGAACCCT
* *
10397773 TCCCTAGCTTTTACACGGGCTAAGCTAGAACCCT
1 TCCCTAG-TTTTAC-CGAGCTAAACTAGAACCCT
10397807 TCCC
1 TCCC
10397811 CTTTACAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 7 0.22
33 5 0.16
34 20 0.62
ACGTcount: A:0.23, C:0.33, G:0.14, T:0.30
Consensus pattern (32 bp):
TCCCTAGTTTTACCGAGCTAAACTAGAACCCT
Found at i:10398173 original size:20 final size:20
Alignment explanation
Indices: 10398144--10398236 Score: 168
Period size: 20 Copynumber: 4.7 Consensus size: 20
10398134 GCAACCTTCG
* *
10398144 TGCATAGATGCACAGTAGGA
1 TGCATCGATGCACAGAAGGA
10398164 TGCATCGATGCACAGAAGGA
1 TGCATCGATGCACAGAAGGA
10398184 TGCATCGATGCACAGAAGGA
1 TGCATCGATGCACAGAAGGA
10398204 TGCATCGATGCACAGAAGGA
1 TGCATCGATGCACAGAAGGA
10398224 TGCATCGATGCAC
1 TGCATCGATGCAC
10398237 TAATTGCATT
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 71 1.00
ACGTcount: A:0.33, C:0.20, G:0.29, T:0.17
Consensus pattern (20 bp):
TGCATCGATGCACAGAAGGA
Found at i:10398326 original size:21 final size:20
Alignment explanation
Indices: 10398257--10398355 Score: 110
Period size: 21 Copynumber: 4.8 Consensus size: 20
10398247 CGGTGTTTGA
*
10398257 GTGCATGGATGCACTGCATG
1 GTGCATGGATGCACTGCAGG
* * *
10398277 GTGTATCGATACACTAGTGCA-G
1 GTGCATGGATGCAC---TGCAGG
10398299 GTGCATGGATGCACTGCAGG
1 GTGCATGGATGCACTGCAGG
10398319 GATGCATGGATGCACTGCAGGG
1 G-TGCATGGATGCACTGCA-GG
10398341 GTGCATGGATGCACT
1 GTGCATGGATGCACT
10398356 TTGACACCCT
Statistics
Matches: 67, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
19 4 0.06
20 13 0.19
21 31 0.46
22 15 0.22
23 4 0.06
ACGTcount: A:0.22, C:0.19, G:0.35, T:0.23
Consensus pattern (20 bp):
GTGCATGGATGCACTGCAGG
Found at i:10398503 original size:34 final size:29
Alignment explanation
Indices: 10398435--10398494 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 29
10398425 AAACTTTGAA
*
10398435 TAAATTCAATTAAGTCCAAAAACATTTTG
1 TAAATTCAATTAAGTCCAAAAAAATTTTG
10398464 TAAATTCAATTCAAGTCCAAAAATAATTTTG
1 TAAATTCAATT-AAGTCCAAAAA-AATTTTG
10398495 CCTTAAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 11 0.39
31 6 0.21
ACGTcount: A:0.45, C:0.13, G:0.07, T:0.35
Consensus pattern (29 bp):
TAAATTCAATTAAGTCCAAAAAAATTTTG
Found at i:10413232 original size:28 final size:29
Alignment explanation
Indices: 10413182--10413251 Score: 133
Period size: 28 Copynumber: 2.4 Consensus size: 29
10413172 AGATTTTGAA
10413182 TTATTTTGATTTTTCCCTCTCATTTTAGT
1 TTATTTTGATTTTTCCCTCTCATTTTAGT
10413211 TTATTTTGATTTTT-CCTCTCATTTTAGT
1 TTATTTTGATTTTTCCCTCTCATTTTAGT
10413239 TTATTTTGATTTT
1 TTATTTTGATTTT
10413252 GTCCATCCCA
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
28 27 0.66
29 14 0.34
ACGTcount: A:0.14, C:0.13, G:0.07, T:0.66
Consensus pattern (29 bp):
TTATTTTGATTTTTCCCTCTCATTTTAGT
Found at i:10413968 original size:51 final size:51
Alignment explanation
Indices: 10413892--10413995 Score: 190
Period size: 51 Copynumber: 2.0 Consensus size: 51
10413882 TATCCTCTTG
*
10413892 AACCACTGAAGTCATCATGAGTTCTAATAAAATCAAAATCTTCTCAACCCT
1 AACCACTGAAGTCATCATCAGTTCTAATAAAATCAAAATCTTCTCAACCCT
*
10413943 AACCACTGAAGTCATCGTCAGTTCTAATAAAATCAAAATCTTCTCAACCCT
1 AACCACTGAAGTCATCATCAGTTCTAATAAAATCAAAATCTTCTCAACCCT
10413994 AA
1 AA
10413996 TGTATACATT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.39, C:0.26, G:0.08, T:0.27
Consensus pattern (51 bp):
AACCACTGAAGTCATCATCAGTTCTAATAAAATCAAAATCTTCTCAACCCT
Found at i:10417074 original size:37 final size:36
Alignment explanation
Indices: 10416950--10417382 Score: 275
Period size: 37 Copynumber: 11.6 Consensus size: 36
10416940 TAAAGTATAC
* * *
10416950 ATATTATATATAG-TTTGAAATCATTTTG-AAAT-T
1 ATATAATATATAGTTTTTAAAACATTTTGAAAATAT
* * * *
10416983 ATATAATATATGGTTTTTAAATA-TTTTTGAAAACAAAC
1 ATATAATATATAGTTTTTAAA-ACATTTTG-AAA-ATAT
* *
10417021 ATATAATGTATGGTTTTTAAAACATTTTGAAAAATAT
1 ATATAATATATAGTTTTTAAAACATTTTG-AAAATAT
*
10417058 ATATAATATATAGTTTTTGAAAAATATTTTGAAAATATAT
1 ATATAATATATAGTTTTT--AAAACATTTTG-AAA-ATAT
* * *
10417098 ATATATATTATATAGATTTTGAAAAAATATTTTAAAA-AT
1 ATATA-A-TATATAG-TTTTTAAAACAT-TTTGAAAATAT
* * *
10417137 ATATACTATATGGTTTTTGAAAAACATTTTGAAAATAC
1 ATATAATATATAGTTTTT--AAAACATTTTGAAAATAT
* * *
10417175 ATATAAAATATAGTTTTCAAAATATTTTGGAAAATAT
1 ATATAATATATAGTTTTTAAAACATTTT-GAAAATAT
* *
10417212 ATACAATATATAGTTTTTTTTTTAAACATTTTGAAAATAT
1 ATATAATATATAG----TTTTTAAAACATTTTGAAAATAT
* * *
10417252 A-AT-ATATAGT-TTTTTTAAAATTACTTTG-AAA-AT
1 ATATAATATA-TAGTTTTTAAAA-CATTTTGAAAATAT
10417285 ATATAATATATAGTTTTTAAAACAAGTTTTTGAAAATAT
1 ATATAATATATAGTTTTTAAAAC-A--TTTTGAAAATAT
10417324 ATAT--TATATAGTTTTTAAAAAATCATTTTGGAAAA-AT
1 ATATAATATATAGTTTTT--AAAA-CATTTT-GAAAATAT
10417361 ATAT-AT-TATAGATTTTTGAAAA
1 ATATAATATATAG-TTTTT-AAAA
10417383 ATATTTTTAT
Statistics
Matches: 319, Mismatches: 43, Indels: 72
0.74 0.10 0.17
Matches are distributed among these distances:
33 14 0.04
34 25 0.08
35 20 0.06
36 15 0.05
37 86 0.27
38 69 0.22
39 34 0.11
40 20 0.06
41 22 0.07
42 10 0.03
43 4 0.01
ACGTcount: A:0.45, C:0.03, G:0.08, T:0.44
Consensus pattern (36 bp):
ATATAATATATAGTTTTTAAAACATTTTGAAAATAT
Found at i:10417104 original size:44 final size:43
Alignment explanation
Indices: 10417054--10417147 Score: 145
Period size: 42 Copynumber: 2.2 Consensus size: 43
10417044 ATTTTGAAAA
* * *
10417054 ATATATATAATATATAGTTTTTG-AAAAATATTTTGAAAATAT
1 ATATATATATTATATAGATTTTGAAAAAATATTTTAAAAATAT
10417096 ATATATATATTATATAGATTTTGAAAAAATATTTTAAAAATAT
1 ATATATATATTATATAGATTTTGAAAAAATATTTTAAAAATAT
10417139 ATACTATAT
1 ATA-TATAT
10417148 GGTTTTTGAA
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
42 21 0.45
43 21 0.45
44 5 0.11
ACGTcount: A:0.49, C:0.01, G:0.05, T:0.45
Consensus pattern (43 bp):
ATATATATATTATATAGATTTTGAAAAAATATTTTAAAAATAT
Found at i:10417153 original size:79 final size:77
Alignment explanation
Indices: 10416967--10417389 Score: 255
Period size: 75 Copynumber: 5.6 Consensus size: 77
10416957 ATATAGTTTG
* * * * * *
10416967 AAATCATTTTGAAATTATATAATATATGGTTTTT-AAATAT-TTTTGAAAACAA-ACATATAATG
1 AAAT-ATTTTAAAAATATATAATATATGGTTTTTGAAAAATATTTTGAAAATAATATATATAATA
* *
10417029 TATGGTTTTTAAA
65 TATGATTTTGAAA
* * * *
10417042 ACAT-TTTGAAAAATATATATAATATATAGTTTTTGAAAAATATTTTGAAAATATATATATATAT
1 AAATATTT-TAAAA-ATATATAATATATGGTTTTTGAAAAATATTTTGAAAATA-ATATATATAA
10417106 TATATAGATTTTGAAA
63 TATAT-GATTTTGAAA
* *
10417122 AAATATTTTAAAAATATATACTATATGGTTTTTGAAAAACATTTTGAAAATACATATA-A-AATA
1 AAATATTTTAAAAATATATAATATATGGTTTTTGAAAAATATTTTGAAAATA-ATATATATAATA
*
10417185 TA-G-TTTT--CA
65 TATGATTTTGAAA
* * *** *
10417194 AAATATTTTGGAAAATATATACAATATATAGTTTTTTTTTTAAACATTTTGAAAAT-ATA-ATAT
1 AAATATTTT--AAAA-ATATATAATATAT-G-GTTTTTGAAAAATATTTTGAAAATAATATATAT
*
10417257 -ATAGT-T--TTTT-TAA
61 AATA-TATGATTTTGAAA
* * * * *
10417270 AATTACTTTGAAAATATATAATATATAGTTTTTAAAACAAGT-TTTTGAAAAT-ATATAT-T-AT
1 AAATATTTTAAAAATATATAATATATGGTTTTTGAAA-AA-TATTTTGAAAATAATATATATAAT
*
10417331 ATA-G-TTTTTAAA
64 ATATGATTTTGAAA
* *
10417343 AAATCATTTTGGAAAAATATATATTATA-GATTTTTGAAAAATATTTT
1 AAAT-ATTTT--AAAAATATATAATATATGGTTTTTGAAAAATATTTT
10417390 TATATATTAT
Statistics
Matches: 275, Mismatches: 45, Indels: 57
0.73 0.12 0.15
Matches are distributed among these distances:
71 7 0.03
72 33 0.12
73 23 0.08
74 25 0.09
75 52 0.19
76 29 0.11
77 35 0.13
78 2 0.01
79 51 0.19
80 15 0.05
81 3 0.01
ACGTcount: A:0.45, C:0.03, G:0.08, T:0.44
Consensus pattern (77 bp):
AAATATTTTAAAAATATATAATATATGGTTTTTGAAAAATATTTTGAAAATAATATATATAATAT
ATGATTTTGAAA
Found at i:10417462 original size:30 final size:29
Alignment explanation
Indices: 10417428--10417485 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 29
10417418 ATTATTTTAA
*
10417428 TTATTTAATTATTTATTTTTTCTTTTTCTC
1 TTATTTAATTATTT-TTTTTGCTTTTTCTC
* *
10417458 TTATTTATTTATTTTTTTTGGTTTTTCT
1 TTATTTAATTATTTTTTTTGCTTTTTCT
10417486 GGTCTAGGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 12 0.48
30 13 0.52
ACGTcount: A:0.14, C:0.07, G:0.03, T:0.76
Consensus pattern (29 bp):
TTATTTAATTATTTTTTTTGCTTTTTCTC
Found at i:10418775 original size:9 final size:10
Alignment explanation
Indices: 10418753--10418778 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
10418743 TTTTATTTTA
10418753 TTTTTCTTCT
1 TTTTTCTTCT
10418763 TTTTTCTTCT
1 TTTTTCTTCT
10418773 TTTTTC
1 TTTTTC
10418779 ATTTTCTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (10 bp):
TTTTTCTTCT
Found at i:10418815 original size:11 final size:10
Alignment explanation
Indices: 10418801--10418839 Score: 53
Period size: 11 Copynumber: 3.8 Consensus size: 10
10418791 TTCTTTTTTA
10418801 TTTATTCTATT
1 TTTATTCTA-T
10418812 TTTATTCTACT
1 TTTATTCTA-T
10418823 TTTATTC-AT
1 TTTATTCTAT
10418832 TTTATTCT
1 TTTATTCT
10418840 TAACTTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
9 8 0.31
10 1 0.04
11 17 0.65
ACGTcount: A:0.18, C:0.13, G:0.00, T:0.69
Consensus pattern (10 bp):
TTTATTCTAT
Found at i:10418915 original size:2 final size:2
Alignment explanation
Indices: 10418908--10418934 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
10418898 TCATTATTTT
10418908 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
10418935 CCTTTTTTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10424969 original size:247 final size:247
Alignment explanation
Indices: 10424156--10425017 Score: 1365
Period size: 245 Copynumber: 3.5 Consensus size: 247
10424146 ACTCAAGGCT
* *
10424156 AGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTACACTCAGCTTCGAGGGAACATCATT
1 AGAAGGGCTATCTG-C--CAAAGACCTTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATT
* *
10424221 TACAGTATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAACACCTTCGAGTTCGACTACGCTC
63 TACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACC-AAAGACCTTCGAGTTCGACTACGCTC
* * *
10424286 AGCTCTAAGGCATATCGTTTTCAGCATAACTTAAGTCGAGAAGAGTTATCTGCCAACCAAAGACC
127 AGCTCCAAGGCATATC-ATTTCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACC
* *
10424351 TTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTTG
191 TTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCG
*
10424408 AGAAGGGCTATCTACCAAAGACCTTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTAC
1 AGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTAC
* *
10424473 AGCATAACTCAAGGCAAGAAGGGTTATCTGTTA-CAAAGACCTTCGAGTTCGACTACGCTCAGCT
66 AGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCT
10424537 CCAAGGCATATCATTT-AGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGA
131 CCAAGGCATATCATTTCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGA
* * *
10424601 GTTCGACTACGCTCAGCT-TAGAGGCACATCATTTGTAGCATAGATTAAGTCG
196 GTTCGACTACGCTCAGCTCCA-AGGCACATCATTTGCAGCATAGCTTAAGTCG
* *
10424653 ATAAGGGTTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTAC
1 AGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTAC
* *
10424718 AGCATAACTCAAGGCGAGAAGGGTTATCTGTTA-CAAAGACCTTCGAGTTCGACTACGCTCAGCT
66 AGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCT
10424782 CCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTAT-TGCCAACCAAAAGACCTTC
131 CCAAGGCATATCATTT-CAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACC-AAAGACCTTC
* *
10424846 GAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAACATAGCTTAAGTCG
194 GAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCG
** * * *
10424900 AGAAGGGCTATCTGCCAAAGACCCCCAAGTTCGATTACATTCAGCTTCAAGGGCACATCATTTAC
1 AGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTAC
* *
10424965 AGCATAACTCAAGGCTAGAAGGTTTATCTGTCACCGAAGACCTTCGAGTTCGA
66 AGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGA
10425018 TTACACTCTG
Statistics
Matches: 569, Mismatches: 35, Indels: 16
0.92 0.06 0.03
Matches are distributed among these distances:
244 1 0.00
245 233 0.41
246 11 0.02
247 212 0.37
248 20 0.04
249 79 0.14
251 1 0.00
252 12 0.02
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.25
Consensus pattern (247 bp):
AGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTAC
AGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCT
CCAAGGCATATCATTTCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGA
GTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCG
Found at i:10425022 original size:84 final size:83
Alignment explanation
Indices: 10424133--10425017 Score: 940
Period size: 84 Copynumber: 10.7 Consensus size: 83
10424123 TTAAAGACAA
* * * * * * *
10424133 CATTTACACCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTACA
1 CATTTACAGCATAACTTAAGGCGAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACG
* *
10424198 CTCAGCTTCGAGGGAACAT
66 CTCAGCTTC-AAGGCACAT
* * * *
10424217 CATTTACAGTATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAACACCTTCGAGTTCGACTAC
1 CATTTACAGCATAACTTAAGGCGAGAAGGGTTATCTGTCACC-AAAGACCTTCGAGTTCGACTAC
*
10424282 GCTCAGC-TCTAAGGCATAT
65 GCTCAGCTTC-AAGGCACAT
* * * * * *
10424301 CGTTTTCAGCATAACTTAAGTCGAGAAGAGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTAC
1 CATTTACAGCATAACTTAAGGCGAGAAGGGTTATCTGTC-ACCAAAGACCTTCGAGTTCGACTAC
*
10424366 GCTCAGCTCCAAGGCACAT
65 GCTCAGCTTCAAGGCACAT
* * ** * * *
10424385 CATTTGCAGCATAGCTTAAGTTGAGAAGGGCTATC--T-ACCAAAGACCTTCGAGTTCGATTACA
1 CATTTACAGCATAACTTAAGGCGAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACG
*
10424447 CTCAGCTTCGAGGGCACAT
66 CTCAGCTTC-AAGGCACAT
* * *
10424466 CATTTACAGCATAACTCAAGGCAAGAAGGGTTATCTGTTA-CAAAGACCTTCGAGTTCGACTACG
1 CATTTACAGCATAACTTAAGGCGAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACG
* *
10424530 CTCAGCTCCAAGGCATAT
66 CTCAGCTTCAAGGCACAT
* *
10424548 CATTT--AGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTAC
1 CATTTACAGCATAACTTAAGGCGAGAAGGGTTATCTGTC-ACCAAAGACCTTCGAGTTCGACTAC
10424611 GCTCAGCTT-AGAGGCACAT
65 GCTCAGCTTCA-AGGCACAT
** * * *
10424630 CATTTGTAGCATAGA-TTAAGTCGATAAGGGTTATCTG---CCAAAGACCTTCGAGTTCGATTAC
1 CATTTACAGCATA-ACTTAAGGCGAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTAC
* *
10424691 ACTCAGCTTCGAGGGCACAT
65 GCTCAGCTTC-AAGGCACAT
* *
10424711 CATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTTA-CAAAGACCTTCGAGTTCGACTACG
1 CATTTACAGCATAACTTAAGGCGAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACG
* *
10424775 CTCAGCTCCAAGGCATAT
66 CTCAGCTTCAAGGCACAT
* * *
10424793 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTAT-TGCCAACCAAAAGACCTTCGAGTTCGACTA
1 CATTTACAGCATAACTTAAGGCGAGAAGGGTTATCTGTC-ACC-AAAGACCTTCGAGTTCGACTA
* *
10424857 CGCTCAGCTCCAAGGCATAT
64 CGCTCAGCTTCAAGGCACAT
* * * * * ** * * *
10424877 CATTTGCAACATAGCTTAAGTCGAGAAGGGCTATCTG---CCAAAGACCCCCAAGTTCGATTACA
1 CATTTACAGCATAACTTAAGGCGAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACG
*
10424939 TTCAGCTTCAAGGGCACAT
66 CTCAGCTTCAA-GGCACAT
* * * *
10424958 CATTTACAGCATAACTCAAGGCTAGAAGGTTTATCTGTCACCGAAGACCTTCGAGTTCGA
1 CATTTACAGCATAACTTAAGGCGAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGA
10425018 TTACACTCTG
Statistics
Matches: 678, Mismatches: 96, Indels: 54
0.82 0.12 0.07
Matches are distributed among these distances:
80 117 0.17
81 114 0.17
82 95 0.14
83 62 0.09
84 257 0.38
85 33 0.05
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.25
Consensus pattern (83 bp):
CATTTACAGCATAACTTAAGGCGAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACG
CTCAGCTTCAAGGCACAT
Found at i:10425921 original size:36 final size:36
Alignment explanation
Indices: 10425791--10426137 Score: 289
Period size: 36 Copynumber: 9.3 Consensus size: 36
10425781 TATGGGTTTT
10425791 AAAACATTTTGAATATATATATATAATATATAGTTTTTGA
1 AAAACATTTTG-A-A-A-ATATATAATATATAGTTTTTGA
*
10425831 AAAACATTTTGAAAATATATATATTATATAGATTTTGAA
1 AAAACATTTTGAAAATATATA-A-TATATAGTTTTTG-A
* * * *
10425870 AAAACGTTTTAAAAATATATACTATATGGTTTTTGA
1 AAAACATTTTGAAAATATATAATATATAGTTTTTGA
* *
10425906 AAAACATTTTGAAAATACATATAAAATATA-TTTTT-C
1 AAAACATTTTGAAAAT--ATATAATATATAGTTTTTGA
* *
10425942 AAAATATTTTGGAAAATATATATAATATATAGTTTTTTAAA
1 AAAACATTTT-G-AAA-ATATATAATATATAG-TTTTT-GA
*
10425983 AAAACATTTTG-AAA-ATATAATATATAGTTTTTTA
1 AAAACATTTTGAAAATATATAATATATAGTTTTTGA
**
10426017 AAATTATTTTGAAAATATATAATATATAGTTTTT--
1 AAAACATTTTGAAAATATATAATATATAGTTTTTGA
* **
10426051 AAAACATTTTTTTTGAAAATATATATTATATAG-TTTAAA
1 AAAACA----TTTTGAAAATATATAATATATAGTTTTTGA
10426090 AAAATCATTTTGGAAAA-ATAT-ATATTATAGTTTTTAGA
1 AAAA-CATTTT-GAAAATATATAATA-TATAGTTTTT-GA
*
10426128 AAAATATTTT
1 AAAACATTTT
10426138 TATATATTAT
Statistics
Matches: 255, Mismatches: 27, Indels: 53
0.76 0.08 0.16
Matches are distributed among these distances:
34 14 0.05
35 10 0.04
36 75 0.29
37 47 0.18
38 54 0.21
39 32 0.13
40 14 0.05
41 9 0.04
ACGTcount: A:0.46, C:0.03, G:0.07, T:0.44
Consensus pattern (36 bp):
AAAACATTTTGAAAATATATAATATATAGTTTTTGA
Found at i:10426132 original size:38 final size:36
Alignment explanation
Indices: 10425787--10426130 Score: 271
Period size: 38 Copynumber: 9.2 Consensus size: 36
10425777 AATGTATGGG
10425787 TTTT-AAAA-CATTTTGAATATATATATATAATATATAGT
1 TTTTAAAAATCATTTTGAA-A-A-ATATAT-ATATATAGT
10425825 TTTTGAAAAA-CATTTTGAAAATATATATATTATATAGAT
1 TTTT-AAAAATCATTTTGAAAA-ATATATA-TATATAG-T
* * * *
10425864 TTTGAAAAAACGTTTT-AAAAATATATACTATATGGT
1 TTTTAAAAATCATTTTGAAAAATATATA-TATATAGT
* *
10425900 TTTTGAAAAA-CATTTTGAAAATACATATAAAATATA-T
1 TTTT-AAAAATCATTTTGAAAA-ATATAT-ATATATAGT
*
10425937 TTTTCAAAAT-ATTTTGGAAAATATATATAATATATAGTT
1 TTTTAAAAATCATTTT-GAAAA-ATATAT-ATATATAG-T
*
10425976 TTTTAAAAAAACATTTTG-AAAATATA-ATATATAGT
1 TTTT-AAAAATCATTTTGAAAAATATATATATATAGT
* *
10426011 TTTTTAAAATTATTTTG-AAAATATATAATATATAGT
1 TTTTAAAAATCATTTTGAAAAATATAT-ATATATAGT
**
10426047 TTTTAAAACATTTTTTTTG-AAAATATATATTATATAGT
1 TTTTAAAA-A-TCATTTTGAAAAATATATA-TATATAGT
**
10426085 TTAAAAAAATCATTTTGGAAAAATATATAT-TATAGT
1 TTTTAAAAATCATTTT-GAAAAATATATATATATAGT
10426121 TTTTAGAAAA
1 TTTTA-AAAA
10426131 ATATTTTTAT
Statistics
Matches: 258, Mismatches: 25, Indels: 47
0.78 0.08 0.14
Matches are distributed among these distances:
34 18 0.07
35 5 0.02
36 56 0.22
37 55 0.21
38 82 0.32
39 19 0.07
40 18 0.07
41 5 0.02
ACGTcount: A:0.46, C:0.03, G:0.07, T:0.44
Consensus pattern (36 bp):
TTTTAAAAATCATTTTGAAAAATATATATATATAGT
Found at i:10426172 original size:19 final size:21
Alignment explanation
Indices: 10426135--10426189 Score: 66
Period size: 18 Copynumber: 2.9 Consensus size: 21
10426125 AGAAAAATAT
10426135 TTTTATATATTATTTATTATC
1 TTTTATATATTATTTATTATC
10426156 TTTTAT-TATTA-TTATTAT-
1 TTTTATATATTATTTATTATC
*
10426174 TATT-TAT-TTATTTATT
1 TTTTATATATTATTTATT
10426190 CCTTTTCTCT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
17 4 0.13
18 9 0.29
19 7 0.23
20 5 0.16
21 6 0.19
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (21 bp):
TTTTATATATTATTTATTATC
Found at i:10427612 original size:24 final size:23
Alignment explanation
Indices: 10427583--10427642 Score: 77
Period size: 24 Copynumber: 2.6 Consensus size: 23
10427573 CATTTTTTGC
10427583 TTTATTTAATTTTTTTACTTATTT
1 TTTATTTAATTTTTTTACTTA-TT
* *
10427607 TTTATTTATTTATTTTTATTTATT
1 TTTATTTAATT-TTTTTACTTATT
10427631 TTTATTT-ATTTT
1 TTTATTTAATTTT
10427643 CATTTTCTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
22 2 0.06
23 2 0.06
24 19 0.59
25 9 0.28
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (23 bp):
TTTATTTAATTTTTTTACTTATT
Found at i:10427616 original size:4 final size:4
Alignment explanation
Indices: 10427583--10427641 Score: 56
Period size: 4 Copynumber: 15.8 Consensus size: 4
10427573 CATTTTTTGC
* *
10427583 TTTA TTTAA TTTT TTTA CTTA TTT- TTTA TTTA TTTA -TT- TTTA TTTA
1 TTTA TTT-A TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
10427629 -TT- TTTA TTTA TTT
1 TTTA TTTA TTTA TTT
10427642 TCATTTTCTT
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
3 11 0.24
4 30 0.67
5 4 0.09
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:10427624 original size:10 final size:10
Alignment explanation
Indices: 10427601--10427647 Score: 67
Period size: 10 Copynumber: 4.6 Consensus size: 10
10427591 ATTTTTTTAC
*
10427601 TTATTTTTTAT
1 TTATTTATT-T
10427612 TTATTTATTT
1 TTATTTATTT
10427622 TTATTTATTT
1 TTATTTATTT
10427632 TTATTTATTT
1 TTATTTATTT
*
10427642 TCATTT
1 TTATTT
10427648 TCTTATATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
10 26 0.76
11 8 0.24
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (10 bp):
TTATTTATTT
Found at i:10427653 original size:24 final size:23
Alignment explanation
Indices: 10427583--10427653 Score: 65
Period size: 24 Copynumber: 3.0 Consensus size: 23
10427573 CATTTTTTGC
*
10427583 TTTATTTAATTTT-TTTACTTATTT
1 TTTATTT-ATTTTATTTTCTTA-TT
*
10427607 TTTATTTA-TTTATTTTTATTTATT
1 TTTATTTATTTTA-TTTT-CTTATT
10427631 TTTATTTATTTTCATTTTCTTAT
1 TTTATTTATTTT-ATTTTCTTAT
10427654 ATATATATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
22 3 0.08
23 1 0.03
24 24 0.62
25 10 0.26
26 1 0.03
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (23 bp):
TTTATTTATTTTATTTTCTTATT
Found at i:10428320 original size:2 final size:2
Alignment explanation
Indices: 10428315--10428340 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
10428305 GAGGGGGGGG
10428315 GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA
10428341 AGAACTTACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:10428520 original size:2 final size:2
Alignment explanation
Indices: 10428515--10428542 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
10428505 AGGGGGGGGG
10428515 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
10428543 AAAGAACTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:10428606 original size:204 final size:199
Alignment explanation
Indices: 10428261--10428664 Score: 754
Period size: 204 Copynumber: 2.0 Consensus size: 199
10428251 TATAATAATG
10428261 TAACTGTCAAATTAAAATAAAAATTATTTGCAATAGGAGGGAGAGAGGGGGGGGGAGAGAGAGAG
1 TAACTGTCAAATTAAAATAAAAATTATTTGCAATAGGAGGGAGAGAGGGGGGGGGAGAGAGAGAG
10428326 AGAGAGAGAGAGAGAAGAACTTACATGAACAAAATTGGGATTTCGGAGATGGTTTTCTTCTTTAT
66 AGAGAGAGAGAGAGAAGAACTTACATGAACAAAATTGGGATTTCGGAGATGGTTTTCTTCTTTAT
10428391 ATGTAAATGAACTTTTGAAAATTGAAATTACGAAATACCAATAATGTCCCAATCCCCCTTACCTC
131 ATGTAAATGAACTTTTGAAAATTGAAATTACGAAATACCAATAATGTCCCAATCCCCCTTACCTC
10428456 TCTA
196 TCTA
10428460 TAACTGTCAAATTAAAATAAAAATTATTTGCAATAGGAGGGAGAGAGGGGGGGGGGAGAGAGAGA
1 TAACTGTCAAATTAAAATAAAAATTATTTGCAATAGGAGGGAGAGA--GGGGGGGG-GAGAGAGA
*
10428525 GAGAGAGAGAGAGAGAGAAAAGAACTTACATGAACAAAATTGGGATTTGGGAGATGGTTTTCTTC
63 GAGAGAGAGAGAGAGAG--AAGAACTTACATGAACAAAATTGGGATTTCGGAGATGGTTTTCTTC
10428590 TTTATATGTAAATGAACTTTTGAAAATTGAAATTACGAAATACCAATAATGTCCCAATCCCCCTT
126 TTTATATGTAAATGAACTTTTGAAAATTGAAATTACGAAATACCAATAATGTCCCAATCCCCCTT
10428655 ACCTCTCTA
191 ACCTCTCTA
10428664 T
1 T
10428665 CTATCCATCT
Statistics
Matches: 199, Mismatches: 1, Indels: 5
0.97 0.00 0.02
Matches are distributed among these distances:
199 46 0.23
201 8 0.04
202 25 0.13
204 120 0.60
ACGTcount: A:0.38, C:0.12, G:0.24, T:0.26
Consensus pattern (199 bp):
TAACTGTCAAATTAAAATAAAAATTATTTGCAATAGGAGGGAGAGAGGGGGGGGGAGAGAGAGAG
AGAGAGAGAGAGAGAAGAACTTACATGAACAAAATTGGGATTTCGGAGATGGTTTTCTTCTTTAT
ATGTAAATGAACTTTTGAAAATTGAAATTACGAAATACCAATAATGTCCCAATCCCCCTTACCTC
TCTA
Found at i:10430723 original size:15 final size:15
Alignment explanation
Indices: 10430695--10430735 Score: 73
Period size: 15 Copynumber: 2.7 Consensus size: 15
10430685 TATTTTTTTA
10430695 TTTAAAATAAAATATT
1 TTTAAAA-AAAATATT
10430711 TTTAAAAAAAATATT
1 TTTAAAAAAAATATT
10430726 TTTAAAAAAA
1 TTTAAAAAAA
10430736 TCTGAATGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 18 0.72
16 7 0.28
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
TTTAAAAAAAATATT
Found at i:10437628 original size:43 final size:43
Alignment explanation
Indices: 10437552--10437672 Score: 172
Period size: 43 Copynumber: 2.8 Consensus size: 43
10437542 CTAGACCATA
*
10437552 ACATTCACCTTGCTTCTCGACCCGT-GAATAACTTCATTCTTCT
1 ACATTCACCTTGCTTCTCGACCC-TCGAAGAACTTCATTCTTCT
* * *
10437595 ACATTCATCTTGCTTCCCCACCCTCGAAGAACTTCATTCTTCT
1 ACATTCACCTTGCTTCTCGACCCTCGAAGAACTTCATTCTTCT
* *
10437638 ACATTCACCTTGCTTCTTGGCCCTCGAAGAACTTC
1 ACATTCACCTTGCTTCTCGACCCTCGAAGAACTTC
10437673 TCAACACTCG
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
42 1 0.01
43 67 0.99
ACGTcount: A:0.21, C:0.35, G:0.10, T:0.35
Consensus pattern (43 bp):
ACATTCACCTTGCTTCTCGACCCTCGAAGAACTTCATTCTTCT
Found at i:10439449 original size:25 final size:22
Alignment explanation
Indices: 10439404--10439450 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 22
10439394 TAGGATGACC
10439404 TATTATCTTTTAGGATTAGATT
1 TATTATCTTTTAGGATTAGATT
*
10439426 TATTATTTTATTAGGAATTAAGATT
1 TATTATCTT-TTAGG-ATT-AGATT
10439451 GAGTTAAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 8 0.38
23 5 0.24
24 3 0.14
25 5 0.24
ACGTcount: A:0.32, C:0.02, G:0.13, T:0.53
Consensus pattern (22 bp):
TATTATCTTTTAGGATTAGATT
Found at i:10444306 original size:35 final size:35
Alignment explanation
Indices: 10444263--10444370 Score: 112
Period size: 35 Copynumber: 3.1 Consensus size: 35
10444253 ACACATTATT
*
10444263 CATCATTGTGCATACTCTAAATATGACATATGACA
1 CATCATTGTGCATACTCTAAATATGACACATGACA
* * * **
10444298 CA-CTATTGTGTATTA-TCTGAATACGACACATGATT
1 CATC-ATTGTGCA-TACTCTAAATATGACACATGACA
* *
10444333 CATCGTTATGCATACTCTAAATATGACACATGACA
1 CATCATTGTGCATACTCTAAATATGACACATGACA
10444368 CAT
1 CAT
10444371 GACACACTAT
Statistics
Matches: 56, Mismatches: 13, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
34 3 0.05
35 50 0.89
36 3 0.05
ACGTcount: A:0.35, C:0.20, G:0.12, T:0.32
Consensus pattern (35 bp):
CATCATTGTGCATACTCTAAATATGACACATGACA
Found at i:10444316 original size:70 final size:70
Alignment explanation
Indices: 10444203--10444409 Score: 234
Period size: 70 Copynumber: 2.9 Consensus size: 70
10444193 AATTGTTTTC
* ** * * * * *
10444203 CATACTCGAAATATGACGCATAACACACTATTATATATTATCTGGATGTGACACATTATTCATCA
1 CATACTCTAAATATGACATATGACACACTATTGTGTATTATCTGAATGTGACACATGATTCATCA
*
10444268 TTGTG
66 TTATG
** *
10444273 CATACTCTAAATATGACATATGACACACTATTGTGTATTATCTGAATACGACACATGATTCATCG
1 CATACTCTAAATATGACATATGACACACTATTGTGTATTATCTGAATGTGACACATGATTCATCA
10444338 TTATG
66 TTATG
*
10444343 CATACTCTAAATATGACACATGACACATGACACACTATTGTGCATTATCTGAATGTGACACATGA
1 CATACTCTAAATATG--ACAT-----ATGACACACTATTGTGTATTATCTGAATGTGACACATGA
10444408 TT
59 TT
10444410 TCGTTGTACA
Statistics
Matches: 115, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
70 73 0.63
72 4 0.03
77 38 0.33
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.33
Consensus pattern (70 bp):
CATACTCTAAATATGACATATGACACACTATTGTGTATTATCTGAATGTGACACATGATTCATCA
TTATG
Found at i:10444507 original size:35 final size:35
Alignment explanation
Indices: 10444468--10444543 Score: 107
Period size: 35 Copynumber: 2.2 Consensus size: 35
10444458 TATAAATACA
* *
10444468 ACACACGACTCTCTATTATGAATTATTTTAATGTG
1 ACACACGACTCTCTATTATGAATTATTTGAATATG
* * *
10444503 ACACATGACTCTCTATTGTGCATTATTTGAATATG
1 ACACACGACTCTCTATTATGAATTATTTGAATATG
10444538 ACACAC
1 ACACAC
10444544 TGTTAGTATT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.37
Consensus pattern (35 bp):
ACACACGACTCTCTATTATGAATTATTTGAATATG
Found at i:10454458 original size:45 final size:47
Alignment explanation
Indices: 10454373--10454460 Score: 126
Period size: 45 Copynumber: 1.9 Consensus size: 47
10454363 TATTATTTTA
* * * *
10454373 TTTTCTGAATAAATGCATGTGAACTAGAAATCATGCGGTTAGGTTAT
1 TTTTCTAAACAAATGCATGTGAACTAGAAAGCATGAGGTTAGGTTAT
10454420 TTTTCTAAACAAA-GCATG-GAACTAGAAAGCATGAGGTTAGG
1 TTTTCTAAACAAATGCATGTGAACTAGAAAGCATGAGGTTAGG
10454461 ATATATATGA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
45 21 0.57
46 5 0.14
47 11 0.30
ACGTcount: A:0.35, C:0.11, G:0.23, T:0.31
Consensus pattern (47 bp):
TTTTCTAAACAAATGCATGTGAACTAGAAAGCATGAGGTTAGGTTAT
Found at i:10459383 original size:22 final size:22
Alignment explanation
Indices: 10459352--10459403 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
10459342 GCCTACATGC
* *
10459352 TTCAAAGATGATATATTCTCTT
1 TTCAAAGATGATAGATTATCTT
*
10459374 TTTAAAGATGATAGATTATCTT
1 TTCAAAGATGATAGATTATCTT
10459396 TTCAAAGA
1 TTCAAAGA
10459404 CAGAAAGCTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.37, C:0.10, G:0.12, T:0.42
Consensus pattern (22 bp):
TTCAAAGATGATAGATTATCTT
Found at i:10460255 original size:42 final size:42
Alignment explanation
Indices: 10460179--10460284 Score: 117
Period size: 42 Copynumber: 2.5 Consensus size: 42
10460169 CACGAATTTG
* * *
10460179 TAAATCCTTTGGGTCATCTGT-AAGTCCTTCGAGCATGATGTT
1 TAAATCCTTAGGGTCATCTGTCAAGTCCTTCGAGCAAGATG-A
* * *
10460221 TAAATCCTTCGGGTCATCTGTCAA-TCTTTTGAGCAAGATGA
1 TAAATCCTTAGGGTCATCTGTCAAGTCCTTCGAGCAAGATGA
* *
10460262 TAAGTCCTTAGGGCCATCTGTCA
1 TAAATCCTTAGGGTCATCTGTCA
10460285 GACCTTTGGG
Statistics
Matches: 55, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
41 20 0.36
42 33 0.60
43 2 0.04
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.35
Consensus pattern (42 bp):
TAAATCCTTAGGGTCATCTGTCAAGTCCTTCGAGCAAGATGA
Found at i:10460499 original size:3 final size:3
Alignment explanation
Indices: 10460482--10460563 Score: 71
Period size: 3 Copynumber: 26.7 Consensus size: 3
10460472 ATATATTACA
*
10460482 ATT ATT AATT A-T ATT ATT ATT ATT GTT ATT ATT ATT ATT ATT A-T
1 ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
10460526 ATT ACAT ATTT ATT ATAT ATA ATAT ATT ATT A-T ATT AT
1 ATT A-TT A-TT ATT AT-T ATT AT-T ATT ATT ATT ATT AT
10460564 ATTTGCATTT
Statistics
Matches: 65, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
2 6 0.09
3 47 0.72
4 12 0.18
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:10460540 original size:16 final size:16
Alignment explanation
Indices: 10460484--10460562 Score: 74
Period size: 17 Copynumber: 4.8 Consensus size: 16
10460474 ATATTACAAT
10460484 TATTAATTATATT-AT-
1 TATT-ATTATATTAATA
* *
10460499 TATTATTGTTATTATTA
1 TATTATT-ATATTAATA
10460516 TTATTATTATATTACATA
1 -TATTATTATATTA-ATA
10460534 T-TTATTATATATAATA
1 TATTATTATAT-TAATA
10460550 TATTATTATATTA
1 TATTATTATATTA
10460563 TATTTGCATT
Statistics
Matches: 53, Mismatches: 4, Indels: 13
0.76 0.06 0.19
Matches are distributed among these distances:
14 3 0.06
15 8 0.15
16 16 0.30
17 17 0.32
18 9 0.17
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.59
Consensus pattern (16 bp):
TATTATTATATTAATA
Found at i:10460682 original size:22 final size:23
Alignment explanation
Indices: 10460649--10460699 Score: 86
Period size: 22 Copynumber: 2.3 Consensus size: 23
10460639 TCTAGATCCT
10460649 ACCCAGAAGGCCCAACAGATCTG
1 ACCCAGAAGGCCCAACAGATCTG
10460672 ACCC-GAAGGCCCAACAGATCTG
1 ACCCAGAAGGCCCAACAGATCTG
*
10460694 ATCCAG
1 ACCCAG
10460700 GCCCAAGAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 21 0.81
23 5 0.19
ACGTcount: A:0.33, C:0.35, G:0.22, T:0.10
Consensus pattern (23 bp):
ACCCAGAAGGCCCAACAGATCTG
Found at i:10460703 original size:20 final size:21
Alignment explanation
Indices: 10460655--10460705 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 21
10460645 TCCTACCCAG
10460655 AAGGCCCAACAGATCTGACCC
1 AAGGCCCAACAGATCTGACCC
*
10460676 GAAGGCCCAACAGATCTGATCC
1 -AAGGCCCAACAGATCTGACCC
10460698 -AGGCCCAA
1 AAGGCCCAA
10460706 GAAGCCCAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
20 8 0.29
22 20 0.71
ACGTcount: A:0.33, C:0.35, G:0.22, T:0.10
Consensus pattern (21 bp):
AAGGCCCAACAGATCTGACCC
Found at i:10465409 original size:81 final size:81
Alignment explanation
Indices: 10465253--10465412 Score: 196
Period size: 81 Copynumber: 2.0 Consensus size: 81
10465243 GGAGTTGTTA
* * * *
10465253 TTCTAGAAAAAGTATTTCTAAATTAGAGGAAGGTTTCTTGTCTTGAGGTAATGATGTAATAAGAT
1 TTCTAGAAAAAGTATTTCTAAATTAGAGGAAGGTTTCTTGTATAGAGATAATGATGCAATAAGAT
**
10465318 TAGCTGGTTGGGAAGG
66 TAGCCAGTTGGGAAGG
* * * * *
10465334 TTCTGGAAAAAGTATTTCTAGATTAGAGGAAGG-TTGTTGATATAGAGATAATGATGCAGTAGGA
1 TTCTAGAAAAAGTATTTCTAAATTAGAGGAAGGTTTCTTG-TATAGAGATAATGATGCAATAAGA
*
10465398 TTGGCCAGTTGGGAA
65 TTAGCCAGTTGGGAA
10465413 AATTATTACT
Statistics
Matches: 66, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
80 5 0.08
81 61 0.92
ACGTcount: A:0.33, C:0.06, G:0.29, T:0.33
Consensus pattern (81 bp):
TTCTAGAAAAAGTATTTCTAAATTAGAGGAAGGTTTCTTGTATAGAGATAATGATGCAATAAGAT
TAGCCAGTTGGGAAGG
Found at i:10468833 original size:23 final size:23
Alignment explanation
Indices: 10468807--10468867 Score: 59
Period size: 23 Copynumber: 2.7 Consensus size: 23
10468797 GACCGTATAT
* **
10468807 ATGTCCTGAATGACTGCGTAGAA
1 ATGTCCTGAAGGACCACGTAGAA
*
10468830 ATGTCCCGAAGGACCACGTAGAA
1 ATGTCCTGAAGGACCACGTAGAA
* * *
10468853 TTGTCATGAAAGACC
1 ATGTCCTGAAGGACC
10468868 GTGTAGAACC
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.21
Consensus pattern (23 bp):
ATGTCCTGAAGGACCACGTAGAA
Found at i:10469585 original size:19 final size:19
Alignment explanation
Indices: 10469561--10469606 Score: 92
Period size: 19 Copynumber: 2.4 Consensus size: 19
10469551 CCTTATTGTG
10469561 GTATCGATCCTATACTTCA
1 GTATCGATCCTATACTTCA
10469580 GTATCGATCCTATACTTCA
1 GTATCGATCCTATACTTCA
10469599 GTATCGAT
1 GTATCGAT
10469607 ACTCTTTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.26, C:0.24, G:0.13, T:0.37
Consensus pattern (19 bp):
GTATCGATCCTATACTTCA
Found at i:10473162 original size:14 final size:14
Alignment explanation
Indices: 10473115--10473162 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
10473105 TTCGAAATCC
10473115 AAATTAAAATACTAA
1 AAATTAAAATA-TAA
*
10473130 AAATT-AAATTTAA
1 AAATTAAAATATAA
**
10473143 TGATTAAAATATAA
1 AAATTAAAATATAA
10473157 AAATTA
1 AAATTA
10473163 CAAAAGTAGA
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
13 6 0.23
14 15 0.58
15 5 0.19
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (14 bp):
AAATTAAAATATAA
Found at i:10474661 original size:84 final size:83
Alignment explanation
Indices: 10474246--10475361 Score: 1198
Period size: 84 Copynumber: 13.4 Consensus size: 83
10474236 TGCCATGTCC
* * * * * *
10474246 TTGAGCTGAATATAATCGAAATCGAAGGTTTCATTGTTGACAGATAGCCCTTCTTGCCTTGAGCT
1 TTGAGCTGAGTGTAATCGAACTCGAAGG--TCTTTGTTGGCAGATAACCCTTCTTGCCTTGAGCT
* *
10474311 ATGCTGTAAATTTGATATGCCT
64 ATGCTGCAAA--TGATGTGCCT
* * * * * * * ** *
10474333 CTGAGTTAAATGTAATCGAACTCAAAGGTATTTGATGATAGATAACCCTTCTTGCCTTGAGTTAT
1 TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCTTGCCTTGAGCTAT
* * *
10474398 GTTGTAAATTTGATATGCCT
66 GCTGCAAA--TGATGTGCCT
* * * * * * * * * * * *
10474418 TTGAGTTGAATATAATCGAACTCAAATGACTTTGATGACAGATAACCCTTCTCGTCTTGTGTTAT
1 TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCTTGCCTTGAGCTAT
* * *
10474483 ACTGTAAATAATGTGCCT
66 GCTGCAAATGATGTGCCT
* * *
10474501 TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGATGAG-AGATAACCCTTCTCGCCTTGAGATA
1 TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTG-GCAGATAACCCTTCTTGCCTTGAGCTA
*
10474565 TGCTACAAATGATGTGCCT
65 TGCTGCAAATGATGTGCCT
* * * * * *
10474584 TTGAGCTAAGTGTAATCAAATTCGAAGGTCTTTTGCTGGTAGATAACCCTTCTCGCCTTGAGCTA
1 TTGAGCTGAGTGTAATCGAACTCGAAGGTC-TTTGTTGGCAGATAACCCTTCTTGCCTTGAGCTA
10474649 TGCTGCAAATGATGTGCCT
65 TGCTGCAAATGATGTGCCT
* *
10474668 TTTAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGCCTTGAGCTA
1 TTGAGCTGAGTGTAATCGAACTCGAAGGTC-TTTGTTGGCAGATAACCCTTCTTGCCTTGAGCTA
*
10474733 TGCTGCAAATAATGTGCCT
65 TGCTGCAAATGATGTGCCT
* * * *
10474752 TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTTTTGGTAGATAACCCTTCTCGCCTTAAGC--
1 TTGAGCTGAGTGTAATCGAACTCGAAGGTC-TTTGTTGGCAGATAACCCTTCTTGCCTTGAGCTA
10474815 T-CTGCAAATGATGTGCCT
65 TGCTGCAAATGATGTGCCT
* * *
10474833 TTGAACTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAGCCTTTCTTGCCTTGAGCTA
1 TTGAGCTGAGTGTAATCGAACTCGAAGGTC-TTTGTTGGCAGATAACCCTTCTTGCCTTGAGCTA
* *
10474898 TGCTGTAAATAATGTGCCT
65 TGCTGCAAATGATGTGCCT
* * ** **
10474917 TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAAATAACCCTTCTAACCTTGATTTAT
1 TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCTTGCCTTGAGCTAT
* *
10474982 GATGTAAATGATGT-CCAT
66 GCTGCAAATGATGTGCC-T
* * * *
10475000 TTGAGTTGAGTGTAATCGAACTCGAAGATC--T-TTGGCAGATAGCCTTTCTTGCCTTGAGCTAT
1 TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCTTGCCTTGAGCTAT
* *
10475062 GTTGCAAATGATGTGACT
66 GCTGCAAATGATGTGCCT
* * *
10475080 TTGAGCTGAATGGAATCGAACTCGAAGGTC--T-TTGGCAGATAGCCCTTCTTGCCTTGAGCTAT
1 TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCTTGCCTTGAGCTAT
* *
10475142 ACTGCAAATGATGTGCCC
66 GCTGCAAATGATGTGCCT
* * *
10475160 TTGAGCTGAGCGTAATCGAACTCGAAGGTC--T-TTGGCAGATAGCCCTTCTTGCCTTAAGCTAT
1 TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCTTGCCTTGAGCTAT
* *
10475222 GTTGTAAATGATGTGCCT
66 GCTGCAAATGATGTGCCT
**
10475240 TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAGTCCTTCTTGCCTTGAGCTA
1 TTGAGCTGAGTGTAATCGAACTCGAAGGTC-TTTGTTGGCAGATAACCCTTCTTGCCTTGAGCTA
* *
10475305 TGCTGAAAATGATGTGTCT
65 TGCTGCAAATGATGTGCCT
* * * *
10475324 TTGAGCTAAGTCTAATCAAACTCGATGGTCTTTTGTTG
1 TTGAGCTGAGTGTAATCGAACTCGAAGGTC-TTTGTTG
10475362 AGGGTGCTTT
Statistics
Matches: 898, Mismatches: 119, Indels: 27
0.86 0.11 0.03
Matches are distributed among these distances:
80 208 0.23
81 74 0.08
82 3 0.00
83 174 0.19
84 306 0.34
85 111 0.12
87 22 0.02
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.34
Consensus pattern (83 bp):
TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCTTGCCTTGAGCTAT
GCTGCAAATGATGTGCCT
Found at i:10480954 original size:14 final size:14
Alignment explanation
Indices: 10480907--10480954 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
10480897 TTCGAAATCC
10480907 AAATTAAAATACTAA
1 AAATTAAAATA-TAA
*
10480922 AAATT-AAATTTAA
1 AAATTAAAATATAA
**
10480935 TGATTAAAATATAA
1 AAATTAAAATATAA
10480949 AAATTA
1 AAATTA
10480955 CAAAAGTAGA
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
13 6 0.23
14 15 0.58
15 5 0.19
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (14 bp):
AAATTAAAATATAA
Found at i:10482087 original size:87 final size:84
Alignment explanation
Indices: 10481886--10482334 Score: 354
Period size: 85 Copynumber: 5.3 Consensus size: 84
10481876 ATTCTTGTTG
* ** * * * * *
10481886 AGATAGCCCTTCTCGAATTGAGCTATGCTGT-AATTTGATATGTCCATGAGTTGAATGTAATC-A
1 AGATAGCCCTTCTTGCCTTGAGATATGTTGTAAATTTGATATG-CCTTGAGCTGAATATAATCGA
* *
10481949 AACTC-AAAG-ATTTGCTGAC
65 AA-TCGAAGGTATTTGATGAC
* * * * **
10481968 AGATAGCTCTTCTCGCCTTAAGCTATGTTGTAAATTTGCCATGTCCTTGAGCTGAATATAATCGA
1 AGATAGCCCTTCTTGCCTTGAGATATGTTGTAAATTTGATATG-CCTTGAGCTGAATATAATCGA
* *
10482033 AATCGAAGGTTTCATTGTTGAC
65 AATCGAAGGTAT--TTGATGAC
* * * *
10482055 AGATAGCCCTTCTTGCCTTGAGATATGCTGTAAATTTGATATGCCTCTGAGTTAAATGTAATCGA
1 AGATAGCCCTTCTTGCCTTGAGATATGTTGTAAATTTGATATGCCT-TGAGCTGAATATAATCGA
* *
10482120 ACTCGAAGGTATTTGATGAT
65 AATCGAAGGTATTTGATGAC
* *
10482140 AGATAACCCTTCTTGCCTTGAGTTATGTTGTAAATTTGATATGCCTTTGAGCTGAATATAATCGA
1 AGATAGCCCTTCTTGCCTTGAGATATGTTGTAAATTTGATATGCC-TTGAGCTGAATATAATCGA
* * *
10482205 ACTCAAATG-ACTTTGATGAC
65 AATCGAAGGTA-TTTGATGAC
* * * * * ** * * * * *
10482225 AGATAACCCTTCTCGTCTTGTGTTATACTGTAAA--TAATGTGCCTTTGAGTTGAGTGTAATCGA
1 AGATAGCCCTTCTTGCCTTGAGATATGTTGTAAATTTGATATGCC-TTGAGCTGAATATAATCGA
* * *
10482288 ACTCGAAGGTCTTTGATGAA
65 AATCGAAGGTATTTGATGAC
* *
10482308 AGATAACCCTTCTCGCCTTGAGATATG
1 AGATAGCCCTTCTTGCCTTGAGATATG
10482335 CTACAAATGA
Statistics
Matches: 303, Mismatches: 54, Indels: 19
0.81 0.14 0.05
Matches are distributed among these distances:
82 26 0.09
83 90 0.30
84 7 0.02
85 108 0.36
86 4 0.01
87 68 0.22
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (84 bp):
AGATAGCCCTTCTTGCCTTGAGATATGTTGTAAATTTGATATGCCTTGAGCTGAATATAATCGAA
ATCGAAGGTATTTGATGAC
Found at i:10482172 original size:85 final size:85
Alignment explanation
Indices: 10481886--10482666 Score: 524
Period size: 83 Copynumber: 9.4 Consensus size: 85
10481876 ATTCTTGTTG
* ** * * *
10481886 AGATAGCCCTTCTCGAATTGAGCTATGCTGT-AATTTGATATGTCC-ATGAGTTGAATGTAATCA
1 AGATAACCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATATG-CCTTTGAGCTGAATGTAATCG
* *
10481949 AACTC-AAAG-ATTTGCTGAC
65 AACTCGAAGGTATTTGATGAC
* * * * ** *
10481968 AGATAGCTCTTCTCGCCTTAAGCTATGTTGTAAATTTGCCATGTCC-TTGAGCTGAATATAATCG
1 AGATAACCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATATG-CCTTTGAGCTGAATGTAATCG
* * *
10482032 AAATCGAAGGTTTCATTGTTGAC
65 AACTCGAAGGTAT--TTGATGAC
* * * * * *
10482055 AGATAGCCCTTCTTGCCTTGAGATATGCTGTAAATTTGATATGCCTCTGAGTTAAATGTAATCGA
1 AGATAACCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATATGCCTTTGAGCTGAATGTAATCGA
*
10482120 ACTCGAAGGTATTTGATGAT
66 ACTCGAAGGTATTTGATGAC
* * * *
10482140 AGATAACCCTTCTTGCCTTGAGTTATGTTGTAAATTTGATATGCCTTTGAGCTGAATATAATCGA
1 AGATAACCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATATGCCTTTGAGCTGAATGTAATCGA
* *
10482205 ACTCAAATG-ACTTTGATGAC
66 ACTCGAAGGTA-TTTGATGAC
* * * * * * * *
10482225 AGATAACCCTTCTCGTCTTGTGTTATACTGTAAA--TAATGTGCCTTTGAGTTGAGTGTAATCGA
1 AGATAACCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATATGCCTTTGAGCTGAATGTAATCGA
* *
10482288 ACTCGAAGGTCTTTGATGAA
66 ACTCGAAGGTATTTGATGAC
* ** * *
10482308 AGATAACCCTTCTCGCCTTGAGATATGCTACAAA--TGATGTGCCTTTGAGCT-AAGTGTAATCA
1 AGATAACCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATATGCCTTTGAGCTGAA-TGTAATCG
* * * **
10482370 AATTCGAAGGTCTTTTGCTGGT
65 AACTCGAAGGT-ATTTGATGAC
* *
10482392 AGATAA-CCTTCTCGCCTTGAGCTATGCTG-CAATGTT-TTA-G-C--TGAG-TGTAATCG-AAC
1 AGATAACCCTTCTCGCCTTGAGCTATGCTGTAAAT-TTGATATGCCTTTGAGCTG-AAT-GTAA-
* * * *
10482448 TCGAAGGTTCGAAGGTCTTTTGTTGGC
62 TCGAA--CTCGAAGGT-ATTTGATGAC
* * * *
10482475 AGATAACCCTTCTCCGCCTTGAGCTATGCTGCAAA--TAATGTGCCTTTGAGCTGAGTGTAATCG
1 AGATAACCCTTCT-CGCCTTGAGCTATGCTGTAAATTTGATATGCCTTTGAGCTGAATGTAATCG
* ** **
10482538 AACTCGAAGGTCTTTTTTGGT
65 AACTCGAAGGTATTTGATGAC
* * * * *
10482559 AGATAACCCTTCTCGCCTTAAGC--T-CTGCAAA--TGATGTGCCTTTGAACTGAGTGTAATCGA
1 AGATAACCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATATGCCTTTGAGCTGAATGTAATCGA
* * *
10482619 ACTC--AGGTCTTTTGTTGGC
66 ACTCGAAGGT-ATTTGATGAC
* *
10482638 AGAT-AGCCTTCTTGCCTTGAGCTATGCTG
1 AGATAACCCTTCTCGCCTTGAGCTATGCTG
10482667 ACAAATAACC
Statistics
Matches: 572, Mismatches: 94, Indels: 67
0.78 0.13 0.09
Matches are distributed among these distances:
78 19 0.03
79 12 0.02
80 46 0.08
81 11 0.02
82 30 0.05
83 185 0.32
84 44 0.08
85 136 0.24
86 5 0.01
87 74 0.13
88 8 0.01
89 2 0.00
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (85 bp):
AGATAACCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATATGCCTTTGAGCTGAATGTAATCGA
ACTCGAAGGTATTTGATGAC
Found at i:10482193 original size:172 final size:172
Alignment explanation
Indices: 10481886--10482380 Score: 503
Period size: 168 Copynumber: 2.9 Consensus size: 172
10481876 ATTCTTGTTG
* * *
10481886 AGATAGCCCTTCTCGAATTGAGCTATGCTGT-AATTTGATATGTCC-ATGAGTTGAATGTAATCA
1 AGATAGCCCTTCTCGACTTGAGATATGCTGTAAATTTGATATG-CCTATGAGTTGAATGTAATCG
* * * * * * * **
10481949 AACTC-AAAG-ATTTGCTGACAGATAGCTCTTCTCGCCTTAAGCTATGTTGTAAATTTGCCATGT
65 AACTCGAAGGTATTTGATGAAAGATAACCCTTCTCGCCTTGAGATATGTTGTAAATTTGATATG-
** *
10482012 CC-TTGAGCTGAATATAATCGAAATCGAAGGTTTCATTGTTGAC
129 CCTTTGAGCTGAATATAATCGAAATCGAAGGTGACATTGATGAC
* * * *
10482055 AGATAGCCCTTCTTGCCTTGAGATATGCTGTAAATTTGATATGCCTCTGAGTTAAATGTAATCGA
1 AGATAGCCCTTCTCGACTTGAGATATGCTGTAAATTTGATATGCCTATGAGTTGAATGTAATCGA
* * *
10482120 ACTCGAAGGTATTTGATGATAGATAACCCTTCTTGCCTTGAGTTATGTTGTAAATTTGATATGCC
66 ACTCGAAGGTATTTGATGAAAGATAACCCTTCTCGCCTTGAGATATGTTGTAAATTTGATATGCC
* * *
10482185 TTTGAGCTGAATATAATCGAACTC-AA-ATGACTTTGATGAC
131 TTTGAGCTGAATATAATCGAAATCGAAGGTGACATTGATGAC
* * * * * * * * *
10482225 AGATAACCCTTCTCGTCTTGTGTTATACTGTAAA--TAATGTGCCTTTGAGTTGAGTGTAATCGA
1 AGATAGCCCTTCTCGACTTGAGATATGCTGTAAATTTGATATGCCTATGAGTTGAATGTAATCGA
* * ** *
10482288 ACTCGAAGGTCTTTGATGAAAGATAACCCTTCTCGCCTTGAGATATGCTACAAA--TGATGTGCC
66 ACTCGAAGGTATTTGATGAAAGATAACCCTTCTCGCCTTGAGATATGTTGTAAATTTGATATGCC
*
10482351 TTTGAGCT-AAGTGTAATC-AAATTCGAAGGT
131 TTTGAGCTGAA-TATAATCGAAA-TCGAAGGT
10482381 CTTTTGCTGG
Statistics
Matches: 272, Mismatches: 45, Indels: 19
0.81 0.13 0.06
Matches are distributed among these distances:
165 4 0.01
166 24 0.09
167 2 0.01
168 72 0.26
169 29 0.11
170 68 0.25
171 7 0.03
172 66 0.24
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (172 bp):
AGATAGCCCTTCTCGACTTGAGATATGCTGTAAATTTGATATGCCTATGAGTTGAATGTAATCGA
ACTCGAAGGTATTTGATGAAAGATAACCCTTCTCGCCTTGAGATATGTTGTAAATTTGATATGCC
TTTGAGCTGAATATAATCGAAATCGAAGGTGACATTGATGAC
Found at i:10482851 original size:79 final size:80
Alignment explanation
Indices: 10482699--10483063 Score: 463
Period size: 79 Copynumber: 4.6 Consensus size: 80
10482689 GTTATGATGT
* * *
10482699 AAATGATGT-CCATTTGAGTTGAGTGTAATCGAACTCGAAGATCTTTGGCAGATAGCCTTTCTTG
1 AAATGATGTGCC-TTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTTG
*
10482763 CCTTGAGCTATGTTGC
65 CCTTGAGCTATGCTGC
* * *
10482779 AAATGATGTGACTTTGAGCTGAATGGAATCGAACTCGAAGGTC-TTGGCAGATAGCCCTTCTTGC
1 AAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTTGC
*
10482843 CTTGAGCTATACTGC
66 CTTGAGCTATGCTGC
* *
10482858 AAATGATGTGCCCTTGAGCTGAGCGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTTGC
1 AAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTTGC
* * *
10482923 CTTAAGC--TGTTGT
66 CTTGAGCTATGCTGC
*
10482936 AAATGA-GTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAGTCCTTC
1 AAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTC---T-TTGGCAGATAGCCCTTC
*
10483000 TTGCCTTGAGCTATGCTGA
62 TTGCCTTGAGCTATGCTGC
* * * * *
10483019 AAATGATGTGTC-TTGAGCTAAGTCTAATCAAACTCGATGGTCTTT
1 AAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTT
10483064 TGTTGAGGGT
Statistics
Matches: 248, Mismatches: 28, Indels: 19
0.84 0.09 0.06
Matches are distributed among these distances:
77 34 0.14
78 9 0.04
79 73 0.29
80 65 0.26
81 27 0.11
83 36 0.15
84 4 0.02
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.33
Consensus pattern (80 bp):
AAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTTGC
CTTGAGCTATGCTGC
Found at i:10486464 original size:29 final size:29
Alignment explanation
Indices: 10486432--10486580 Score: 255
Period size: 29 Copynumber: 5.2 Consensus size: 29
10486422 GACATTCTAA
10486432 GAATTATTTTGAAAAAGGTGACATTTTGG
1 GAATTATTTTGAAAAAGGTGACATTTTGG
*
10486461 GAATTATTTTG-AAAAGGTGACATTATGG
1 GAATTATTTTGAAAAAGGTGACATTTTGG
10486489 GAATTATTTTGAAAAAGGTGACATTTTGG
1 GAATTATTTTGAAAAAGGTGACATTTTGG
*
10486518 GAATTATTTTGAAAAAGGTGACATTCTGG
1 GAATTATTTTGAAAAAGGTGACATTTTGG
* *
10486547 TAATTATTTTGAAAAAGGTGACATTTTGA
1 GAATTATTTTGAAAAAGGTGACATTTTGG
10486576 GAATT
1 GAATT
10486581 TTCGAATGTA
Statistics
Matches: 112, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
28 27 0.24
29 85 0.76
ACGTcount: A:0.36, C:0.04, G:0.23, T:0.38
Consensus pattern (29 bp):
GAATTATTTTGAAAAAGGTGACATTTTGG
Found at i:10489642 original size:24 final size:25
Alignment explanation
Indices: 10489615--10489667 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 25
10489605 ATAAGTTAAG
* *
10489615 AAAATGTTAATATATAAAAA-TAAT
1 AAAATATTAATATATAAAAAGAAAT
*
10489639 AAAATATTAATTTATAAAAAGAAAT
1 AAAATATTAATATATAAAAAGAAAT
10489664 AAAA
1 AAAA
10489668 AAATATAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 18 0.72
25 7 0.28
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (25 bp):
AAAATATTAATATATAAAAAGAAAT
Found at i:10496516 original size:6 final size:6
Alignment explanation
Indices: 10496507--10496542 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
10496497 GGCCACTTTT
10496507 AGGGAG AGGGAG AGGGAG AGGGAG AGGGAG AGGGAG
1 AGGGAG AGGGAG AGGGAG AGGGAG AGGGAG AGGGAG
10496543 GGTGTTTTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.67, T:0.00
Consensus pattern (6 bp):
AGGGAG
Found at i:10496879 original size:18 final size:18
Alignment explanation
Indices: 10496858--10496895 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
10496848 GACCCTTGGG
10496858 GCGCGCCTTACCCCACGT
1 GCGCGCCTTACCCCACGT
10496876 GCGCGCCTTACCCCACGT
1 GCGCGCCTTACCCCACGT
10496894 GC
1 GC
10496896 CTGGAAGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.11, C:0.50, G:0.24, T:0.16
Consensus pattern (18 bp):
GCGCGCCTTACCCCACGT
Found at i:10499633 original size:21 final size:21
Alignment explanation
Indices: 10499607--10499647 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
10499597 ATGTAAATCG
*
10499607 CATTGCGATTTTCCAAATTCA
1 CATTGCGATTATCCAAATTCA
10499628 CATTGCGATTATCCAAATTC
1 CATTGCGATTATCCAAATTC
10499648 GCAACGCGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.29, C:0.24, G:0.10, T:0.37
Consensus pattern (21 bp):
CATTGCGATTATCCAAATTCA
Found at i:10499666 original size:21 final size:21
Alignment explanation
Indices: 10499641--10499793 Score: 158
Period size: 21 Copynumber: 7.5 Consensus size: 21
10499631 TGCGATTATC
10499641 CAAATTCGCAACGC-GAATCTGT
1 CAAATTCGCAACGCGGAAT-T-T
* * *
10499663 -AAA-TCGCAACACAGAA-GT
1 CAAATTCGCAACGCGGAATTT
* * **
10499681 CAAATTCGCAACAC-AAAAGT
1 CAAATTCGCAACGCGGAATTT
10499701 CAAATTCGCAACGCGGAATTT
1 CAAATTCGCAACGCGGAATTT
10499722 CAAATTCGCAACGCGGAATTT
1 CAAATTCGCAACGCGGAATTT
*
10499743 CAAATTCGCAACGCGAAATTT
1 CAAATTCGCAACGCGGAATTT
*
10499764 CAAATTCGCAA--CTGAATTT
1 CAAATTCGCAACGCGGAATTT
10499783 CAAATTCGCAA
1 CAAATTCGCAA
10499794 AACGAATTTA
Statistics
Matches: 116, Mismatches: 10, Indels: 13
0.83 0.07 0.09
Matches are distributed among these distances:
18 1 0.01
19 22 0.19
20 32 0.28
21 61 0.53
ACGTcount: A:0.39, C:0.24, G:0.15, T:0.22
Consensus pattern (21 bp):
CAAATTCGCAACGCGGAATTT
Found at i:10499970 original size:14 final size:15
Alignment explanation
Indices: 10499951--10499988 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
10499941 TCCCCATCTC
10499951 TAATTTTTTT-TACA
1 TAATTTTTTTCTACA
*
10499965 TAATTTTATTTCTATA
1 TAATTTT-TTTCTACA
10499981 TAATTTTT
1 TAATTTTT
10499989 CAATGAATTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 7 0.33
15 4 0.19
16 10 0.48
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (15 bp):
TAATTTTTTTCTACA
Found at i:10500562 original size:12 final size:12
Alignment explanation
Indices: 10500541--10500574 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
10500531 ACCACATTTC
*
10500541 CAATACCAAACA
1 CAATATCAAACA
10500553 CAATATCAAACA
1 CAATATCAAACA
*
10500565 CAATCTCAAA
1 CAATATCAAA
10500575 ACCCACAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (12 bp):
CAATATCAAACA
Found at i:10500751 original size:24 final size:24
Alignment explanation
Indices: 10500694--10500754 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
10500684 TAGTCAGTAT
10500694 TCAAAATTTGATCTTGGTCAATAC
1 TCAAAATTTGATCTTGGTCAATAC
* ** * *
10500718 CCGGACTTTGATCTTGGTTAATAC
1 TCAAAATTTGATCTTGGTCAATAC
*
10500742 TCAAATTTTGATC
1 TCAAAATTTGATC
10500755 ATGTGATGGA
Statistics
Matches: 28, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.39
Consensus pattern (24 bp):
TCAAAATTTGATCTTGGTCAATAC
Found at i:10503053 original size:18 final size:18
Alignment explanation
Indices: 10503019--10503059 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
10503009 AAGCAAAAGG
**
10503019 AAATCAAAATCGTAATCA
1 AAATCAAAATCCCAATCA
10503037 AAATCAAAATCCCAATCA
1 AAATCAAAATCCCAATCA
*
10503055 CAATC
1 AAATC
10503060 GGCTTCACCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.54, C:0.24, G:0.02, T:0.20
Consensus pattern (18 bp):
AAATCAAAATCCCAATCA
Found at i:10503389 original size:20 final size:20
Alignment explanation
Indices: 10503340--10503382 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
10503330 ATGTTGCGAT
*
10503340 CAACGCGAAAGCCAAATTCG
1 CAACACGAAAGCCAAATTCG
*
10503360 CAACACGAAAGTCAAATTCG
1 CAACACGAAAGCCAAATTCG
10503380 CAA
1 CAA
10503383 ACCGAAAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.44, C:0.28, G:0.16, T:0.12
Consensus pattern (20 bp):
CAACACGAAAGCCAAATTCG
Found at i:10503448 original size:20 final size:20
Alignment explanation
Indices: 10503423--10503460 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
10503413 GCAACGCTTA
*
10503423 TTTCGCGTTGCGAATTTGAC
1 TTTCGCGTTGCAAATTTGAC
10503443 TTTCGCGTTGCAAATTTG
1 TTTCGCGTTGCAAATTTG
10503461 TACCTTCAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.16, C:0.18, G:0.24, T:0.42
Consensus pattern (20 bp):
TTTCGCGTTGCAAATTTGAC
Found at i:10503601 original size:28 final size:28
Alignment explanation
Indices: 10503569--10503622 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
10503559 ATAATTCTTA
*
10503569 TTTACACATCAAATTAAACAAATCAACT
1 TTTACAAATCAAATTAAACAAATCAACT
* **
10503597 TTTACAAATCAACTTTTACAAATCAA
1 TTTACAAATCAAATTAAACAAATCAA
10503623 TTAATCAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.48, C:0.20, G:0.00, T:0.31
Consensus pattern (28 bp):
TTTACAAATCAAATTAAACAAATCAACT
Found at i:10503603 original size:14 final size:14
Alignment explanation
Indices: 10503586--10503622 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
10503576 ATCAAATTAA
10503586 ACAAATCAACTTTT
1 ACAAATCAACTTTT
10503600 ACAAATCAACTTTT
1 ACAAATCAACTTTT
10503614 ACAAATCAA
1 ACAAATCAA
10503623 TTAATCAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:10505100 original size:41 final size:41
Alignment explanation
Indices: 10505022--10505115 Score: 100
Period size: 41 Copynumber: 2.3 Consensus size: 41
10505012 CATATGAATC
* *
10505022 GGGCTCTTGAACAGCGGGCGGGACCTCTTGAACGATGACG-G
1 GGGCTCTTGAACAGCGGGAGGGACCTCTTCAACGATGA-GAG
* * * * *
10505063 GGGCTCTTGAACGGTGGGAGGGGCTTCTTCAATGATGAGAG
1 GGGCTCTTGAACAGCGGGAGGGACCTCTTCAACGATGAGAG
10505104 GGGCCTCTTGAA
1 GGG-CTCTTGAA
10505116 TGATAGGAGG
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
40 1 0.02
41 35 0.80
42 8 0.18
ACGTcount: A:0.19, C:0.20, G:0.39, T:0.21
Consensus pattern (41 bp):
GGGCTCTTGAACAGCGGGAGGGACCTCTTCAACGATGAGAG
Found at i:10505117 original size:21 final size:22
Alignment explanation
Indices: 10505045--10505142 Score: 80
Period size: 21 Copynumber: 4.7 Consensus size: 22
10505035 GCGGGCGGGA
*
10505045 CCTCTTGAACGATGACG-GGGG
1 CCTCTTGAATGATGACGAGGGG
* * *
10505066 -CTCTTGAACGGTG-GGAGGGG
1 CCTCTTGAATGATGACGAGGGG
* *
10505086 CTTCTTCAATGATGA-GAGGGG
1 CCTCTTGAATGATGACGAGGGG
* **
10505107 CCTCTTGAATGAT-AGGAGGCT
1 CCTCTTGAATGATGACGAGGGG
10505128 CCTCTTGAATGATGA
1 CCTCTTGAATGATGA
10505143 TAGGTGCATC
Statistics
Matches: 62, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
19 1 0.02
20 17 0.27
21 43 0.69
22 1 0.02
ACGTcount: A:0.21, C:0.18, G:0.35, T:0.26
Consensus pattern (22 bp):
CCTCTTGAATGATGACGAGGGG
Found at i:10505139 original size:42 final size:41
Alignment explanation
Indices: 10505045--10505142 Score: 99
Period size: 42 Copynumber: 2.4 Consensus size: 41
10505035 GCGGGCGGGA
* * * *
10505045 CCTCTTGAACGATGACGGGGGCTCTTGAACGGTGGGAGGGG
1 CCTCTTGAATGATGACGGGGGCTCTTGAACGATAGGAGGCG
* * * *
10505086 CTTCTTCAATGATGA-GAGGGGCCTCTTGAATGATAGGAGGCT
1 CCTCTTGAATGATGACG-GGGG-CTCTTGAACGATAGGAGGCG
10505128 CCTCTTGAATGATGA
1 CCTCTTGAATGATGA
10505143 TAGGTGCATC
Statistics
Matches: 45, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
40 1 0.02
41 16 0.36
42 28 0.62
ACGTcount: A:0.21, C:0.18, G:0.35, T:0.26
Consensus pattern (41 bp):
CCTCTTGAATGATGACGGGGGCTCTTGAACGATAGGAGGCG
Found at i:10507215 original size:20 final size:20
Alignment explanation
Indices: 10507192--10507265 Score: 78
Period size: 20 Copynumber: 3.8 Consensus size: 20
10507182 AGAAGTTTTT
* *
10507192 GAAACTTAAATTCGCAACGC
1 GAAAATTAAAATCGCAACGC
* * *
10507212 GAAAATGAAAATCGCAATGT
1 GAAAATTAAAATCGCAACGC
*
10507232 GAAAATTAAAATCTCAACGC
1 GAAAATTAAAATCGCAACGC
*
10507252 G-AAACTAAAATCGC
1 GAAAATTAAAATCGC
10507266 GTTGCGATTT
Statistics
Matches: 43, Mismatches: 11, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
19 11 0.26
20 32 0.74
ACGTcount: A:0.47, C:0.19, G:0.15, T:0.19
Consensus pattern (20 bp):
GAAAATTAAAATCGCAACGC
Found at i:10507775 original size:20 final size:20
Alignment explanation
Indices: 10507750--10507896 Score: 117
Period size: 20 Copynumber: 7.3 Consensus size: 20
10507740 CGCGTAAAAA
10507750 AATTTGACTTTCGCGTTGCG
1 AATTTGACTTTCGCGTTGCG
*
10507770 AATTTGACTTAT-GTGTTGCG
1 AATTTGACTT-TCGCGTTGCG
* * *
10507790 -ATTT-ACAAATTCGCATTGTG
1 AATTTGAC--TTTCGCGTTGCG
* *
10507810 AATTTGACTTTTGTGTTGCG
1 AATTTGACTTTCGCGTTGCG
*
10507830 AATTTGACTATCGCGTTGCG
1 AATTTGACTTTCGCGTTGCG
*
10507850 AATTTGACTTGT-GTGTTGCG
1 AATTTGACTT-TCGCGTTGCG
10507870 -ATTT-ACATATTCGCGTTGCG
1 AATTTGAC-T-TTCGCGTTGCG
*
10507890 AAATTGA
1 AATTTGA
10507897 AAACTGGGTT
Statistics
Matches: 98, Mismatches: 17, Indels: 22
0.72 0.12 0.16
Matches are distributed among these distances:
18 4 0.04
19 11 0.11
20 71 0.72
21 9 0.09
22 3 0.03
ACGTcount: A:0.21, C:0.14, G:0.23, T:0.41
Consensus pattern (20 bp):
AATTTGACTTTCGCGTTGCG
Found at i:10507814 original size:40 final size:40
Alignment explanation
Indices: 10507759--10507896 Score: 190
Period size: 40 Copynumber: 3.5 Consensus size: 40
10507749 AAATTTGACT
*
10507759 TTCGCGTTGCGAATTTGACTTATGTGTTGCGATTTACAAA
1 TTCGCGTTGCGAATTTGACTTATGTGTTGCGATTTACATA
* * *
10507799 TTCGCATTGTGAATTTGACTTTTGTGTTGCGAATTTGAC-TA
1 TTCGCGTTGCGAATTTGACTTATGTGTTGCG-ATTT-ACATA
*
10507840 -TCGCGTTGCGAATTTGACTTGTGTGTTGCGATTTACATA
1 TTCGCGTTGCGAATTTGACTTATGTGTTGCGATTTACATA
*
10507879 TTCGCGTTGCGAAATTGA
1 TTCGCGTTGCGAATTTGA
10507897 AAACTGGGTT
Statistics
Matches: 86, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
38 2 0.02
39 6 0.07
40 71 0.83
41 5 0.06
42 2 0.02
ACGTcount: A:0.20, C:0.14, G:0.24, T:0.41
Consensus pattern (40 bp):
TTCGCGTTGCGAATTTGACTTATGTGTTGCGATTTACATA
Found at i:10507908 original size:80 final size:80
Alignment explanation
Indices: 10507749--10507935 Score: 241
Period size: 80 Copynumber: 2.3 Consensus size: 80
10507739 TCGCGTAAAA
* *
10507749 AAATTTGACTTTCGCGTTGCGAATTTGACTTATGTGTTGCGATTTACAAATTCGCATTGTGAATT
1 AAATTTGAC-TTCGCGTTGCGAATTTGACTTATGTGTTGCGATTTACAAATTCGCATTGCGAAAT
**** *
10507814 TGACTTTTGTGTTGCG
65 TGAAAACTGGGTTGCG
* * *
10507830 -AATTTGACTATCGCGTTGCGAATTTGACTTGTGTGTTGCGATTTACATATTCGCGTTGCGAAAT
1 AAATTTGACT-TCGCGTTGCGAATTTGACTTATGTGTTGCGATTTACAAATTCGCATTGCGAAAT
10507894 TGAAAACTGGGTTGCG
65 TGAAAACTGGGTTGCG
* *
10507910 AAATTGGAGTTCGCGTTGCGAATTTG
1 AAATTTGACTTCGCGTTGCGAATTTG
10507936 TTGGTCATTT
Statistics
Matches: 92, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
79 1 0.01
80 84 0.91
81 7 0.08
ACGTcount: A:0.22, C:0.14, G:0.25, T:0.39
Consensus pattern (80 bp):
AAATTTGACTTCGCGTTGCGAATTTGACTTATGTGTTGCGATTTACAAATTCGCATTGCGAAATT
GAAAACTGGGTTGCG
Found at i:10508116 original size:32 final size:31
Alignment explanation
Indices: 10508080--10508146 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 31
10508070 ATAATATTCT
* *
10508080 ACTCAAAAAATTAATTT-TTTTAATTAGATTTA
1 ACTC-AAAAATAAATTTATTTGAATTA-ATTTA
10508112 ACTCAAAAATAAATTTAATTTGAATTAATTTA
1 ACTCAAAAATAAATTT-ATTTGAATTAATTTA
10508144 ACT
1 ACT
10508147 TGAAAAAACA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
31 11 0.35
32 12 0.39
33 8 0.26
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.43
Consensus pattern (31 bp):
ACTCAAAAATAAATTTATTTGAATTAATTTA
Found at i:10510197 original size:13 final size:14
Alignment explanation
Indices: 10510179--10510215 Score: 58
Period size: 15 Copynumber: 2.6 Consensus size: 14
10510169 AAATTAATCA
10510179 TTTTAAATA-TATT
1 TTTTAAATATTATT
10510192 TTTTAAATATTTATT
1 TTTTAAATA-TTATT
10510207 TTTTAAATA
1 TTTTAAATA
10510216 AATCAAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 9 0.41
15 13 0.59
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
TTTTAAATATTATT
Found at i:10510743 original size:13 final size:13
Alignment explanation
Indices: 10510725--10510768 Score: 54
Period size: 13 Copynumber: 3.2 Consensus size: 13
10510715 AGCAAATAAG
10510725 AAAAATAAAAAGT
1 AAAAATAAAAAGT
10510738 AAAAATAAAAAGGTT
1 AAAAATAAAAA-G-T
10510753 AAAAGATAAAAA-T
1 AAAA-ATAAAAAGT
10510766 AAA
1 AAA
10510769 GTAAAATAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
13 15 0.54
14 1 0.04
15 5 0.18
16 7 0.25
ACGTcount: A:0.75, C:0.00, G:0.09, T:0.16
Consensus pattern (13 bp):
AAAAATAAAAAGT
Found at i:10510744 original size:22 final size:23
Alignment explanation
Indices: 10510718--10510779 Score: 65
Period size: 22 Copynumber: 2.7 Consensus size: 23
10510708 CAAATTAAGC
10510718 AAATAAGAAAAATAAAAAG-TAA
1 AAATAAGAAAAATAAAAAGATAA
** *
10510740 AAATAA-AAAGGTTAAAAGATAA
1 AAATAAGAAAAATAAAAAGATAA
*
10510762 AAATAAAGTAAAATAAAA
1 AAAT-AAGAAAAATAAAA
10510780 TAAAATTGAA
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
21 9 0.30
22 13 0.43
23 2 0.07
24 6 0.20
ACGTcount: A:0.74, C:0.00, G:0.10, T:0.16
Consensus pattern (23 bp):
AAATAAGAAAAATAAAAAGATAA
Found at i:10510778 original size:5 final size:5
Alignment explanation
Indices: 10510761--10510832 Score: 53
Period size: 5 Copynumber: 14.8 Consensus size: 5
10510751 TTAAAAGATA
* ** * *
10510761 AAAAT AAAGT AAAAT AAAAT AAAAT TGAAG AAAAT ATTAAAT --ATT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT A--AAAT AAAAT AAAAT
10510811 -AAAT -AAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAA
10510833 ATGAAGAAAA
Statistics
Matches: 52, Mismatches: 10, Indels: 10
0.72 0.14 0.14
Matches are distributed among these distances:
3 2 0.04
4 8 0.15
5 38 0.73
7 4 0.08
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.24
Consensus pattern (5 bp):
AAAAT
Found at i:10510841 original size:48 final size:48
Alignment explanation
Indices: 10510762--10510856 Score: 147
Period size: 48 Copynumber: 2.0 Consensus size: 48
10510752 TAAAAGATAA
* *
10510762 AAATAAAGTAAAATAAAATAAAATTGAAGAAAATATTAAATATTAAAAT
1 AAATAAAGTAAAATAAAATAAAAATGAAGAAAATATCAAAT-TTAAAAT
*
10510811 AAATAAA-TAAAATAAAATAAAAATGAAGAAAATGTCAAATTTAAAA
1 AAATAAAGTAAAATAAAATAAAAATGAAGAAAATATCAAATTTAAAA
10510857 AAGAGTAAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
47 6 0.14
48 30 0.70
49 7 0.16
ACGTcount: A:0.68, C:0.01, G:0.06, T:0.24
Consensus pattern (48 bp):
AAATAAAGTAAAATAAAATAAAAATGAAGAAAATATCAAATTTAAAAT
Found at i:10512063 original size:37 final size:37
Alignment explanation
Indices: 10512005--10512076 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 37
10511995 ATGTGCAGGA
10512005 GGAACAGATTCCCCCCTGGGGGGGTATCGATTCCCCG
1 GGAACAGATTCCCCCCTGGGGGGGTATCGATTCCCCG
*
10512042 GGAATAGATT-CCCCCTGGGGGGGTATCGATTCCCC
1 GGAACAGATTCCCCCCTGGGGGGGTATCGATTCCCC
10512077 CCTAAATGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
36 25 0.74
37 9 0.26
ACGTcount: A:0.17, C:0.31, G:0.32, T:0.21
Consensus pattern (37 bp):
GGAACAGATTCCCCCCTGGGGGGGTATCGATTCCCCG
Found at i:10512527 original size:46 final size:46
Alignment explanation
Indices: 10512473--10512577 Score: 167
Period size: 46 Copynumber: 2.3 Consensus size: 46
10512463 AAATGAGATA
* *
10512473 ATATGAAATGATATATGAATATGCAATACGTGATACATTTAATATG
1 ATATGAAATGACATATGAATATGCAATACGTGATACATGTAATATG
* *
10512519 ATATGAAATGACATATGAATATGTAATACGTGATACATGTGATATG
1 ATATGAAATGACATATGAATATGCAATACGTGATACATGTAATATG
10512565 ATATGAAAT-ACAT
1 ATATGAAATGACAT
10512578 GGTTACACAT
Statistics
Matches: 55, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
45 4 0.07
46 51 0.93
ACGTcount: A:0.44, C:0.07, G:0.16, T:0.33
Consensus pattern (46 bp):
ATATGAAATGACATATGAATATGCAATACGTGATACATGTAATATG
Found at i:10512782 original size:38 final size:38
Alignment explanation
Indices: 10512726--10512821 Score: 147
Period size: 38 Copynumber: 2.5 Consensus size: 38
10512716 TATAAGACAT
* *
10512726 ATGATAGGTCCTACGGGACACAGATTACATCCTTCAGG
1 ATGATAGGTCCTTCGGGACACAGATGACATCCTTCAGG
* *
10512764 ATGACAGGTCCTTCGGGACACAGATGACATCCTTCGGG
1 ATGATAGGTCCTTCGGGACACAGATGACATCCTTCAGG
*
10512802 ATGATAGGTCCTTCGAGACA
1 ATGATAGGTCCTTCGGGACA
10512822 TTTATACGAG
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 52 1.00
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (38 bp):
ATGATAGGTCCTTCGGGACACAGATGACATCCTTCAGG
Found at i:10514805 original size:2 final size:2
Alignment explanation
Indices: 10514798--10514842 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
10514788 TATCATTGGA
10514798 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10514840 AT A
1 AT A
10514843 ATTTGATTGA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:10518178 original size:36 final size:36
Alignment explanation
Indices: 10518131--10518202 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
10518121 TATGTGCAGG
10518131 GGGAACAGATTCCCCCCTGGGGGGTATCGATTCCCC
1 GGGAACAGATTCCCCCCTGGGGGGTATCGATTCCCC
*
10518167 GGGAACAGATTCCCCCTTGGGGGGTATCGATTCCCC
1 GGGAACAGATTCCCCCCTGGGGGGTATCGATTCCCC
10518203 CTAAATGAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.17, C:0.32, G:0.31, T:0.21
Consensus pattern (36 bp):
GGGAACAGATTCCCCCCTGGGGGGTATCGATTCCCC
Found at i:10518637 original size:22 final size:21
Alignment explanation
Indices: 10518612--10518684 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 21
10518602 CTATATGAAA
10518612 TGATATATGAATATGCAATACG
1 TGATATATGAATATG-AATACG
* * **
10518634 TGATACATGTGATATGATATGAAA
1 TGATATATG-AATATGA-AT-ACG
*
10518658 TGACATATGAATATGTAATACG
1 TGATATATGAATATG-AATACG
10518680 TGATA
1 TGATA
10518685 CATGTGATAT
Statistics
Matches: 37, Mismatches: 10, Indels: 8
0.67 0.18 0.15
Matches are distributed among these distances:
22 14 0.38
23 14 0.38
24 9 0.24
ACGTcount: A:0.41, C:0.07, G:0.19, T:0.33
Consensus pattern (21 bp):
TGATATATGAATATGAATACG
Found at i:10518649 original size:23 final size:22
Alignment explanation
Indices: 10518622--10518696 Score: 71
Period size: 23 Copynumber: 3.3 Consensus size: 22
10518612 TGATATATGA
10518622 ATATGCAATACGTGATACATGTG
1 ATATG-AATACGTGATACATGTG
* ** *
10518645 ATATG-ATATGAAATGACATATG
1 ATATGAATACGTGAT-ACATGTG
10518667 AATATGTAATACGTGATACATGTG
1 -ATATG-AATACGTGATACATGTG
10518691 ATATGA
1 ATATGA
10518697 TATGAAATAC
Statistics
Matches: 40, Mismatches: 8, Indels: 9
0.70 0.14 0.16
Matches are distributed among these distances:
21 6 0.15
22 7 0.17
23 15 0.38
24 6 0.15
25 6 0.15
ACGTcount: A:0.40, C:0.08, G:0.20, T:0.32
Consensus pattern (22 bp):
ATATGAATACGTGATACATGTG
Found at i:10518655 original size:46 final size:46
Alignment explanation
Indices: 10518604--10518708 Score: 185
Period size: 46 Copynumber: 2.3 Consensus size: 46
10518594 CTATGTGACT
*
10518604 ATATGAAATGATATATGAATATGCAATACGTGATACATGTGATATG
1 ATATGAAATGACATATGAATATGCAATACGTGATACATGTGATATG
*
10518650 ATATGAAATGACATATGAATATGTAATACGTGATACATGTGATATG
1 ATATGAAATGACATATGAATATGCAATACGTGATACATGTGATATG
10518696 ATATGAAAT-ACAT
1 ATATGAAATGACAT
10518709 GGTTACACAT
Statistics
Matches: 57, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
45 4 0.07
46 53 0.93
ACGTcount: A:0.43, C:0.07, G:0.18, T:0.32
Consensus pattern (46 bp):
ATATGAAATGACATATGAATATGCAATACGTGATACATGTGATATG
Found at i:10518913 original size:38 final size:38
Alignment explanation
Indices: 10518857--10518952 Score: 138
Period size: 38 Copynumber: 2.5 Consensus size: 38
10518847 TATAAGACAT
* *
10518857 ATGATAGGTCCTACGGGACACAGATTACATCCTTCAAG
1 ATGATAGGTCCTTCGGGACACAGATGACATCCTTCAAG
* ***
10518895 ATGACAGGTCCTTCGGGACACAGATGACATCCTTTGGG
1 ATGATAGGTCCTTCGGGACACAGATGACATCCTTCAAG
10518933 ATGATAGGTCCTTCGGGACA
1 ATGATAGGTCCTTCGGGACA
10518953 TTTATACGAG
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 51 1.00
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (38 bp):
ATGATAGGTCCTTCGGGACACAGATGACATCCTTCAAG
Found at i:10520514 original size:2 final size:2
Alignment explanation
Indices: 10520480--10520566 Score: 61
Period size: 2 Copynumber: 49.0 Consensus size: 2
10520470 GTAAATAAAA
*
10520480 AT AT A- AT AA AT A- AT AT AT A- AT AT A- AT AT A- AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
10520517 AC A- AG AT A- AT AT AT A- AT AT AC AT A- AT AT AT A- AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10520554 AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT
10520567 TTCCAAAAAC
Statistics
Matches: 68, Mismatches: 6, Indels: 22
0.71 0.06 0.23
Matches are distributed among these distances:
1 11 0.16
2 57 0.84
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.40
Consensus pattern (2 bp):
AT
Found at i:10520514 original size:7 final size:7
Alignment explanation
Indices: 10520480--10520566 Score: 76
Period size: 7 Copynumber: 12.6 Consensus size: 7
10520470 GTAAATAAAA
10520480 ATATAAT
1 ATATAAT
*
10520487 AAATAAT
1 ATATAAT
10520494 ATAT-A-
1 ATATAAT
10520499 ATATAAT
1 ATATAAT
10520506 ATA-ATAT
1 ATATA-AT
10520513 ATATACA-
1 ATATA-AT
*
10520520 AGATAAT
1 ATATAAT
10520527 ATATAAT
1 ATATAAT
10520534 ATACATAAT
1 AT--ATAAT
10520543 ATATAAT
1 ATATAAT
10520550 ATAT-AT
1 ATATAAT
*
10520556 ATATATT
1 ATATAAT
10520563 ATAT
1 ATAT
10520567 TTCCAAAAAC
Statistics
Matches: 66, Mismatches: 6, Indels: 16
0.75 0.07 0.18
Matches are distributed among these distances:
5 4 0.06
6 10 0.15
7 43 0.65
8 2 0.03
9 7 0.11
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.40
Consensus pattern (7 bp):
ATATAAT
Found at i:10520534 original size:23 final size:23
Alignment explanation
Indices: 10520504--10520561 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
10520494 ATATAATATA
10520504 ATATAATATATATACA-AGATAAT
1 ATATAATATATATA-ATAGATAAT
* *
10520527 ATATAATATACATAATATATAAT
1 ATATAATATATATAATAGATAAT
10520550 ATAT-ATATATAT
1 ATATAATATATAT
10520562 TATATTTCCA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
22 8 0.26
23 23 0.74
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.40
Consensus pattern (23 bp):
ATATAATATATATAATAGATAAT
Found at i:10520541 original size:16 final size:16
Alignment explanation
Indices: 10520480--10520566 Score: 92
Period size: 16 Copynumber: 5.6 Consensus size: 16
10520470 GTAAATAAAA
10520480 ATATAATA-A-ATAAT
1 ATATAATATATATAAT
10520494 ATATAATATAATATAAT
1 ATATAATAT-ATATAAT
* *
10520511 ATAT-ATACAAGATAAT
1 ATATAATA-TATATAAT
*
10520527 ATATAATATACATAAT
1 ATATAATATATATAAT
10520543 ATATAATATATAT-AT
1 ATATAATATATATAAT
*
10520558 ATATTATAT
1 ATATAATAT
10520567 TTCCAAAAAC
Statistics
Matches: 62, Mismatches: 6, Indels: 9
0.81 0.08 0.12
Matches are distributed among these distances:
14 8 0.13
15 10 0.16
16 32 0.52
17 12 0.19
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.40
Consensus pattern (16 bp):
ATATAATATATATAAT
Found at i:10520612 original size:13 final size:13
Alignment explanation
Indices: 10520594--10520620 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
10520584 AAAACTATAT
10520594 ATATGTTTTCAAA
1 ATATGTTTTCAAA
10520607 ATATGTTTTCAAA
1 ATATGTTTTCAAA
10520620 A
1 A
10520621 CTATATTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.44
Consensus pattern (13 bp):
ATATGTTTTCAAA
Found at i:10520714 original size:24 final size:24
Alignment explanation
Indices: 10520656--10520714 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 24
10520646 TGTTTTTTTT
* * *
10520656 AAACTATATATTATGTGCTTTCAA
1 AAACTATATACTATATACTTTCAA
* *
10520680 AAAATACTATACTATATATTTTCAA
1 AAACTA-TATACTATATACTTTCAA
10520705 AAACTATATA
1 AAACTATATA
10520715 TAACATATAT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
24 9 0.32
25 19 0.68
ACGTcount: A:0.46, C:0.12, G:0.03, T:0.39
Consensus pattern (24 bp):
AAACTATATACTATATACTTTCAA
Found at i:10520716 original size:26 final size:27
Alignment explanation
Indices: 10520674--10520725 Score: 65
Period size: 25 Copynumber: 2.0 Consensus size: 27
10520664 TATTATGTGC
10520674 TTTCAAAAAATACTAT-AC-TATATAT
1 TTTCAAAAAATACTATAACATATATAT
10520699 TTTCAAAAACTATA-TATAACATATATA
1 TTTCAAAAA--ATACTATAACATATATA
10520726 CTAAACAAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
25 9 0.39
26 3 0.13
27 5 0.22
28 6 0.26
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (27 bp):
TTTCAAAAAATACTATAACATATATAT
Found at i:10522780 original size:18 final size:19
Alignment explanation
Indices: 10522757--10522794 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
10522747 TTAAAATGTA
10522757 TTTAAT-GGTAAAATAAAT
1 TTTAATAGGTAAAATAAAT
*
10522775 TTTAATAGGTCAAATAAAT
1 TTTAATAGGTAAAATAAAT
10522794 T
1 T
10522795 ACTATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.47, C:0.03, G:0.11, T:0.39
Consensus pattern (19 bp):
TTTAATAGGTAAAATAAAT
Found at i:10527307 original size:23 final size:23
Alignment explanation
Indices: 10527281--10527356 Score: 116
Period size: 23 Copynumber: 3.3 Consensus size: 23
10527271 CTTTTTTGTA
* * *
10527281 TGATTCATAAAATGTGATTTGTG
1 TGATTCACAAAATGCGATATGTG
10527304 TGATTCACAAAATGCGATATGTG
1 TGATTCACAAAATGCGATATGTG
10527327 TGATTCACAAAATGCGATATGTG
1 TGATTCACAAAATGCGATATGTG
*
10527350 TGGTTCA
1 TGATTCA
10527357 AAACTAAGCT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 49 1.00
ACGTcount: A:0.32, C:0.11, G:0.22, T:0.36
Consensus pattern (23 bp):
TGATTCACAAAATGCGATATGTG
Found at i:10531753 original size:20 final size:20
Alignment explanation
Indices: 10531728--10531766 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
10531718 GGAGACCAAG
10531728 GATCTCAAGACCGAGCATCC
1 GATCTCAAGACCGAGCATCC
* *
10531748 GATCTCAATACTGAGCATC
1 GATCTCAAGACCGAGCATC
10531767 TGATATCGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.31, C:0.31, G:0.18, T:0.21
Consensus pattern (20 bp):
GATCTCAAGACCGAGCATCC
Found at i:10531778 original size:20 final size:20
Alignment explanation
Indices: 10531740--10531779 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
10531730 TCTCAAGACC
*
10531740 GAGCATCCGATCTCAATACT
1 GAGCATCCGATATCAATACT
* *
10531760 GAGCATCTGATATCGATACT
1 GAGCATCCGATATCAATACT
10531780 ATAATCTTCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (20 bp):
GAGCATCCGATATCAATACT
Found at i:10547379 original size:18 final size:18
Alignment explanation
Indices: 10547358--10547393 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
10547348 TATTAATCTT
*
10547358 AAGTTACTTATTCTTAGG
1 AAGTTACTAATTCTTAGG
*
10547376 AAGTTACTAATTTTTAGG
1 AAGTTACTAATTCTTAGG
10547394 GATCATTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.08, G:0.17, T:0.44
Consensus pattern (18 bp):
AAGTTACTAATTCTTAGG
Found at i:10550797 original size:13 final size:13
Alignment explanation
Indices: 10550778--10550835 Score: 89
Period size: 13 Copynumber: 4.5 Consensus size: 13
10550768 GTCATAACCC
10550778 GACCCGACCCGTT
1 GACCCGACCCGTT
* *
10550791 TACCCGACCAGTT
1 GACCCGACCCGTT
*
10550804 GACCTGACCCGTT
1 GACCCGACCCGTT
10550817 GACCCGACCCGTT
1 GACCCGACCCGTT
10550830 GACCCG
1 GACCCG
10550836 TTGACCGTTG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 39 1.00
ACGTcount: A:0.17, C:0.43, G:0.22, T:0.17
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:10550819 original size:8 final size:8
Alignment explanation
Indices: 10550808--10550883 Score: 81
Period size: 8 Copynumber: 9.6 Consensus size: 8
10550798 CCAGTTGACC
10550808 TGACCCGT
1 TGACCCGT
10550816 TGACCC--
1 TGACCCGT
10550822 -GACCCGT
1 TGACCCGT
10550829 TGACCCGT
1 TGACCCGT
10550837 TGA-CCGT
1 TGACCCGT
10550844 TGACCCGT
1 TGACCCGT
10550852 TGA-CCGT
1 TGACCCGT
10550859 TGACCCACGT
1 TGA-CC-CGT
10550869 TGACCACTGT
1 TGACC-C-GT
10550879 TGACC
1 TGACC
10550884 AAAACTTTGA
Statistics
Matches: 60, Mismatches: 0, Indels: 14
0.81 0.00 0.19
Matches are distributed among these distances:
5 5 0.08
7 14 0.23
8 23 0.38
9 5 0.08
10 13 0.22
ACGTcount: A:0.16, C:0.37, G:0.24, T:0.24
Consensus pattern (8 bp):
TGACCCGT
Found at i:10550845 original size:7 final size:7
Alignment explanation
Indices: 10550825--10550863 Score: 60
Period size: 7 Copynumber: 5.3 Consensus size: 7
10550815 TTGACCCGAC
10550825 CCGTTGA
1 CCGTTGA
10550832 CCCGTTGA
1 -CCGTTGA
10550840 CCGTTGA
1 CCGTTGA
10550847 CCCGTTGA
1 -CCGTTGA
10550855 CCGTTGA
1 CCGTTGA
10550862 CC
1 CC
10550864 CACGTTGACC
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
7 16 0.53
8 14 0.47
ACGTcount: A:0.13, C:0.36, G:0.26, T:0.26
Consensus pattern (7 bp):
CCGTTGA
Found at i:10550845 original size:15 final size:15
Alignment explanation
Indices: 10550825--10550864 Score: 80
Period size: 15 Copynumber: 2.7 Consensus size: 15
10550815 TTGACCCGAC
10550825 CCGTTGACCCGTTGA
1 CCGTTGACCCGTTGA
10550840 CCGTTGACCCGTTGA
1 CCGTTGACCCGTTGA
10550855 CCGTTGACCC
1 CCGTTGACCC
10550865 ACGTTGACCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.12, C:0.38, G:0.25, T:0.25
Consensus pattern (15 bp):
CCGTTGACCCGTTGA
Done.