Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1081
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: 26796
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Found at i:8279 original size:22 final size:22
Alignment explanation
Indices: 8238--8279 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
8228 ATGGAGAAGA
* *
8238 CAACTTTTGTCACCATGTGAGG
1 CAACTTTTGTCACAAAGTGAGG
*
8260 CAACTTTTGTTACAAAGTGA
1 CAACTTTTGTCACAAAGTGA
8280 TGCCGTTTGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (22 bp):
CAACTTTTGTCACAAAGTGAGG
Found at i:11018 original size:10 final size:10
Alignment explanation
Indices: 11003--11051 Score: 50
Period size: 10 Copynumber: 5.2 Consensus size: 10
10993 TGCTTGAAAG
11003 AAAAACAAAA
1 AAAAACAAAA
*
11013 AAAAACAACA
1 AAAAACAAAA
*
11023 AAAAGC---A
1 AAAAACAAAA
*
11030 AAAAACAATA
1 AAAAACAAAA
11040 AAAAACAAAA
1 AAAAACAAAA
11050 AA
1 AA
11052 CTGAAATAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
7 6 0.19
10 26 0.81
ACGTcount: A:0.84, C:0.12, G:0.02, T:0.02
Consensus pattern (10 bp):
AAAAACAAAA
Found at i:11034 original size:17 final size:17
Alignment explanation
Indices: 11012--11052 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
11002 GAAAAACAAA
*
11012 AAAAAACAACAAAAAGC
1 AAAAAACAACAAAAAAC
*
11029 AAAAAACAATAAAAAAC
1 AAAAAACAACAAAAAAC
11046 AAAAAAC
1 AAAAAAC
11053 TGAAATAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.80, C:0.15, G:0.02, T:0.02
Consensus pattern (17 bp):
AAAAAACAACAAAAAAC
Found at i:12402 original size:89 final size:89
Alignment explanation
Indices: 12265--12693 Score: 504
Period size: 89 Copynumber: 4.8 Consensus size: 89
12255 TTCCTTTATG
** * * *
12265 TTTGACGTATGGTTACCACTATGGTCAAACTCTTCTCATTTCAAGTCTGATGTATGGCTACCACC
1 TTTGACGTATGGTTACCACCCTGGTCAAACTCTTTTCATTTCAAGTCTGACGTATGGTTACCACC
* *
12330 GTAGTCAAATTCTTTCCATCTTGA
66 CTAGTCAAATTCTTTCCATTTTGA
* * * * * *
12354 TTTGACGTATGGTTATCGCCTTTGCCAAACTCTTTTCATTTTAAGTCTGACGTATGGTTACCACC
1 TTTGACGTATGGTTACCACCCTGGTCAAACTCTTTTCATTTCAAGTCTGACGTATGGTTACCACC
* *
12419 CTGGTCAAATTCTTTCCATTTTGG
66 CTAGTCAAATTCTTTCCATTTTGA
* ** * * ** *
12443 TTTGACGTATGGTTATCACCCTGGTCAAACTCTTCCCATTTTAGGTCTGGTGTCTGGTTACCACC
1 TTTGACGTATGGTTACCACCCTGGTCAAACTCTTTTCATTTCAAGTCTGACGTATGGTTACCACC
* * *
12508 CTAATTAGATT-TTTCCATTTTGA
66 CTAGTCAAATTCTTTCCATTTTGA
* *
12531 TTTGACGTATGGTTACCACCCTAGTCAAACTCTTCTT-ATTTCAGGTCTGACGTATGGTTACCAC
1 TTTGACGTATGGTTACCACCCTGGTCAAACTCTT-TTCATTTCAAGTCTGACGTATGGTTACCAC
* *
12595 CCTGGTCAGATTCTTTCCATTTTGA
65 CCTAGTCAAATTCTTTCCATTTTGA
* * * * *
12620 TTTGATGTATGGTTACCACCCTGGTCAGATTCTTTTCATTCCAA-TTTGACGTATGGTTACCACC
1 TTTGACGTATGGTTACCACCCTGGTCAAACTCTTTTCATTTCAAGTCTGACGTATGGTTACCACC
*
12684 GTAGTCAAAT
66 CTAGTCAAAT
12694 ATGCTTTTTT
Statistics
Matches: 287, Mismatches: 50, Indels: 7
0.83 0.15 0.02
Matches are distributed among these distances:
88 103 0.36
89 184 0.64
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.39
Consensus pattern (89 bp):
TTTGACGTATGGTTACCACCCTGGTCAAACTCTTTTCATTTCAAGTCTGACGTATGGTTACCACC
CTAGTCAAATTCTTTCCATTTTGA
Found at i:12464 original size:44 final size:44
Alignment explanation
Indices: 12264--12693 Score: 344
Period size: 44 Copynumber: 9.7 Consensus size: 44
12254 TTTCCTTTAT
** * **
12264 GTTTGACGTATGGTTACCACTATGGTCAAACTC-TTCTCATTTCAA
1 GTTTGACGTATGGTTACCACCCTGGTCAAATTCTTTC-CATTT-TG
* * * * * *
12309 GTCTGATGTATGGCTACCACCGTAGTCAAATTCTTTCCATCTTG
1 GTTTGACGTATGGTTACCACCCTGGTCAAATTCTTTCCATTTTG
* * * * * * * * *
12353 ATTTGACGTATGGTTATCGCCTTTGCCAAACTCTTTTCATTTTAA
1 GTTTGACGTATGGTTACCACCCTGGTCAAATTCTTTCCATTTT-G
*
12398 GTCTGACGTATGGTTACCACCCTGGTCAAATTCTTTCCATTTTG
1 GTTTGACGTATGGTTACCACCCTGGTCAAATTCTTTCCATTTTG
* * *
12442 GTTTGACGTATGGTTATCACCCTGGTCAAACTCTTCCCATTTTAG
1 GTTTGACGTATGGTTACCACCCTGGTCAAATTCTTTCCATTTT-G
* ** * ** * *
12487 GTCTGGTGTCTGGTTACCACCCTAATTAGATT-TTTCCATTTTG
1 GTTTGACGTATGGTTACCACCCTGGTCAAATTCTTTCCATTTTG
* * * * *
12530 ATTTGACGTATGGTTACCACCCTAGTCAAACTC-TTCTTATTTCAG
1 GTTTGACGTATGGTTACCACCCTGGTCAAATTCTTTC-CATTT-TG
* *
12575 GTCTGACGTATGGTTACCACCCTGGTCAGATTCTTTCCATTTTG
1 GTTTGACGTATGGTTACCACCCTGGTCAAATTCTTTCCATTTTG
* * * * ***
12619 ATTTGATGTATGGTTACCACCCTGGTCAGATTCTTTTCATTCCA
1 GTTTGACGTATGGTTACCACCCTGGTCAAATTCTTTCCATTTTG
* * *
12663 ATTTGACGTATGGTTACCACCGTAGTCAAAT
1 GTTTGACGTATGGTTACCACCCTGGTCAAAT
12694 ATGCTTTTTT
Statistics
Matches: 301, Mismatches: 77, Indels: 15
0.77 0.20 0.04
Matches are distributed among these distances:
43 27 0.09
44 148 0.49
45 120 0.40
46 6 0.02
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.39
Consensus pattern (44 bp):
GTTTGACGTATGGTTACCACCCTGGTCAAATTCTTTCCATTTTG
Found at i:12581 original size:177 final size:178
Alignment explanation
Indices: 12264--12646 Score: 527
Period size: 177 Copynumber: 2.2 Consensus size: 178
12254 TTTCCTTTAT
** *
12264 GTTTGACGTATGGTTACCACTATGGTCAAACTCTTCTCATTTCAAGTCTGATGTATGGCTACCAC
1 GTTTGACGTATGGTTACCACCCTGGTCAAACTCTTCCCATTTCAAGTCTGATGTATGGCTACCAC
* * * * * *
12329 CGTAGTCAAATTCTTTCCATCTTGATTTGACGTATGGTTATCGCCTTTGCCAAACTCTTTTCATT
66 CCTAATCAAATTCTTTCCATCTTGATTTGACGTATGGTTACCACCCTAGCCAAACTCTTTTCATT
*
12394 TTAAGTCTGACGTATGGTTACCACCCTGGTCAAATTCTTTCCATTTTG
131 TCAAGTCTGACGTATGGTTACCACCCTGGTCAAATTCTTTCCATTTTG
* * * * * *
12442 GTTTGACGTATGGTTATCACCCTGGTCAAACTCTTCCCATTTTAGGTCTGGTGTCTGGTTACCAC
1 GTTTGACGTATGGTTACCACCCTGGTCAAACTCTTCCCATTTCAAGTCTGATGTATGGCTACCAC
* * * *
12507 CCTAATTAGATT-TTTCCATTTTGATTTGACGTATGGTTACCACCCTAGTCAAACTCTTCTT-AT
66 CCTAATCAAATTCTTTCCATCTTGATTTGACGTATGGTTACCACCCTAGCCAAACTCTT-TTCAT
* *
12570 TTCAGGTCTGACGTATGGTTACCACCCTGGTCAGATTCTTTCCATTTTG
130 TTCAAGTCTGACGTATGGTTACCACCCTGGTCAAATTCTTTCCATTTTG
* *
12619 ATTTGATGTATGGTTACCACCCTGGTCA
1 GTTTGACGTATGGTTACCACCCTGGTCA
12647 GATTCTTTTC
Statistics
Matches: 179, Mismatches: 25, Indels: 3
0.86 0.12 0.01
Matches are distributed among these distances:
177 113 0.63
178 66 0.37
ACGTcount: A:0.20, C:0.23, G:0.17, T:0.39
Consensus pattern (178 bp):
GTTTGACGTATGGTTACCACCCTGGTCAAACTCTTCCCATTTCAAGTCTGATGTATGGCTACCAC
CCTAATCAAATTCTTTCCATCTTGATTTGACGTATGGTTACCACCCTAGCCAAACTCTTTTCATT
TCAAGTCTGACGTATGGTTACCACCCTGGTCAAATTCTTTCCATTTTG
Found at i:12712 original size:44 final size:42
Alignment explanation
Indices: 12531--12721 Score: 152
Period size: 44 Copynumber: 4.3 Consensus size: 42
12521 TCCATTTTGA
* **
12531 TTTGACGTATGGTTACCACCCTAGTCAAACTCTTCTTATTTCAGG
1 TTTGACGTATGGTTACCACCCTAGTCAAA---TTCTTTTTTCCTG
* * *
12576 TCTGACGTATGGTTACCACCCTGGTCAGATTCTTTCCATTT--TG
1 TTTGACGTATGGTTACCACCCTAGTCAAATTCTTT---TTTCCTG
* * * **
12619 ATTTGATGTATGGTTACCACCCTGGTCAGATTCTTTTCATTCCAA
1 -TTTGACGTATGGTTACCACCCTAGTCAAATTCTTTT--TTCCTG
*
12664 TTTGACGTATGGTTACCACCGTAGTCAAATATGCTTTTTTCCTG
1 TTTGACGTATGGTTACCACCCTAGTCAAAT-T-CTTTTTTCCTG
*
12708 TTTGACATATGGTT
1 TTTGACGTATGGTT
12722 TTCACCTTGG
Statistics
Matches: 120, Mismatches: 16, Indels: 21
0.76 0.10 0.13
Matches are distributed among these distances:
41 1 0.01
42 5 0.04
43 3 0.03
44 76 0.63
45 30 0.25
46 5 0.04
ACGTcount: A:0.20, C:0.22, G:0.17, T:0.40
Consensus pattern (42 bp):
TTTGACGTATGGTTACCACCCTAGTCAAATTCTTTTTTCCTG
Found at i:12721 original size:177 final size:176
Alignment explanation
Indices: 12265--12721 Score: 510
Period size: 177 Copynumber: 2.6 Consensus size: 176
12255 TTCCTTTATG
** *
12265 TTTGACGTATGGTTACCACTATGGTCAAACTCTTCTCATTTCAAGTCTGATGTATGGCTACCACC
1 TTTGACGTATGGTTACCACCCTGGTCAAACTCTTCTCATTTCAA-TCTGATGTATGGTTACCACC
** * * * *
12330 GTAGTCAAATTCTTTCCATCTTGATTTGACGTATGGTTATCGCCTTTGCCAAACTCTTTTCATTT
65 GTAGTCAAATTCTTTCTTTC-TGATTTGACGTATGGTTACCACCCTAGCCAAACTCTTTTCATTT
* *
12395 TAAGTCTGACGTATGGTTACCACCCTGGTCAAATTCTTTCCATTTTGG
129 CAAGTCTGACGTATGGTTACCACCCTGGTCAAATTCTTTCCATTTTGA
* * * * * *
12443 TTTGACGTATGGTTATCACCCTGGTCAAACTCTTCCCATTTTAGGTCTGGTGTCTGGTTACCACC
1 TTTGACGTATGGTTACCACCCTGGTCAAACTCTTCTCATTTCA-ATCTGATGTATGGTTACCACC
* * * * *
12508 CTAATTAGATT-TTTCCATTT-TGATTTGACGTATGGTTACCACCCTAGTCAAACTCTTCTT-AT
65 GTAGTCAAATTCTTT-C-TTTCTGATTTGACGTATGGTTACCACCCTAGCCAAACTCTT-TTCAT
* *
12570 TTCAGGTCTGACGTATGGTTACCACCCTGGTCAGATTCTTTCCATTTTGA
127 TTCAAGTCTGACGTATGGTTACCACCCTGGTCAAATTCTTTCCATTTTGA
* * * * * * *
12620 TTTGATGTATGGTTACCACCCTGGTCAGATTCTTTTCATTCCAATTTGACGTATGGTTACCACCG
1 TTTGACGTATGGTTACCACCCTGGTCAAACTCTTCTCATTTCAATCTGATGTATGGTTACCACCG
*
12685 TAGTCAAATATGCTTT-TTTCCTG-TTTGACATATGGTT
66 TAGTCAAAT-T-CTTTCTTT-CTGATTTGACGTATGGTT
12722 TTCACCTTGG
Statistics
Matches: 228, Mismatches: 42, Indels: 19
0.79 0.15 0.07
Matches are distributed among these distances:
176 25 0.11
177 132 0.58
178 67 0.29
179 4 0.02
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.40
Consensus pattern (176 bp):
TTTGACGTATGGTTACCACCCTGGTCAAACTCTTCTCATTTCAATCTGATGTATGGTTACCACCG
TAGTCAAATTCTTTCTTTCTGATTTGACGTATGGTTACCACCCTAGCCAAACTCTTTTCATTTCA
AGTCTGACGTATGGTTACCACCCTGGTCAAATTCTTTCCATTTTGA
Found at i:12902 original size:43 final size:43
Alignment explanation
Indices: 12846--12966 Score: 122
Period size: 42 Copynumber: 2.8 Consensus size: 43
12836 AATCTCTAGT
* * * *
12846 AAACTTCTTATCCCCTCAATGACTTGTCGGCTTAGTCCCTA-A
1 AAACCTCTTATCCCCTCAATGACCTATCGGCTTAGTCCCCAGA
* * * *
12888 ACAACC-CTTCAT-CCCTTATTTACCTATCGGCTTAGTCCCCAGT
1 A-AACCTCTT-ATCCCCTCAATGACCTATCGGCTTAGTCCCCAGA
*
12931 AAACCTCTTATCCCCTCAATGACCTATCAGCTTAGT
1 AAACCTCTTATCCCCTCAATGACCTATCGGCTTAGT
12967 TCCTGGTCAA
Statistics
Matches: 62, Mismatches: 12, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
42 33 0.53
43 29 0.47
ACGTcount: A:0.24, C:0.34, G:0.10, T:0.32
Consensus pattern (43 bp):
AAACCTCTTATCCCCTCAATGACCTATCGGCTTAGTCCCCAGA
Found at i:12944 original size:42 final size:42
Alignment explanation
Indices: 12818--12944 Score: 114
Period size: 42 Copynumber: 3.0 Consensus size: 42
12808 TTTCATCTCA
* * * *
12818 TTATTTACCTATCGGCTCAATCTCTAGTAAACTTCTTATCCCC
1 TTATTTACCTATCGGCTTAGTCCCTAGTAAACCTCTTAT-CCC
* * * * * *
12861 TCAATGACTTGTCGGCTTAGTCCCTA-AACAACC-CTTCATCCC
1 TTATTTACCTATCGGCTTAGTCCCTAGTA-AACCTCTT-ATCCC
*
12903 TTATTTACCTATCGGCTTAGTCCCCAGTAAACCTCTTATCCC
1 TTATTTACCTATCGGCTTAGTCCCTAGTAAACCTCTTATCCC
12945 CTCAATGACC
Statistics
Matches: 63, Mismatches: 17, Indels: 9
0.71 0.19 0.10
Matches are distributed among these distances:
42 36 0.57
43 27 0.43
ACGTcount: A:0.23, C:0.33, G:0.09, T:0.35
Consensus pattern (42 bp):
TTATTTACCTATCGGCTTAGTCCCTAGTAAACCTCTTATCCC
Found at i:12964 original size:85 final size:86
Alignment explanation
Indices: 12809--12966 Score: 228
Period size: 85 Copynumber: 1.8 Consensus size: 86
12799 TCTGATACTT
* * * * *
12809 TTCATCTCATTATTTACCTATCGGCTCAATCTCTAGTAAACTTCTTATCCCCTCAATGACTTGTC
1 TTCATCTCATTATTTACCTATCGGCTCAATCCCCAGTAAACCTCTTATCCCCTCAATGACCTATC
*
12874 GGCTTAGTCCCTAAACAACCC
66 AGCTTAGTCCCTAAACAACCC
* * *
12895 TTCATC-CCTTATTTACCTATCGGCTTAGTCCCCAGTAAACCTCTTATCCCCTCAATGACCTATC
1 TTCATCTCATTATTTACCTATCGGCTCAATCCCCAGTAAACCTCTTATCCCCTCAATGACCTATC
12959 AGCTTAGT
66 AGCTTAGT
12967 TCCTGGTCAA
Statistics
Matches: 63, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
85 57 0.90
86 6 0.10
ACGTcount: A:0.23, C:0.32, G:0.09, T:0.35
Consensus pattern (86 bp):
TTCATCTCATTATTTACCTATCGGCTCAATCCCCAGTAAACCTCTTATCCCCTCAATGACCTATC
AGCTTAGTCCCTAAACAACCC
Found at i:12984 original size:85 final size:85
Alignment explanation
Indices: 12808--13010 Score: 217
Period size: 85 Copynumber: 2.4 Consensus size: 85
12798 ATCTGATACT
* * * * * * * *
12808 TTTCATCTCATTATTTACCTATCGGCTCAATCTCTAGTAAACTTCTTATCCCCTCAATGACTTGT
1 TTTCATC-CCTTATTTACCTATCGGCTTAGTCCCCAGTAAACCTCTTATCCCCTCAATGACCTAT
* *
12873 CGGCTTAGTCCCTAAACAACC
65 CAGCTTAGTCCCTAAACAAAC
*
12894 CTTCATCCCTTATTTACCTATCGGCTTAGTCCCCAGTAAACCTCTTATCCCCTCAATGACCTATC
1 TTTCATCCCTTATTTACCTATCGGCTTAGTCCCCAGTAAACCTCTTATCCCCTCAATGACCTATC
* ***
12959 AGCTTAGTTCCTGGTCAAAC
66 AGCTTAGTCCCTAAACAAAC
* * **
12979 TTTCATCCCCGTGTTTACCTATCAACTTAGTC
1 TTTCAT-CCCTTATTTACCTATCGGCTTAGTC
13011 TCGAGTAGAT
Statistics
Matches: 96, Mismatches: 20, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
85 69 0.72
86 27 0.28
ACGTcount: A:0.23, C:0.32, G:0.10, T:0.35
Consensus pattern (85 bp):
TTTCATCCCTTATTTACCTATCGGCTTAGTCCCCAGTAAACCTCTTATCCCCTCAATGACCTATC
AGCTTAGTCCCTAAACAAAC
Found at i:13291 original size:43 final size:43
Alignment explanation
Indices: 13244--13424 Score: 141
Period size: 43 Copynumber: 4.2 Consensus size: 43
13234 CTTCTGCAAC
* * *
13244 CTTTCGTTTGCCTATCAACTTAGAACT-GAGAGACTTTCGTTAT
1 CTTTCGTCTGCTTATCAACTTAG-ACTCGAGAGACTTCCGTTAT
* * *
13287 CTTTCGTCTGCTTGTCAGCTTAGACTCGAGAGACTTCCTTTAT
1 CTTTCGTCTGCTTATCAACTTAGACTCGAGAGACTTCCGTTAT
** * * * * *
13330 CTTTCGTCTGCTTATCGGCTTAAAC-CCAGGATATTTCCTTTAT
1 CTTTCGTCTGCTTATCAACTTAGACTCGA-GAGACTTCCGTTAT
* * * * * ** *
13373 CTTTAGTCTGCCTATCAGCTTAGACCCGAAAGACTTCTTTTAC
1 CTTTCGTCTGCTTATCAACTTAGACTCGAGAGACTTCCGTTAT
13416 CTTTCGTCT
1 CTTTCGTCT
13425 TTTCCTTAGC
Statistics
Matches: 112, Mismatches: 23, Indels: 6
0.79 0.16 0.04
Matches are distributed among these distances:
42 5 0.04
43 105 0.94
44 2 0.02
ACGTcount: A:0.19, C:0.25, G:0.15, T:0.40
Consensus pattern (43 bp):
CTTTCGTCTGCTTATCAACTTAGACTCGAGAGACTTCCGTTAT
Found at i:13334 original size:86 final size:86
Alignment explanation
Indices: 13242--13424 Score: 199
Period size: 86 Copynumber: 2.1 Consensus size: 86
13232 AACTTCTGCA
* ** * * * *
13242 ACCTTTCGTTTGCCTATCAACTTAGAACTGAGAGA-CTTT-CGTTATCTTTCGTCTGCTTGTCAG
1 ACCTTTCGTCTGCCTATCAACTTA-AACCCAG-GATATTTCCGTTATCTTTAGTCTGCCTATCAG
* *
13305 CTTAGACTCGAGAGACTTCCTTT
64 CTTAGACCCGAAAGACTTCCTTT
* * ** *
13328 ATCTTTCGTCTGCTTATCGGCTTAAACCCAGGATATTTCCTTTATCTTTAGTCTGCCTATCAGCT
1 ACCTTTCGTCTGCCTATCAACTTAAACCCAGGATATTTCCGTTATCTTTAGTCTGCCTATCAGCT
*
13393 TAGACCCGAAAGACTTCTTTT
66 TAGACCCGAAAGACTTCCTTT
13414 ACCTTTCGTCT
1 ACCTTTCGTCT
13425 TTTCCTTAGC
Statistics
Matches: 79, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
84 2 0.03
85 8 0.10
86 69 0.87
ACGTcount: A:0.20, C:0.26, G:0.15, T:0.39
Consensus pattern (86 bp):
ACCTTTCGTCTGCCTATCAACTTAAACCCAGGATATTTCCGTTATCTTTAGTCTGCCTATCAGCT
TAGACCCGAAAGACTTCCTTT
Found at i:14978 original size:330 final size:333
Alignment explanation
Indices: 14544--15255 Score: 909
Period size: 330 Copynumber: 2.1 Consensus size: 333
14534 TTTCTTTCTG
* *
14544 AATTCCTCCTATTTTCAAATTACAAGGTTTTCATCTCCATAAATTTTTTTCAAGAGGATTTTTCT
1 AATT-CTCCTTTTTTCAAAATACAAGGTTTTCATCTCCATAAATTTTTTTCAAGAGGATTTTTCT
** * *
14609 TAGTTTTTAATTTTTAAAATTTATCAAATATTATTATTTATTTCATATTAATTTAGTTTTCAAAA
65 TAGTTTTTAATTTTTAAAATACATAAAATATTATTATTTATTTCACATTAATTTAGTTTTCAAAA
* * * *
14674 ATTCATTTATTTCCATAAAATTTGAATTTTTCCTTGAATTTTTCTTTTTTTCGAAATACGAAGTT
130 ATTCATTCATTTCCATAAAATTTGAATTTTTCCTTAAAATTTCCTTTTTTTCGAAATACGAAGTT
* * * * *
14739 TTCTACTTTGTAACTTTTTTCGGGAGGATTTTTCTTGGTTTTTAATTTTTGAAATTCATCAAATA
195 TTCTACTCTGTAACTTTTTTAGGGAGGATGTTTCTTGGTTTTTAATTTTTAAAATTCATAAAATA
* * * * *
14804 TTATTATTTATTTGAAATTAATTCAGTTTTCAAAAATTCATTCATTTCCATAAATGTTGAA-TTT
260 TTATTATTTATTTCAAATTAAATCAGTTTTAAAAAATTAATTCATTTCCATAAATGTTAAAGTTT
14868 TTTCCTTGA
325 TTTCCTTGA
* **
14877 AATTCTCCTTTTTTCAAAATAC-AGAGTTTTC-TACTCCATATA-TTTTTT-GGGAGGATTTTTC
1 AATTCTCCTTTTTTCAAAATACAAG-GTTTTCAT-CTCCATAAATTTTTTTCAAGAGGATTTTTC
* **
14938 TTTGTTTTTAATTTTTAAAATACATAAAATATTATTATTTATTTCACATTAATTTTTTTTTCAAA
64 TTAGTTTTTAATTTTTAAAATACATAAAATATTATTATTTATTTCACATTAATTTAGTTTTCAAA
* * *
15003 AATTCATTCATTTTCATAAATTTTGAATTTTTTCTTAAAATTTCCTTTTTTTCGAAATACGAAGT
129 AATTCATTCATTTCCATAAAATTTGAATTTTTCCTTAAAATTTCCTTTTTTTCGAAATACGAAGT
* * * **
15068 TTTTTACTCTGTAATTTTTTTAGGGGGGATGTTTCTTGGTTTTTGTTTTTTAAAATTCATAAAAT
194 TTTCTACTCTGTAACTTTTTTAGGGAGGATGTTTCTTGGTTTTTAATTTTTAAAATTCATAAAAT
* * * * * *
15133 ATTATTATTTATTTCATATTAAATCAGTTTTAAAAAATTAATTTATTTTCATGAGTTTTAAAGTT
259 ATTATTATTTATTTCAAATTAAATCAGTTTTAAAAAATTAATTCATTTCCATAAATGTTAAAGTT
*
15198 TTTTCTTTGA
324 TTTTCCTTGA
* * * *
15208 AAATC-CCTTTTTTTCGAGAAAT-CAA-ATTTTCTTCTCCGTAAATTTTTT
1 AATTCTCC-TTTTTTC-A-AAATACAAGGTTTTCATCTCCATAAATTTTTT
15256 AGGGGAAATT
Statistics
Matches: 325, Mismatches: 45, Indels: 19
0.84 0.12 0.05
Matches are distributed among these distances:
330 235 0.72
331 43 0.13
332 38 0.12
333 9 0.03
ACGTcount: A:0.29, C:0.11, G:0.08, T:0.52
Consensus pattern (333 bp):
AATTCTCCTTTTTTCAAAATACAAGGTTTTCATCTCCATAAATTTTTTTCAAGAGGATTTTTCTT
AGTTTTTAATTTTTAAAATACATAAAATATTATTATTTATTTCACATTAATTTAGTTTTCAAAAA
TTCATTCATTTCCATAAAATTTGAATTTTTCCTTAAAATTTCCTTTTTTTCGAAATACGAAGTTT
TCTACTCTGTAACTTTTTTAGGGAGGATGTTTCTTGGTTTTTAATTTTTAAAATTCATAAAATAT
TATTATTTATTTCAAATTAAATCAGTTTTAAAAAATTAATTCATTTCCATAAATGTTAAAGTTTT
TTCCTTGA
Found at i:15183 original size:165 final size:164
Alignment explanation
Indices: 14597--15294 Score: 771
Period size: 165 Copynumber: 4.2 Consensus size: 164
14587 TTTTTTTCAA
* * *
14597 GAGGATTTTTCTTAGTTTTTAATTTTTAAAATTTATCAAATATTATTATTTATTTCATATTAATT
1 GAGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATAAAATATTATTATTTATTTCATATTAATT
* * * * * * *
14662 TAGTTTTCAAAAATTCATTTATTTCCATAAAATTTGAATTTTTCCTTGAATTTTTCTTTTTTTCG
66 CAGTTTTCAAAAATTCATTCATTTCCATAAATTTTGAATTTTTTCTTAAAATTTCCTTTTTTTCG
* *
14727 AAATACGAAGTTTTCTACTTTGTAACTTTTTTCGG
131 AAATACGAAGTTTTCTACTCTGTAA-TTTTTTTGG
* * * *
14762 GAGGATTTTTCTTGGTTTTTAATTTTTGAAATTCATCAAATATTATTATTTATTTGAAATTAATT
1 GAGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATAAAATATTATTATTTATTTCATATTAATT
* *
14827 CAGTTTTCAAAAATTCATTCATTTCCATAAATGTTGAATTTTTTCCTTGAAATTCTCC-TTTTTT
66 CAGTTTTCAAAAATTCATTCATTTCCATAAATTTTGAATTTTTT-CTTAAAATT-TCCTTTTTTT
* **
14891 CAAAATAC-AGAGTTTTCTACTCCAT-ATATTTTTTGG
129 CGAAATACGA-AGTTTTCTACTCTGTAAT-TTTTTTGG
* * *
14927 GAGGATTTTTCTTTGTTTTTAATTTTTAAAATACATAAAATATTATTATTTATTTCACATTAATT
1 GAGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATAAAATATTATTATTTATTTCATATTAATT
*** *
14992 TTTTTTTCAAAAATTCATTCATTTTCATAAATTTTGAATTTTTTCTTAAAATTTCCTTTTTTTCG
66 CAGTTTTCAAAAATTCATTCATTTCCATAAATTTTGAATTTTTTCTTAAAATTTCCTTTTTTTCG
*
15057 AAATACGAAGTTTTTTACTCTGTAATTTTTTTAGG
131 AAATACGAAGTTTTCTACTCTGTAATTTTTTT-GG
* * ** *
15092 GGGGATGTTTCTTGGTTTTTGTTTTTTAAAATTCATAAAATATTATTATTTATTTCATATTAAAT
1 GAGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATAAAATATTATTATTTATTTCATATTAATT
* * * * * * * *
15157 CAGTTTTAAAAAATTAATTTATTTTCATGAGTTTTAAAGTTTTTTCTTTGAAAA-TCCCTTTTTT
66 CAGTTTTCAAAAATTCATTCATTTCCATAAATTTTGAA-TTTTTTC-TT-AAAATTTCCTTTTTT
* * * *
15221 TCGAGAA-ATC-AAATTTTCTTCTCCGTAAATTTTTTAGG
128 TCGA-AATA-CGAAGTTTTCTACTCTGT-AATTTTTTTGG
* * ** *
15259 G-GAAATTTTTCTTAGTTTAAAATTTTTAGAATTCAT
1 GAG-GATTTTTCTTGGTTTTTAATTTTTAAAATTCAT
15295 CTAATATTGT
Statistics
Matches: 454, Mismatches: 64, Indels: 28
0.83 0.12 0.05
Matches are distributed among these distances:
163 3 0.01
164 40 0.09
165 297 0.65
166 41 0.09
167 58 0.13
168 15 0.03
ACGTcount: A:0.29, C:0.10, G:0.09, T:0.52
Consensus pattern (164 bp):
GAGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATAAAATATTATTATTTATTTCATATTAATT
CAGTTTTCAAAAATTCATTCATTTCCATAAATTTTGAATTTTTTCTTAAAATTTCCTTTTTTTCG
AAATACGAAGTTTTCTACTCTGTAATTTTTTTGG
Found at i:15385 original size:330 final size:328
Alignment explanation
Indices: 14578--15368 Score: 759
Period size: 330 Copynumber: 2.4 Consensus size: 328
14568 AGGTTTTCAT
** * ** ** *
14578 CTCCATAAATTTTTTTCAAGAGGATTTTTCTTAGTTTTTAATTTTTAAAATTTATCAAATATTAT
1 CTCCATAAA-TTTTTT-GGGAGAATTTTTCTTAGTTTAAAATTTTTAAAATACATAAAATATTAT
* ** * * * * * *
14643 TATTTATTTCATATTAATTTAGTTTT-CAAAAATTCATTTATTTCCATAAAATTTGAATTTTTCC
64 CATGAATTT-ACATTAA-TTAGTTTTGCAAAAATTAATTCATTTTCATAAATTTTGAATTTTTTC
** * * * *
14707 TTGAATTTTTCTTTTTTTCGAAATACGAAGTTTTCTACTTTGTAACTTTTTTCGGGAGGATTTTT
127 TT-AAAATTTCATTTTTTCGAAATACGAAGTTTTCTACTCTGTAACTTTTTTAGGGAGGATGTTT
* * * * *
14772 CTTGGTTTTTAATTTTTGAAATTCATCAAATATTATTATTTATTTGAAATTAATTCAGTTTTCAA
191 CTTGGTTTTTAATTTTTAAAATTCATAAAATATTATTATTTATTTCAAATTAAATCAGTTTTAAA
* * *
14837 AAATTCATTCATTTCCATAAATGTTGAATTTTTTCCTTGAAATTCTCCTTTTTTCAAAATACAGA
256 AAATTAATTCATTTCCATAAATGTTAAATTTTTTCCTTGAAAATCTCCTTTTTTCAAAATACAGA
*
14902 GTTTTCTA
321 ATTTTCTA
* * * ** *
14910 CTCCATATATTTTTTGGGAGGATTTTTCTTTGTTTTTAATTTTTAAAATACATAAAATATTATTA
1 CTCCATAAATTTTTTGGGAGAATTTTTCTTAGTTTAAAATTTTTAAAATACATAAAATATTATCA
** ** * *
14975 TTTATTTCACATTAATTTTTTTTTCAAAAATTCATTCATTTTCATAAATTTTGAATTTTTTCTTA
66 TGAATTT-ACATTAATTAGTTTTGCAAAAATTAATTCATTTTCATAAATTTTGAATTTTTTCTTA
* * * *
15040 AAATTTCCTTTTTTTCGAAATACGAAGTTTTTTACTCTGTAATTTTTTTAGGGGGGATGTTTCTT
130 AAATTT-CATTTTTTCGAAATACGAAGTTTTCTACTCTGTAACTTTTTTAGGGAGGATGTTTCTT
** *
15105 GGTTTTTGTTTTTTAAAATTCATAAAATATTATTATTTATTTCATATTAAATCAGTTTTAAAAAA
194 GGTTTTTAATTTTTAAAATTCATAAAATATTATTATTTATTTCAAATTAAATCAGTTTTAAAAAA
* * * * * *
15170 TTAATTTATTTTCATGAGTTTTAAAGTTTTTTCTTTGAAAATC-CCTTTTTTTCGAGAAAT-CA-
259 TTAATTCATTTCCATAAATGTTAAA-TTTTTTCCTTGAAAATCTCC-TTTTTTC-A-AAATACAG
*
15232 AATTTTCTT
320 AATTTTCTA
* * * ** *
15241 CTCCGTAAATTTTTTAGGG-GAAATTTTTCTTAGTTTAAAATTTTTAGAATTCATCTAATATTGT
1 CTCCATAAATTTTTT-GGGAG-AATTTTTCTTAGTTTAAAATTTTTAAAATACATAAAATATTAT
* * * * *
15305 CACTGAACTTT-TATTAATTCAGTTTTGGAAAATTTAATTTA-TTTCATTAATTTTGAACTTTTT
64 CA-TGAA-TTTACATTAATT-AGTTTTGCAAAAATTAATTCATTTTCATAAATTTTGAA-TTTTT
15368 T
125 T
15369 GTATATATTA
Statistics
Matches: 383, Mismatches: 64, Indels: 23
0.81 0.14 0.05
Matches are distributed among these distances:
329 11 0.03
330 223 0.58
331 49 0.13
332 71 0.19
333 26 0.07
334 3 0.01
ACGTcount: A:0.29, C:0.10, G:0.08, T:0.52
Consensus pattern (328 bp):
CTCCATAAATTTTTTGGGAGAATTTTTCTTAGTTTAAAATTTTTAAAATACATAAAATATTATCA
TGAATTTACATTAATTAGTTTTGCAAAAATTAATTCATTTTCATAAATTTTGAATTTTTTCTTAA
AATTTCATTTTTTCGAAATACGAAGTTTTCTACTCTGTAACTTTTTTAGGGAGGATGTTTCTTGG
TTTTTAATTTTTAAAATTCATAAAATATTATTATTTATTTCAAATTAAATCAGTTTTAAAAAATT
AATTCATTTCCATAAATGTTAAATTTTTTCCTTGAAAATCTCCTTTTTTCAAAATACAGAATTTT
CTA
Found at i:15703 original size:13 final size:13
Alignment explanation
Indices: 15682--15725 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
15672 ACGTTCAGCT
*
15682 GAAAGAAGAGAGA
1 GAAAAAAGAGAGA
15695 GAAAAAAGAGAGA
1 GAAAAAAGAGAGA
* *
15708 -AAAAAAAAAAGA
1 GAAAAAAGAGAGA
15720 GAAAAA
1 GAAAAA
15726 TAGAAAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
12 10 0.37
13 17 0.63
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (13 bp):
GAAAAAAGAGAGA
Found at i:15733 original size:16 final size:16
Alignment explanation
Indices: 15696--15725 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15686 GAAGAGAGAG
15696 AAAAAAGAGAGAAAAA
1 AAAAAAGAGAGAAAAA
15712 AAAAAAGAGA-AAAA
1 AAAAAAGAGAGAAAA
15726 TAGAAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (16 bp):
AAAAAAGAGAGAAAAA
Found at i:16825 original size:162 final size:161
Alignment explanation
Indices: 16651--17121 Score: 649
Period size: 167 Copynumber: 2.9 Consensus size: 161
16641 AAAATTAAAA
* * * *
16651 AATATTTATTTTTTCTAATCTTTTATATTCCCATAGGCATCTGTAAGGGTATAAGAGATTTCAAA
1 AATATTTATTTTTTCTAATCTTTTATATTCCTATGGGCATCCGTAAGGGTATAAAAGATTTCAAA
*
16716 AACCTTCCGTATTCTTTCGGGCTTCCATTAGGGTACGAAATAGTATTTTCAAAAATAAATAAAAT
66 AACCTT-CGTATTCTTTCGGGCTTCCATTAGGGTATGAAATAGTATTTTCAAAAATAAATAAAAT
*
16781 TAACTTAAATTAGTATTATTGGAATAAATTCT
130 TAAATTAAATTAGTATTATTGGAATAAATTCT
16813 AATATTTATTTTTTCTAATCTTTTATATTCCTATGGGCATCCGT-AGAGGTATAAAAGATTTCAA
1 AATATTTATTTTTTCTAATCTTTTATATTCCTATGGGCATCCGTAAG-GGTATAAAAGATTTCAA
* * * *
16877 AAACCTATCGAAATT-TTTTGGGCTTCCATTAGGGTATAAAATAGTATTTACAAAAATAAATTAA
65 AAACCT-TCG-TATTCTTTCGGGCTTCCATTAGGGTATGAAATAGTATTTTCAAAAATAAA-T--
* *
16941 ATTAAATTAAATTAAATTGGTATTATTGGGATAAATTCT
125 A--AAATTAAATTAAATTAGTATTATTGGAATAAATTCT
* *
16980 AATATTTATTTTTTCTAATTTTTTATATTCCTATGGGCATCCGTAACGGTATAAAAGATTTCAAA
1 AATATTTATTTTTTCTAATCTTTTATATTCCTATGGGCATCCGTAAGGGTATAAAAGATTTCAAA
* * * * * *
17045 AACCTTTCGTATCCTTTCGAGCTTCCATTAAGGTATGAGATGGTATTTTCAAAAATAAATAAAAC
66 AACC-TTCGTATTCTTTCGGGCTTCCATTAGGGTATGAAATAGTATTTTCAAAAATAAATAAAAT
*
17110 TAAATTGAATTA
130 TAAATTAAATTA
17122 ATACTTTCAT
Statistics
Matches: 272, Mismatches: 26, Indels: 22
0.85 0.08 0.07
Matches are distributed among these distances:
161 2 0.01
162 119 0.44
163 5 0.02
164 1 0.00
165 1 0.00
166 3 0.01
167 139 0.51
168 2 0.01
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (161 bp):
AATATTTATTTTTTCTAATCTTTTATATTCCTATGGGCATCCGTAAGGGTATAAAAGATTTCAAA
AACCTTCGTATTCTTTCGGGCTTCCATTAGGGTATGAAATAGTATTTTCAAAAATAAATAAAATT
AAATTAAATTAGTATTATTGGAATAAATTCT
Found at i:16943 original size:5 final size:5
Alignment explanation
Indices: 16933--16958 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
16923 TTTACAAAAA
16933 TAAAT TAAAT TAAAT TAAAT TAAAT T
1 TAAAT TAAAT TAAAT TAAAT TAAAT T
16959 GGTATTATTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TAAAT
Found at i:19964 original size:18 final size:15
Alignment explanation
Indices: 19943--19983 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 15
19933 TAAAATAATA
19943 TTTATTTTAGTACTTTAT
1 TTTATTTTA-TA-TTT-T
19961 TTTATTTTATATTTT
1 TTTATTTTATATTTT
19976 TTTATTTT
1 TTTATTTT
19984 CGAAAATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 9 0.39
16 3 0.13
17 2 0.09
18 9 0.39
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (15 bp):
TTTATTTTATATTTT
Found at i:22605 original size:141 final size:133
Alignment explanation
Indices: 22361--22752 Score: 423
Period size: 132 Copynumber: 2.9 Consensus size: 133
22351 TGAAAATCTT
* *
22361 ATTTTGTACCTTAA-GGAATAACTGAAAAGATACGAAAAGTTTTAAAGATTACTATA-TCCCTAC
1 ATTTCGTACCTTAATGG-AGAACTGAAAAGATACGAAAAGTTTTAAAGATT-CTATACT-CCTAC
* ** * **
22424 GAAAAATTATAACAATATTAGAAATCTTAAAAAAAAAAGATAATAATTTTTATTTAATTTTTAAT
63 GAAAAATCATAGGAATATTAGAAATCTTGAAAAATTAAGATAATAATTTTTATTTAATTTTTAA-
*
22489 TTTTGAAATTTTC
127 -----AAA-ATTC
* * *
22502 ATTTCGTACCTTAATGGCGAACTGCAAAGATACGAAAAGTTTTAAAGATGTCTATACTCCTACAA
1 ATTTCGTACCTTAATGGAGAACTGAAAAGATACGAAAAGTTTTAAAGAT-TCTATACTCCTACGA
* * * *
22567 AAAATCATTGGAATATAAAAAATCTTGAAAAATTAAGATAATAA-TTAT-TTTAATTTTTAAAAA
65 AAAATCATAGGAATATTAGAAATCTTGAAAAATTAAGATAATAATTTTTATTTAATTTTTAAAAA
22630 ATTC
130 ATTC
* ** * * * *
22634 ATTTCGTACCTTAATGGAGAACCGAAAAGATATAAAAAGTTTTGAAGATTTCTATACTCTTATGG
1 ATTTCGTACCTTAATGGAGAACTGAAAAGATACGAAAAGTTTTAAAGA-TTCTATACTCCTACGA
* *
22699 AAAACCATAGGAATATTAGAAATCTTGAAAAATTAAGAAAATAATTTTTATTTA
65 AAAATCATAGGAATATTAGAAATCTTGAAAAATTAAGATAATAATTTTTATTTA
22753 GTGATAAAAT
Statistics
Matches: 213, Mismatches: 32, Indels: 19
0.81 0.12 0.07
Matches are distributed among these distances:
132 95 0.45
133 7 0.03
134 4 0.02
139 12 0.06
140 3 0.01
141 88 0.41
142 4 0.02
ACGTcount: A:0.45, C:0.10, G:0.11, T:0.35
Consensus pattern (133 bp):
ATTTCGTACCTTAATGGAGAACTGAAAAGATACGAAAAGTTTTAAAGATTCTATACTCCTACGAA
AAATCATAGGAATATTAGAAATCTTGAAAAATTAAGATAATAATTTTTATTTAATTTTTAAAAAA
TTC
Found at i:24288 original size:165 final size:165
Alignment explanation
Indices: 24095--24532 Score: 528
Period size: 164 Copynumber: 2.7 Consensus size: 165
24085 AGGAAAGTCC
** *
24095 TCCCGAAAACATTTATGGAACA-AAAATTTTGATTTTTCGATAACAGGAAAATTTCAAAGAAAAA
1 TCCCGAAAACATTTATGGAGTAGAAAA-TTTGATTTTTCAATAACAGGAAAATTTCAAAGAAAAA
* *
24159 TTTAAAACTCATGAAAATAAATGAATTTTTGAAAACT-AACTTAAAATGAATTAAATAATAATA-
65 TTAAAAACTCATGAAAATAAATGAATTTTTGAAAACTGAA-TTAAAATAAATTAAATAATAATAT
* *
24222 TTGATGAA-TTTAAAAATTAAAAACTAAGAAAAAAACT
129 TTGATGAATTTTAAAAATTAAAAACCAAG-AAAAAACA
* * *
24259 TCCCAAAAACATTTACGGAGTAGAAAATTTGA-TTTTCAATAACAGGGAAATTTCAAAGAAAAAT
1 TCCCGAAAACATTTATGGAGTAGAAAATTTGATTTTTCAATAACAGGAAAATTTCAAAGAAAAAT
* * *
24323 TCAAAACTCATGAAAATAGATGAATTTTTTGAAAACTGAATTAATATAAATTAAATAATAATATT
66 TAAAAACTCATGAAAATAAATGAA-TTTTTGAAAACTGAATTAAAATAAATTAAATAATAATATT
* *
24388 TGATGAATTTTAAAAATTAAAAACCGAGAAAAATCA
130 TGATGAATTTTAAAAATTAAAAACCAAGAAAAAACA
* * ** * * * *
24424 TCCTGAAAACATTTATGGAGTAGAAAACTCCATATTTCAAAAATAGGAAAAATTTCAAGAAAAAA
1 TCCCGAAAACATTTATGGAGTAGAAAATTTGATTTTTCAATAACAGG-AAAATTTCAA-AGAAAA
* * * * *
24489 ATGAAAAACTCATAAAAATGAATGATTTTTTAAAAACTG-ATTAA
64 ATTAAAAACTCATGAAAATAAATGAATTTTTGAAAACTGAATTAA
24533 TGGTGATTAA
Statistics
Matches: 234, Mismatches: 32, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
163 52 0.22
164 56 0.24
165 46 0.20
166 34 0.15
167 21 0.09
168 25 0.11
ACGTcount: A:0.51, C:0.09, G:0.10, T:0.29
Consensus pattern (165 bp):
TCCCGAAAACATTTATGGAGTAGAAAATTTGATTTTTCAATAACAGGAAAATTTCAAAGAAAAAT
TAAAAACTCATGAAAATAAATGAATTTTTGAAAACTGAATTAAAATAAATTAAATAATAATATTT
GATGAATTTTAAAAATTAAAAACCAAGAAAAAACA
Found at i:24544 original size:166 final size:161
Alignment explanation
Indices: 24136--24556 Score: 486
Period size: 166 Copynumber: 2.5 Consensus size: 161
24126 ATTTTTCGAT
* * *
24136 AACAGGAAAATTTCAAAGAAAAATTTAAAACTCATGAAAATAAATGAATTTTTGAAAACTAACTT
1 AACAGGAAAATTTCAAAGAAAAATTAAAAACTCATGAAAAT-AATGATTTTTTGAAAACTGA-TT
* * *
24201 AAAATGAATTAAATAATAATA-TTGATGAATTTAAAAATTAAAAACTAAGAAAAAAACTTCCCAA
64 AATATG-ATTAAATAATAATATTTGATGAATTTAAAAATTAAAAACCAAGAAAAAAACATCCCAA
* ** *
24265 AAACATTTACGGAGTAGAAAATTTGATTTTCAAT
128 AAACATTTACGGAGTAGAAAACTCCATTTTCAAA
* *
24299 AACAGGGAAATTTCAAAGAAAAATTCAAAACTCATGAAAATAGATGAATTTTTTGAAAACTGAAT
1 AACAGGAAAATTTCAAAGAAAAATTAAAAACTCATGAAAATA-ATG-ATTTTTTGAAAACTG-AT
* * * *
24364 TAATATAAATTAAATAATAATATTTGATGAATTTTAAAAATTAAAAACCGAG-AAAAATCATCCT
63 TAATAT-GATTAAATAATAATATTTGATGAA-TTTAAAAATTAAAAACCAAGAAAAAAACATCCC
* *
24428 GAAAACATTTATGGAGTAGAAAACTCCATATTTCAAA
126 AAAAACATTTACGGAGTAGAAAACTCCAT-TTTCAAA
* * * * *
24465 AATAGGAAAAATTTCAAGAAAAAAATGAAAAACTCATAAAAATGAATGATTTTTTAAAAACTGAT
1 AACAGG-AAAATTTCAA-AGAAAAATTAAAAACTCATGAAAAT-AATGATTTTTTGAAAACTGAT
* *
24530 TAATGGTGATTAAATGATAATATTTGA
63 TAAT-ATGATTAAATAATAATATTTGA
24557 AGAACTTTGA
Statistics
Matches: 220, Mismatches: 27, Indels: 19
0.83 0.10 0.07
Matches are distributed among these distances:
162 1 0.00
163 42 0.19
164 33 0.15
165 42 0.19
166 53 0.24
167 24 0.11
168 24 0.11
169 1 0.00
ACGTcount: A:0.52, C:0.08, G:0.11, T:0.29
Consensus pattern (161 bp):
AACAGGAAAATTTCAAAGAAAAATTAAAAACTCATGAAAATAATGATTTTTTGAAAACTGATTAA
TATGATTAAATAATAATATTTGATGAATTTAAAAATTAAAAACCAAGAAAAAAACATCCCAAAAA
CATTTACGGAGTAGAAAACTCCATTTTCAAA
Found at i:26659 original size:35 final size:35
Alignment explanation
Indices: 26613--26794 Score: 238
Period size: 35 Copynumber: 5.2 Consensus size: 35
26603 TCTTACCAAA
*
26613 CAAACTCTTTTCATCATCATTTGGCTGTATCTGGT
1 CAAACTCTTTTCATCATCATTTGGCTGCATCTGGT
* * *
26648 CAAACTTTTTTCATCAACATTTGGCTGCATCTGCT
1 CAAACTCTTTTCATCATCATTTGGCTGCATCTGGT
**
26683 CAAACTCTTTTCATCATTGTTTGGCTGCATCTGGT
1 CAAACTCTTTTCATCATCATTTGGCTGCATCTGGT
* * *
26718 CAAACTCTTTTCGTCATCGTTTGGCTGCATTTGGT
1 CAAACTCTTTTCATCATCATTTGGCTGCATCTGGT
* * * *
26753 TAAACTCTTTTCATCATCATTTGGTTGTATCTAGT
1 CAAACTCTTTTCATCATCATTTGGCTGCATCTGGT
*
26788 CGAACTC
1 CAAACTC
26795 CT
Statistics
Matches: 126, Mismatches: 21, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 126 1.00
ACGTcount: A:0.20, C:0.23, G:0.15, T:0.42
Consensus pattern (35 bp):
CAAACTCTTTTCATCATCATTTGGCTGCATCTGGT
Done.