Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 91 of 313
Found at i:30315700 original size:27 final size:27
Alignment explanation
Indices: 30315670--30315815 Score: 186
Period size: 27 Copynumber: 5.4 Consensus size: 27
30315660 ATTACCAAAG
30315670 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCGTTT
*
30315697 TACCCTCGATTTATC-AAATTACCATTT
1 TACCCTCGATTTA-CAAAATTACCGTTT
* * *
30315724 TACCTTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCGTTT
* * * *
30315751 TATCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACCGTTT
* *
30315778 TGCCCTTGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCGTTT
30315805 TACCCTCGATT
1 TACCCTCGATT
30315816 GTGAAAATAC
Statistics
Matches: 101, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
27 100 0.99
28 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.09, T:0.42
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCGTTT
Found at i:30315877 original size:27 final size:26
Alignment explanation
Indices: 30315847--30315970 Score: 88
Period size: 27 Copynumber: 4.6 Consensus size: 26
30315837 TATAGGATAG
*
30315847 AATTACCAATATACCCCTAGTTTGTAA
1 AATTACCAA-ATACCCCTAATTTGTAA
* * ** *
30315874 AATTATCTAAATACCACTGGTTTGTGA
1 AATTA-CCAAATACCCCTAATTTGTAA
30315901 AATTACCGAAATA-CCCTCAATTTGTAA
1 AATTACC-AAATACCCCT-AATTTGTAA
* * **
30315928 AATTAGCAAAATACCTCTAATTTACAA
1 AATTA-CCAAATACCCCTAATTTGTAA
*
30315955 AATTACAAAAATACCC
1 AATTAC-CAAATACCC
30315971 TTGACTTTCT
Statistics
Matches: 77, Mismatches: 14, Indels: 12
0.75 0.14 0.12
Matches are distributed among these distances:
26 5 0.06
27 65 0.84
28 7 0.09
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.31
Consensus pattern (26 bp):
AATTACCAAATACCCCTAATTTGTAA
Found at i:30316021 original size:27 final size:27
Alignment explanation
Indices: 30315982--30316033 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
30315972 TGACTTTCTA
30315982 AAAATTATAGAAATACCATTGGTTTAC
1 AAAATTATAGAAATACCATTGGTTTAC
*
30316009 AAAATTACT-GAAATACCCTTGGTTT
1 AAAATTA-TAGAAATACCATTGGTTT
30316034 GTAGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (27 bp):
AAAATTATAGAAATACCATTGGTTTAC
Found at i:30316997 original size:25 final size:25
Alignment explanation
Indices: 30316961--30317055 Score: 154
Period size: 25 Copynumber: 3.8 Consensus size: 25
30316951 AGGAAGTGCT
*
30316961 AAAAGGGCTTTGCCCTAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
30316986 AAAAGGGTTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
* *
30317011 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCG
30317036 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
30317056 ATTAAAAGAG
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 65 1.00
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:30317068 original size:24 final size:24
Alignment explanation
Indices: 30316961--30317082 Score: 90
Period size: 25 Copynumber: 5.0 Consensus size: 24
30316951 AGGAAGTGCT
* *
30316961 AAAAG-GGCTTTGCCCTAGTTTACC
1 AAAAGAGGCTTTGCCCCAG-TTATC
* *
30316985 GAAAAG-GGTTTTGCCCCAGTTTACC
1 -AAAAGAGGCTTTGCCCCAG-TTATC
30317010 GAAAAG-GGCTTTGCCCCAGTTTATC
1 -AAAAGAGGCTTTGCCCCAG-TTATC
*
30317035 AAAA-AGGGCTTTGCCCCAGTTATT
1 AAAAGA-GGCTTTGCCCCAGTTATC
**
30317059 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAGAGGCTTTGCC-CCAGTTAT
30317083 ATGATAAAGT
Statistics
Matches: 86, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
24 19 0.22
25 67 0.78
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGAGGCTTTGCCCCAGTTATC
Found at i:30317079 original size:50 final size:50
Alignment explanation
Indices: 30316961--30317080 Score: 118
Period size: 50 Copynumber: 2.4 Consensus size: 50
30316951 AGGAAGTGCT
** * * *
30316961 AAAAGGGCTTTGCCCTAGTTTACCGAAAAGGGTTTTGCCCCAGTTTACCG
1 AAAAGGGCTAGGCCCCAGTTTACCAAAAAGGGCTTTGCCCCAGTTTACCG
** * **
30317011 AAAAGGGCTTTGCCCCAGTTTATCAAAAAGGGCTTTGCCCCAG-TTA-TT
1 AAAAGGGCTAGGCCCCAGTTTACCAAAAAGGGCTTTGCCCCAGTTTACCG
30317059 AAAAGAGGCTAGGCCTCCAGTT
1 AAAAG-GGCTAGGCC-CCAGTT
30317081 ATATGATAAA
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
48 5 0.08
49 10 0.17
50 45 0.75
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (50 bp):
AAAAGGGCTAGGCCCCAGTTTACCAAAAAGGGCTTTGCCCCAGTTTACCG
Found at i:30317262 original size:42 final size:42
Alignment explanation
Indices: 30317203--30317294 Score: 157
Period size: 42 Copynumber: 2.2 Consensus size: 42
30317193 TAGTCTCCCC
**
30317203 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGAAATTTCATGTGATATTG
*
30317245 AAATGGGCTTGCATACATTCATTGAAATTTCATGTGTTATTG
1 AAATGGGCTTGCATACATTCATTGAAATTTCATGTGATATTG
30317287 AAATGGGC
1 AAATGGGC
30317295 CTATAGGCCA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.28, C:0.12, G:0.22, T:0.38
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGAAATTTCATGTGATATTG
Found at i:30321433 original size:19 final size:19
Alignment explanation
Indices: 30321395--30321432 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
30321385 TGCAAATGGA
*
30321395 TCATTTCTCATTTTCATTT
1 TCATTTCTCATTTCCATTT
30321414 TCATTTC-CATTTCCATTT
1 TCATTTCTCATTTCCATTT
30321432 T
1 T
30321433 TTATAGAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.16, C:0.24, G:0.00, T:0.61
Consensus pattern (19 bp):
TCATTTCTCATTTCCATTT
Found at i:30323053 original size:48 final size:48
Alignment explanation
Indices: 30322992--30323175 Score: 253
Period size: 48 Copynumber: 3.8 Consensus size: 48
30322982 CATTACGGTT
* *
30322992 ATATAAGATCCCATGTAAGACCATGTCTGGGACATGGCATTAGCATCG
1 ATATGAGATCCCATGTAAGACCATGTTTGGGACATGGCATTAGCATCG
* *
30323040 ATATGAGATCCCATGTAAGACCATGTTTAGGACATCGCATTAGCATCG
1 ATATGAGATCCCATGTAAGACCATGTTTGGGACATGGCATTAGCATCG
* * *
30323088 ATATGAGATCCCATGTAAGACCATATTTGGGATATGGCATTGGCATCG
1 ATATGAGATCCCATGTAAGACCATGTTTGGGACATGGCATTAGCATCG
** * *
30323136 ATATGTA-ATTTCTTGTAAGACAATGTTTGGGACATGGCAT
1 ATATG-AGATCCCATGTAAGACCATGTTTGGGACATGGCAT
30323176 CGATATGAGA
Statistics
Matches: 120, Mismatches: 15, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
48 119 0.99
49 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.29
Consensus pattern (48 bp):
ATATGAGATCCCATGTAAGACCATGTTTGGGACATGGCATTAGCATCG
Found at i:30326294 original size:27 final size:27
Alignment explanation
Indices: 30326264--30326530 Score: 115
Period size: 27 Copynumber: 9.9 Consensus size: 27
30326254 ATGGTTCCGA
30326264 CGGACTTCCCACATAAGATAGTCCTTG
1 CGGACTTCCCACATAAGATAGTCCTTG
*
30326291 CGGACTTCCCACATTAGATAGTCCTGATG
1 CGGACTTCCCACATAAGATAGTCCT--TG
* * * *
30326320 -GAATTTTCC-CATTAGATAGTCCTTG
1 CGGACTTCCCACATAAGATAGTCCTTG
* * *
30326345 TGGAC-TCCCATA-ATAGATGGTCCTTG
1 CGGACTTCCCACATA-AGATAGTCCTTG
* * **
30326371 CGGA-TTTCCATA-ATAGATAGTTTTTG
1 CGGACTTCCCACATA-AGATAGTCCTTG
** ** *
30326397 TAGA-TTTTCACA-ATAGATAGTCCCTG
1 CGGACTTCCCACATA-AGATAGTCCTTG
* * * *
30326423 GGGACTTCCCATATAATAAATGATCCTTG
1 CGGACTTCCCACATAAGATA-G-TCCTTG
* * *
30326452 TGGACTTCCCACATAATATAGT-GTTG
1 CGGACTTCCCACATAAGATAGTCCTTG
* *
30326478 ACAGACTTTCCTTA-AT-AGATAGTCCTTG
1 -CGGAC-TTCC-CACATAAGATAGTCCTTG
* *
30326506 CGGACTTCCTATATAAGATAGTCCT
1 CGGACTTCCCACATAAGATAGTCCT
30326531 GACGAACTTT
Statistics
Matches: 184, Mismatches: 40, Indels: 32
0.72 0.16 0.12
Matches are distributed among these distances:
25 7 0.04
26 64 0.35
27 70 0.38
28 18 0.10
29 25 0.14
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (27 bp):
CGGACTTCCCACATAAGATAGTCCTTG
Found at i:30326515 original size:26 final size:26
Alignment explanation
Indices: 30326279--30326530 Score: 106
Period size: 26 Copynumber: 9.4 Consensus size: 26
30326269 TTCCCACATA
* *
30326279 AGATAGTCCTTGCGGACTTCCCACATT
1 AGATAGTCCTTGCGGACTT-CCATAAT
* *
30326306 AGATAGTCCTGATG-GAATTTTCCCAT--T
1 AGATAGTCCT--TGCGGA-CTT-CCATAAT
* *
30326333 AGATAGTCCTTGTGGACTCCCATAAT
1 AGATAGTCCTTGCGGACTTCCATAAT
* *
30326359 AGATGGTCCTTGCGGATTTCCATAAT
1 AGATAGTCCTTGCGGACTTCCATAAT
** ** * * *
30326385 AGATAGTTTTTGTAGATTTTCACAAT
1 AGATAGTCCTTGCGGACTTCCATAAT
* *
30326411 AGATAGTCCCTGGGGACTTCCCATATAAT
1 AGATAGTCCTTGCGGACTT-CC--ATAAT
* *
30326440 AAAT-GATCCTTGTGGACTTCCCACATAAT
1 AGATAG-TCCTTGCGGACTT--C-CATAAT
* * *
30326469 --ATAGT-GTTGACAGACTTTCCTTAAT
1 AGATAGTCCTTG-CGGAC-TTCCATAAT
30326494 AGATAGTCCTTGCGGACTTCC-TATAT
1 AGATAGTCCTTGCGGACTTCCATA-AT
30326520 AAGATAGTCCT
1 -AGATAGTCCT
30326531 GACGAACTTT
Statistics
Matches: 171, Mismatches: 34, Indels: 40
0.70 0.14 0.16
Matches are distributed among these distances:
24 4 0.02
25 10 0.06
26 67 0.39
27 47 0.27
28 9 0.05
29 31 0.18
30 2 0.01
31 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (26 bp):
AGATAGTCCTTGCGGACTTCCATAAT
Found at i:30328522 original size:11 final size:11
Alignment explanation
Indices: 30328506--30328531 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
30328496 TTGATTCTGA
30328506 AAAAATATTTT
1 AAAAATATTTT
30328517 AAAAATATTTT
1 AAAAATATTTT
30328528 AAAA
1 AAAA
30328532 TTTTAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:30333607 original size:20 final size:21
Alignment explanation
Indices: 30333560--30333607 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
30333550 GTTGGAGATG
*
30333560 GAGAAGAGGAGAGGGGGAATAA
1 GAGAA-AGGAGAGGGGGAAAAA
30333582 GAGAAAGGA-AGGGGGAACAAA
1 GAGAAAGGAGAGGGGGAA-AAA
30333603 G-GAAA
1 GAGAAA
30333608 AGAAAGAACA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 12 0.50
21 7 0.29
22 5 0.21
ACGTcount: A:0.50, C:0.02, G:0.46, T:0.02
Consensus pattern (21 bp):
GAGAAAGGAGAGGGGGAAAAA
Found at i:30334113 original size:13 final size:15
Alignment explanation
Indices: 30334095--30334126 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
30334085 AACACTCCTA
30334095 TGTGTC-CA-GGTCG
1 TGTGTCGCACGGTCG
30334108 TGTGTCGCACGGTCG
1 TGTGTCGCACGGTCG
30334123 TGTG
1 TGTG
30334127 GCTTGAGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 6 0.35
14 2 0.12
15 9 0.53
ACGTcount: A:0.06, C:0.22, G:0.41, T:0.31
Consensus pattern (15 bp):
TGTGTCGCACGGTCG
Found at i:30336465 original size:12 final size:13
Alignment explanation
Indices: 30336429--30336466 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
30336419 AAATATTTGA
30336429 CTTGTTCTTAATT
1 CTTGTTCTTAATT
*
30336442 ATGTGTTCTTAATT
1 CT-TGTTCTTAATT
30336456 CTTG-TCTTAAT
1 CTTGTTCTTAAT
30336467 ATTCCAGGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 7 0.32
13 3 0.14
14 12 0.55
ACGTcount: A:0.18, C:0.13, G:0.11, T:0.58
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:30349911 original size:18 final size:18
Alignment explanation
Indices: 30349863--30349914 Score: 86
Period size: 18 Copynumber: 2.9 Consensus size: 18
30349853 AAAATGTGAG
*
30349863 AAATGATGTTCAAATTTC
1 AAATGATGTTCACATTTC
30349881 AAATGATGTTCACATTTC
1 AAATGATGTTCACATTTC
*
30349899 AAATTATGTTCACATT
1 AAATGATGTTCACATT
30349915 GATGGAAACA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.40
Consensus pattern (18 bp):
AAATGATGTTCACATTTC
Found at i:30350429 original size:72 final size:72
Alignment explanation
Indices: 30350334--30350670 Score: 509
Period size: 72 Copynumber: 4.7 Consensus size: 72
30350324 CAATGCTAAA
* * *
30350334 CTAGTTTTATCAATAGTTATTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
1 CTAGTTTTATCAATAGATGTTTATGTTTGGTTTTTGGATATTGAATTTATATTCTACTTATTTAT
30350399 GTGTAAT
66 GTGTAAT
*
30350406 CTAGTTTTATCAATGGATGTTTATGTTTGGTTTTTGGATATTGAATTTATATTCTACTTATTTAT
1 CTAGTTTTATCAATAGATGTTTATGTTTGGTTTTTGGATATTGAATTTATATTCTACTTATTTAT
30350471 GTGTAAT
66 GTGTAAT
*
30350478 CTAGTTTTATCAATGGATGTTTATGTTTGGTTTTTGGATATTGAATTTATATTCTACTTATTTAT
1 CTAGTTTTATCAATAGATGTTTATGTTTGGTTTTTGGATATTGAATTTATATTCTACTTATTTAT
30350543 GTGTAAT
66 GTGTAAT
** *
30350550 CTAGTTTTATCAATAG-TAGTTTATGTTTGGTTTTTGGATATTGAATTTATGGTCTAATTATTTA
1 CTAGTTTTATCAATAGAT-GTTTATGTTTGGTTTTTGGATATTGAATTTATATTCTACTTATTTA
*
30350614 TGCT-TAGAG
65 TG-TGTA-AT
* * *
30350623 CTAGTTTTATCAATA-ATTTTTTATGTTTGATTTTTGGATATTAAATTT
1 CTAGTTTTATCAATAGA-TGTTTATGTTTGGTTTTTGGATATTGAATTT
30350671 GTAACATCCC
Statistics
Matches: 248, Mismatches: 12, Indels: 9
0.92 0.04 0.03
Matches are distributed among these distances:
71 1 0.00
72 202 0.81
73 44 0.18
74 1 0.00
ACGTcount: A:0.24, C:0.05, G:0.16, T:0.54
Consensus pattern (72 bp):
CTAGTTTTATCAATAGATGTTTATGTTTGGTTTTTGGATATTGAATTTATATTCTACTTATTTAT
GTGTAAT
Found at i:30354905 original size:3 final size:3
Alignment explanation
Indices: 30354897--30354932 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
30354887 GTCAAGAAAG
* *
30354897 TGA TGA TGA TGA TGA CGA TGA TGA TGG TGA TGA TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
30354933 CGGTGAATCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.03, G:0.36, T:0.31
Consensus pattern (3 bp):
TGA
Found at i:30363202 original size:19 final size:18
Alignment explanation
Indices: 30363173--30363210 Score: 67
Period size: 19 Copynumber: 2.1 Consensus size: 18
30363163 AAAATTAAAT
30363173 AATTTTAAAATATTTATC
1 AATTTTAAAATATTTATC
30363191 AATTTATAAAATATTTATC
1 AATTT-TAAAATATTTATC
30363210 A
1 A
30363211 TAAATTTCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (18 bp):
AATTTTAAAATATTTATC
Found at i:30363285 original size:26 final size:25
Alignment explanation
Indices: 30363249--30363299 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
30363239 AAAAAATCTA
30363249 AAATAAAAAAATTTAT-CACATACATT
1 AAATAAAAAAA-TTATCCA-ATACATT
*
30363275 AAATAATAAAATTATCCAATACATT
1 AAATAAAAAAATTATCCAATACATT
30363300 TAAAGATTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 11 0.48
26 12 0.52
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.31
Consensus pattern (25 bp):
AAATAAAAAAATTATCCAATACATT
Found at i:30363303 original size:26 final size:26
Alignment explanation
Indices: 30363249--30363299 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
30363239 AAAAAATCTA
30363249 AAATAAAAAAATTTATCACATACATT
1 AAATAAAAAAATTTATCACATACATT
*
30363275 AAATAATAAAA-TTATC-CAATACATT
1 AAATAAAAAAATTTATCAC-ATACATT
30363300 TAAAGATTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 1 0.04
25 12 0.52
26 10 0.43
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.31
Consensus pattern (26 bp):
AAATAAAAAAATTTATCACATACATT
Found at i:30367795 original size:21 final size:22
Alignment explanation
Indices: 30367764--30367804 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
30367754 GAATGTATTG
*
30367764 TGATGTATGTGGAAATGAAATA
1 TGATGTATGTGCAAATGAAATA
*
30367786 TGAT-TATGTGCCAATGAAA
1 TGATGTATGTGCAAATGAAA
30367805 CATAAATGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.39, C:0.05, G:0.24, T:0.32
Consensus pattern (22 bp):
TGATGTATGTGCAAATGAAATA
Found at i:30370492 original size:27 final size:26
Alignment explanation
Indices: 30370462--30370512 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 26
30370452 GAGTCCTAAT
30370462 TAGTTTAGGGTTAAA-TTGAAAATAAAC
1 TAGTTTA--GTTAAATTTGAAAATAAAC
*
30370489 TAGTTTAGTTAAATTTTAAAATAA
1 TAGTTTAGTTAAATTTGAAAATAA
30370513 TTGAAGGAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 6 0.27
26 9 0.41
27 7 0.32
ACGTcount: A:0.45, C:0.02, G:0.14, T:0.39
Consensus pattern (26 bp):
TAGTTTAGTTAAATTTGAAAATAAAC
Found at i:30371684 original size:24 final size:25
Alignment explanation
Indices: 30371643--30371689 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
30371633 GCTTTATGCT
30371643 GGTGTTATTTATCAGGCTTTGTGTA
1 GGTGTTATTTATCAGGCTTTGTGTA
**
30371668 GGTG-TATTTATTGGGCTTTGTG
1 GGTGTTATTTATCAGGCTTTGTG
30371690 CCTAGCAAGC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.13, C:0.06, G:0.32, T:0.49
Consensus pattern (25 bp):
GGTGTTATTTATCAGGCTTTGTGTA
Found at i:30371702 original size:40 final size:39
Alignment explanation
Indices: 30371658--30371752 Score: 109
Period size: 40 Copynumber: 2.4 Consensus size: 39
30371648 TATTTATCAG
* * *
30371658 GCTTTGTGTAGGTGTATTTATTGGGCTTTGTGCCTAGCAA
1 GCTTTGTGTA-ATGTATTTATCGAGCTTTGTGCCTAGCAA
* *
30371698 GCTTTGTGCTAATGTGTTTATCGAGCTTTGTGCCTAGCAT
1 GCTTTGTG-TAATGTATTTATCGAGCTTTGTGCCTAGCAA
*
30371738 GCCTTGTGTCAATGT
1 GCTTTGTGT-AATGT
30371753 TTTCTATCAG
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
39 1 0.02
40 44 0.94
41 2 0.04
ACGTcount: A:0.15, C:0.16, G:0.27, T:0.42
Consensus pattern (39 bp):
GCTTTGTGTAATGTATTTATCGAGCTTTGTGCCTAGCAA
Found at i:30371988 original size:110 final size:107
Alignment explanation
Indices: 30371766--30371989 Score: 261
Period size: 110 Copynumber: 2.1 Consensus size: 107
30371756 CTATCAGGCA
* * * *
30371766 ATGAGCCGGTGATCATTTAGCAGTACTATGTACAGGTGATACAGACAATAGCGATGGCTGAGATC
1 ATGAGCCGGTGATCATTTAACAGTACTATGTACAGATGATACAGACAATAACAATGGCTGAGATC
* **
30371831 CTCATCTGCTGCGGATTTTCTACAGCTTGTGTGAGTAGCATC
66 CTCATCTACTGCGGATTTTCTACAGCTTGTGTGACCAGCATC
** * **
30371873 ATGAGCCGGTGATTTTTTAACAGGTACTATGTACCGATGATACAGACTGTAACAATGGCCTGAGA
1 ATGAGCCGGTGATCATTTAACA-GTACTATGTACAGATGATACAGACAATAACAATGG-CTGAGA
* * *
30371938 TCCTACATCTATTGTGGATTCTT-TACAGCTTGTGTGACCAGTATC
64 TCCT-CATCTACTGCGGATT-TTCTACAGCTTGTGTGACCAGCATC
*
30371983 GTGAGCC
1 ATGAGCC
30371990 AGTCAAAGTT
Statistics
Matches: 97, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
107 19 0.20
108 29 0.30
109 10 0.10
110 37 0.38
111 2 0.02
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (107 bp):
ATGAGCCGGTGATCATTTAACAGTACTATGTACAGATGATACAGACAATAACAATGGCTGAGATC
CTCATCTACTGCGGATTTTCTACAGCTTGTGTGACCAGCATC
Found at i:30372850 original size:128 final size:129
Alignment explanation
Indices: 30372675--30372922 Score: 399
Period size: 128 Copynumber: 1.9 Consensus size: 129
30372665 CTCGCTTTAG
* *
30372675 AAAACACGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACAGGAAATCGAAACCCAG
1 AAAACACGAGTAAAATTCCAAAGGAATATTCGATTATTTTGAACAAACAGGAAATCAAAACCCAG
* *
30372740 CACAATAGGGCACTATTCCCCAAATTTCCAGACATCGGATATTGCC-TTGTTTTAGCGTTTGGA
66 CACAATAGGGCACTATTCCCCAAATTTCCAAACATCGAATATTGCCTTTGTTTTAGCGTTTGGA
* * *
30372803 AAAACACGAGTAAAATTCTAAAGTAATATTCGATTATTTTGAACAAACGGGAAATCAAAACCCAG
1 AAAACACGAGTAAAATTCCAAAGGAATATTCGATTATTTTGAACAAACAGGAAATCAAAACCCAG
* * *
30372868 CACGATAGGGCACTATTCCCCGAATTTCTAAACATCGAATATTGCCTTTGTTTTA
66 CACAATAGGGCACTATTCCCCAAATTTCCAAACATCGAATATTGCCTTTGTTTTA
30372923 ATGAATTTTC
Statistics
Matches: 109, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
128 101 0.93
129 8 0.07
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (129 bp):
AAAACACGAGTAAAATTCCAAAGGAATATTCGATTATTTTGAACAAACAGGAAATCAAAACCCAG
CACAATAGGGCACTATTCCCCAAATTTCCAAACATCGAATATTGCCTTTGTTTTAGCGTTTGGA
Found at i:30375728 original size:176 final size:176
Alignment explanation
Indices: 30375491--30375946 Score: 507
Period size: 176 Copynumber: 2.6 Consensus size: 176
30375481 AGGATTGTGA
* * * * *
30375491 CTTCGATTTGCTCTATTGCAACTTCAGGGAGATAAGATCT-ACAATTTAGCCTATTACCCTACTA
1 CTTCGATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGA-AATTCAGCCTGTTACCCTACTA
* * * *
30375555 CTTAGGAGGTTAAGGCTCAT-C-GTCTTCGATCTGTTCCACT-GTAACTTCAGGGAGACAAGATC
65 CTTAGGGGGTTAAGGCTC-TGCTGTCTTCGATCTGCTCCACTACT-ACTTCAAGGAGACAAGATC
** * * * *
30375617 TATGATCTTTAGCCTGTTACCCTACCACTTAGGGGGTTAAGGCTTGCTTT
128 TACAATCATCAGCCTGTTACCCTACCACTTAGAGGGTTAAGGCCTGC-TT
* **
30375667 CTTTGATCTTTTCCACTGCAACTTCAGGGAGATAAGATCTGAAATTCAGCCTGTTACCCTACTAC
1 CTTCGATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGAAATTCAGCCTGTTACCCTACTAC
* * * * * *
30375732 TTAGGGGGTTAAGGC-CTGCTTTTTTCGATTTGCTCCACTACTATTTTAAGGAGACAAGATCTGC
66 TTAGGGGGTTAAGGCTCTGCTGTCTTCGATCTGCTCCACTACTACTTCAAGGAGACAAGATCTAC
*
30375796 AATCATCAGCCTGTTACCCTACTACTTAGAGGGTTAAGGCCTGCTT
131 AATCATCAGCCTGTTACCCTACCACTTAGAGGGTTAAGGCCTGCTT
** * * *
30375842 CTTCGATCTGCTCCACT--ATTTTTTAGGGAGATAAGATTTGCAATCTTCAGCCTGTTACCCTAC
1 CTTCGATCTGCTCCACTGCA-ACTTCAGGGAGATAAGATCTG-AA-ATTCAGCCTGTTACCCTAC
*
30375905 TACTTAGGGGGTTAAGGCT-TGCT-TCTTCGATTTGCTCCACTA
63 TACTTAGGGGGTTAAGGCTCTGCTGTCTTCGATCTGCTCCACTA
30375947 TTGTTTAGGG
Statistics
Matches: 238, Mismatches: 34, Indels: 17
0.82 0.12 0.06
Matches are distributed among these distances:
173 1 0.00
174 18 0.08
175 38 0.16
176 179 0.75
177 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.34
Consensus pattern (176 bp):
CTTCGATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGAAATTCAGCCTGTTACCCTACTAC
TTAGGGGGTTAAGGCTCTGCTGTCTTCGATCTGCTCCACTACTACTTCAAGGAGACAAGATCTAC
AATCATCAGCCTGTTACCCTACCACTTAGAGGGTTAAGGCCTGCTT
Found at i:30375946 original size:87 final size:87
Alignment explanation
Indices: 30375511--30375968 Score: 480
Period size: 87 Copynumber: 5.2 Consensus size: 87
30375501 CTCTATTGCA
* * * * *
30375511 ACTTCAGGGAGATAAGATCTACAAT-TT-AGCCTATTACCCTACTACTTAGGAGGTTAAGGCTCA
1 ACTTTAGGGAGACAAGATCTGCAATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCT--
* * * *
30375574 T-CGTCTTCGATCTGTTCCACTGT
64 TGCTTCTTCGATTTGCTCCACTAT
* *** * *
30375597 AACTTCAGGGAGACAAGATCTATGATCTTTAGCCTGTTACCCTACCACTTAGGGGGTTAAGGCTT
1 -ACTTTAGGGAGACAAGATCTGCAATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTT
* *
30375662 GCTTTCTTTGATCTT-TTCCACTGCA-
65 GC-TTCTTCGAT-TTGCTCCACT--AT
* * * *
30375687 ACTTCAGGGAGATAAGATCTG-AA-ATTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCCTG
1 ACTTTAGGGAGACAAGATCTGCAATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTG
*
30375750 CTTTTTTCGATTTGCTCCACTACT
66 C-TTCTTCGATTTGCTCCACTA-T
* * * * *
30375774 ATTTTAAGGAGACAAGATCTGCAATCATCAGCCTGTTACCCTACTACTTAGAGGGTTAAGGCCTG
1 ACTTTAGGGAGACAAGATCTGCAATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTG
*
30375839 CTTCTTCGATCTGCTCCACTAT
66 CTTCTTCGATTTGCTCCACTAT
** * *
30375861 TTTTTAGGGAGATAAGATTTGCAATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTG
1 ACTTTAGGGAGACAAGATCTGCAATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTG
30375926 CTTCTTCGATTTGCTCCACTAT
66 CTTCTTCGATTTGCTCCACTAT
**
30375948 TGTTTAGGGAGACAAGATCTG
1 ACTTTAGGGAGACAAGATCTG
30375969 TGAATTCACT
Statistics
Matches: 319, Mismatches: 40, Indels: 24
0.83 0.10 0.06
Matches are distributed among these distances:
85 1 0.00
86 2 0.01
87 189 0.59
88 24 0.08
89 102 0.32
90 1 0.00
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (87 bp):
ACTTTAGGGAGACAAGATCTGCAATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTTG
CTTCTTCGATTTGCTCCACTAT
Found at i:30383938 original size:21 final size:21
Alignment explanation
Indices: 30383909--30383948 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
30383899 TGGGACAATT
30383909 GACTCATCATCT-CTCTTTGG
1 GACTCATCATCTACTCTTTGG
*
30383929 GACTCCATCATTTACTCTTT
1 GACT-CATCATCTACTCTTT
30383949 CATCTCTTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 7 0.41
22 6 0.35
ACGTcount: A:0.17, C:0.30, G:0.10, T:0.42
Consensus pattern (21 bp):
GACTCATCATCTACTCTTTGG
Found at i:30387632 original size:120 final size:124
Alignment explanation
Indices: 30387493--30387798 Score: 368
Period size: 128 Copynumber: 2.5 Consensus size: 124
30387483 AACGAAAACC
* * * *
30387493 CGAAACCCAGCACGGTAGGGCACGATTCATCGAATTTCCAAACATTGAACATTGCC-TC-GC-TT
1 CGAAACCCAGCACGATAGGGCACTATTCCTCGAATTTCCAAACATCGAACATTGCCTTCAGCGTT
* *
30387555 TAG-AAAACACGAGTAAAATTCCAAAGGAATATTCGATTATTTTGAACAAGCGGGAAAT
66 TAGAAAAACACGAGTAAAATTCCAAAGGAATATTCAATTATTTTGAACAAACGGGAAAT
* * * * * *
30387613 TGAAACCTAGCACGATAGGGCATTATTCCTCGAATTTCCAGACATCGGATATTGCCTTGTTTCAG
1 CGAAACCCAGCACGATAGGGCACTATTCCTCGAATTTCCAAACATCGAACATTGCC----TTCAG
* * *
30387678 CGTTTGGAAAAACATGAGTAAAATTCTAAAGGAATATTCAATTATTTTGAACAAACGGGAAAT
62 CGTTTAGAAAAACACGAGTAAAATTCCAAAGGAATATTCAATTATTTTGAACAAACGGGAAAT
* * * * *
30387741 CGAAACCCAGCATGATAGGACACTATTCCCCGAATTTCCAAACATCAAATATTGCCTT
1 CGAAACCCAGCACGATAGGGCACTATTCCTCGAATTTCCAAACATCGAACATTGCCTT
30387799 TGTTTTAATG
Statistics
Matches: 154, Mismatches: 24, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
120 46 0.30
124 2 0.01
125 2 0.01
126 2 0.01
127 4 0.03
128 98 0.64
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.26
Consensus pattern (124 bp):
CGAAACCCAGCACGATAGGGCACTATTCCTCGAATTTCCAAACATCGAACATTGCCTTCAGCGTT
TAGAAAAACACGAGTAAAATTCCAAAGGAATATTCAATTATTTTGAACAAACGGGAAAT
Found at i:30397553 original size:6 final size:6
Alignment explanation
Indices: 30397539--30397584 Score: 65
Period size: 6 Copynumber: 7.5 Consensus size: 6
30397529 TTGAGTCCGA
* *
30397539 TTATCT TTATTT TTATTT TTATTT TTATTT TGTATTT ATATTT TTA
1 TTATTT TTATTT TTATTT TTATTT TTATTT T-TATTT TTATTT TTA
30397585 ACTCTATTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
6 31 0.86
7 5 0.14
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (6 bp):
TTATTT
Found at i:30397565 original size:18 final size:19
Alignment explanation
Indices: 30397539--30397584 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
30397529 TTGAGTCCGA
*
30397539 TTATCTTTATTTT-TATTT
1 TTATTTTTATTTTGTATTT
30397557 TTATTTTTATTTTGTATTT
1 TTATTTTTATTTTGTATTT
*
30397576 ATATTTTTA
1 TTATTTTTA
30397585 ACTCTATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 12 0.48
19 13 0.52
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (19 bp):
TTATTTTTATTTTGTATTT
Found at i:30397592 original size:25 final size:25
Alignment explanation
Indices: 30397546--30397594 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
30397536 CGATTATCTT
* ** *
30397546 TATTTTTATTTTTATTTTTATTTTG
1 TATTTATATTTTTAACTCTATTTTG
30397571 TATTTATATTTTTAACTCTATTTT
1 TATTTATATTTTTAACTCTATTTT
30397595 AATTATTATG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.73
Consensus pattern (25 bp):
TATTTATATTTTTAACTCTATTTTG
Found at i:30412665 original size:116 final size:116
Alignment explanation
Indices: 30412523--30412758 Score: 364
Period size: 116 Copynumber: 2.0 Consensus size: 116
30412513 AATGTGGTAT
** **
30412523 TTGATGAACAATGATTTCTGTCTCTGTTGTTTGCTACGTTGGGGTTTGGTGGTTTGTATGCTATT
1 TTGATGAACAACAATTTCTGTCTCTGTTGTTTGCTACGTCAGGGTTTGGTGGTTTGTATGCTATT
* * * *
30412588 ATAACAACTTGTGTTCCTCTAATTCAAGCAGTTTCTTCTCGATCTACAGAC
66 ATAACAACTTGTGTTACTCCAATTCAAGCAGCTTCTTCTCAATCTACAGAC
30412639 TTGATGAACAACAATTTCTGTCTCTGTTGTTTGCTACGTCAGGGTTTGGTGGTTTGTATGCTATT
1 TTGATGAACAACAATTTCTGTCTCTGTTGTTTGCTACGTCAGGGTTTGGTGGTTTGTATGCTATT
* ** *
30412704 ATACCAACTTGTGTTACTCCGGTTCAAGCAGCTTCTTCTCAATCTACGGAC
66 ATAACAACTTGTGTTACTCCAATTCAAGCAGCTTCTTCTCAATCTACAGAC
30412755 TTGA
1 TTGA
30412759 CACCTGTTAT
Statistics
Matches: 108, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
116 108 1.00
ACGTcount: A:0.20, C:0.19, G:0.21, T:0.41
Consensus pattern (116 bp):
TTGATGAACAACAATTTCTGTCTCTGTTGTTTGCTACGTCAGGGTTTGGTGGTTTGTATGCTATT
ATAACAACTTGTGTTACTCCAATTCAAGCAGCTTCTTCTCAATCTACAGAC
Found at i:30417619 original size:55 final size:54
Alignment explanation
Indices: 30417553--30417662 Score: 175
Period size: 55 Copynumber: 2.0 Consensus size: 54
30417543 ATGAAGAGCA
* *
30417553 GTGCGTGTTTCAGATGTGGTTCTCTTGATCACTTCCTTAGAGACCGCACAGAAC
1 GTGCGTGTTTCACATGTGGTTCTCTTGATCACTTCCTTAGAAACCGCACAGAAC
* *
30417607 GNTGCGTGTTTCACATGTGGTTCTCTTGATCACTTCCTTAGAAACTGCCCAGAAC
1 G-TGCGTGTTTCACATGTGGTTCTCTTGATCACTTCCTTAGAAACCGCACAGAAC
30417662 G
1 G
30417663 AGCTGAAAAT
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
54 1 0.02
55 50 0.98
ACGTcount: A:0.20, C:0.25, G:0.23, T:0.32
Consensus pattern (54 bp):
GTGCGTGTTTCACATGTGGTTCTCTTGATCACTTCCTTAGAAACCGCACAGAAC
Found at i:30423700 original size:59 final size:59
Alignment explanation
Indices: 30423603--30423751 Score: 289
Period size: 59 Copynumber: 2.5 Consensus size: 59
30423593 GTCCACATGG
30423603 TTAGACACACGGGCGTGTGTCTAGGCCGTGTGTCCCCTGTACCTAAAACTTTAAGTCAAA
1 TTAG-CACACGGGCGTGTGTCTAGGCCGTGTGTCCCCTGTACCTAAAACTTTAAGTCAAA
30423663 TTAGCACACGGGCGTGTGTCTAGGCCGTGTGTCCCCTGTACCTAAAACTTTAAGTCAAA
1 TTAGCACACGGGCGTGTGTCTAGGCCGTGTGTCCCCTGTACCTAAAACTTTAAGTCAAA
30423722 TTAGCACACGGGCGTGTGTCTAGGCCGTGT
1 TTAGCACACGGGCGTGTGTCTAGGCCGTGT
30423752 TATTTTAACA
Statistics
Matches: 89, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
59 85 0.96
60 4 0.04
ACGTcount: A:0.22, C:0.25, G:0.26, T:0.27
Consensus pattern (59 bp):
TTAGCACACGGGCGTGTGTCTAGGCCGTGTGTCCCCTGTACCTAAAACTTTAAGTCAAA
Found at i:30426521 original size:13 final size:14
Alignment explanation
Indices: 30426497--30426525 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
30426487 TTGGAAAGTC
30426497 AAAATAAAAATTTG
1 AAAATAAAAATTTG
30426511 AAAAT-AAAATTTG
1 AAAATAAAAATTTG
30426524 AA
1 AA
30426526 GCTTCTCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.66, C:0.00, G:0.07, T:0.28
Consensus pattern (14 bp):
AAAATAAAAATTTG
Found at i:30428817 original size:11 final size:12
Alignment explanation
Indices: 30428793--30428820 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
30428783 ATAAAAACAT
30428793 AAAAATTAGAAA
1 AAAAATTAGAAA
30428805 AAAAATTAGAAA
1 AAAAATTAGAAA
30428817 AAAA
1 AAAA
30428821 GTTATAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.79, C:0.00, G:0.07, T:0.14
Consensus pattern (12 bp):
AAAAATTAGAAA
Found at i:30428855 original size:20 final size:21
Alignment explanation
Indices: 30428805--30428856 Score: 65
Period size: 20 Copynumber: 2.5 Consensus size: 21
30428795 AAATTAGAAA
30428805 AAAAAT-TAGAAAAAAAGTTAT
1 AAAAATGTA-AAAAAAAGTTAT
30428826 -AAAATCGTAAAAAAAA-TTAT
1 AAAAAT-GTAAAAAAAAGTTAT
30428846 AAAAATGTAAA
1 AAAAATGTAAA
30428857 GAAATATAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
20 14 0.50
21 12 0.43
22 2 0.07
ACGTcount: A:0.67, C:0.02, G:0.08, T:0.23
Consensus pattern (21 bp):
AAAAATGTAAAAAAAAGTTAT
Found at i:30428931 original size:11 final size:12
Alignment explanation
Indices: 30428907--30428931 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
30428897 AAAAAAAGAA
30428907 TTTTATAAATTT
1 TTTTATAAATTT
30428919 TTTTATAAATTT
1 TTTTATAAATTT
30428931 T
1 T
30428932 ATTGATTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTTATAAATTT
Found at i:30455640 original size:17 final size:17
Alignment explanation
Indices: 30455596--30455629 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
30455586 TATTTATTTA
* *
30455596 TAAAATAAACATTAAAT
1 TAAATTAAATATTAAAT
30455613 TAAATTAAATATTAAAT
1 TAAATTAAATATTAAAT
30455630 ATATTAAAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (17 bp):
TAAATTAAATATTAAAT
Found at i:30465857 original size:5 final size:5
Alignment explanation
Indices: 30465847--30465871 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
30465837 TAATAATAAA
30465847 AAATT AAATT AAATT AAATT AAATT
1 AAATT AAATT AAATT AAATT AAATT
30465872 GCAAGAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
AAATT
Found at i:30468651 original size:10 final size:10
Alignment explanation
Indices: 30468636--30468679 Score: 52
Period size: 10 Copynumber: 4.1 Consensus size: 10
30468626 GCGATTAATC
30468636 CATACCAAAA
1 CATACCAAAA
30468646 CATACCAAAA
1 CATACCAAAA
*
30468656 CATAAGCCAAAGT
1 CAT-A-CCAAA-A
30468669 CATACCAAAA
1 CATACCAAAA
30468679 C
1 C
30468680 CTAAGATTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
10 14 0.48
11 6 0.21
12 6 0.21
13 3 0.10
ACGTcount: A:0.55, C:0.30, G:0.05, T:0.11
Consensus pattern (10 bp):
CATACCAAAA
Found at i:30469526 original size:42 final size:41
Alignment explanation
Indices: 30469435--30469576 Score: 133
Period size: 42 Copynumber: 3.3 Consensus size: 41
30469425 CCCAGATGTT
* * * * *
30469435 GTCTTACACGTAATCAAATATCAATGCCTCTGTCCCAGACAGG
1 GTCTTACACGAAATCAAATA-CGATGCC-ATATCCCAGACATG
*
30469478 GTCTTACACGAAATCAAATACGATGTCGATATCCCAGACATG
1 GTCTTACACGAAATCAAATACGATG-CCATATCCCAGACATG
* * *
30469520 GTCTTACACGTAAATATCAAAT-CGATGCCAAAGTTCCAGACTTG
1 GTCTTACACG--AA-ATCAAATACGATGCCATA-TCCCAGACATG
30469564 GTCTTACACGAAA
1 GTCTTACACGAAA
30469577 ACACATATTA
Statistics
Matches: 84, Mismatches: 10, Indels: 12
0.79 0.09 0.11
Matches are distributed among these distances:
41 1 0.01
42 27 0.32
43 23 0.27
44 26 0.31
45 7 0.08
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (41 bp):
GTCTTACACGAAATCAAATACGATGCCATATCCCAGACATG
Found at i:30469560 original size:44 final size:42
Alignment explanation
Indices: 30469467--30469576 Score: 125
Period size: 44 Copynumber: 2.6 Consensus size: 42
30469457 AATGCCTCTG
* * *
30469467 TCCCAGACAGGGTCTTACACGAAATCAAATACGATGTCGATA
1 TCCCAGACATGGTCTTACACGAAATCAAATACGATGTCCAAA
30469509 TCCCAGACATGGTCTTACACGTAAATATCAAAT-CGATG-CCAAA
1 TCCCAGACATGGTCTTACACG--AA-ATCAAATACGATGTCCAAA
* *
30469552 GTTCCAGACTTGGTCTTACACGAAA
1 -TCCCAGACATGGTCTTACACGAAA
30469577 ACACATATTA
Statistics
Matches: 59, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
41 1 0.02
42 22 0.37
43 3 0.05
44 26 0.44
45 7 0.12
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.24
Consensus pattern (42 bp):
TCCCAGACATGGTCTTACACGAAATCAAATACGATGTCCAAA
Found at i:30476850 original size:2 final size:2
Alignment explanation
Indices: 30476843--30476876 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
30476833 GATCATGATT
*
30476843 CA CA CA CA CA CA CA CA CA CA CA CG CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
30476877 TATATATATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.50, G:0.03, T:0.00
Consensus pattern (2 bp):
CA
Found at i:30476921 original size:16 final size:18
Alignment explanation
Indices: 30476883--30476926 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 18
30476873 CACATATATA
*
30476883 TATATCATATCTCATTCT
1 TATATCATATCTCATACT
*
30476901 CATATCA-A-CTCATACT
1 TATATCATATCTCATACT
30476917 TATATCATAT
1 TATATCATAT
30476927 GTTCACAAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 4
0.75 0.11 0.14
Matches are distributed among these distances:
16 13 0.62
17 2 0.10
18 6 0.29
ACGTcount: A:0.34, C:0.23, G:0.00, T:0.43
Consensus pattern (18 bp):
TATATCATATCTCATACT
Found at i:30477158 original size:43 final size:41
Alignment explanation
Indices: 30477108--30477206 Score: 119
Period size: 42 Copynumber: 2.3 Consensus size: 41
30477098 TCCCAAACGT
*
30477108 GGTCTTACATATAATCAAATATCGATGCCT-CTGTCCCAGACAG
1 GGTCTTACA-ATAATCAAATAT-GATG-CTGATGTCCCAGACAG
* *
30477151 GGTCTTACAAGAAATCAAATATGATGCTGATGTCCCAGACAT
1 GGTCTTACAA-TAATCAAATATGATGCTGATGTCCCAGACAG
30477193 GGTCTTACACATAA
1 GGTCTTACA-ATAA
30477207 ATCTCAAGTT
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
41 2 0.04
42 27 0.55
43 20 0.41
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.27
Consensus pattern (41 bp):
GGTCTTACAATAATCAAATATGATGCTGATGTCCCAGACAG
Found at i:30477190 original size:42 final size:43
Alignment explanation
Indices: 30477120--30477201 Score: 123
Period size: 42 Copynumber: 1.9 Consensus size: 43
30477110 TCTTACATAT
*
30477120 AATCAAATATCGATGCCTCTGTCCCAGACAGGGTCTTACAAGA
1 AATCAAATATCGATGCCTATGTCCCAGACAGGGTCTTACAAGA
*
30477163 AATCAAATAT-GATG-CTGATGTCCCAGACATGGTCTTACA
1 AATCAAATATCGATGCCT-ATGTCCCAGACAGGGTCTTACA
30477202 CATAAATCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
41 2 0.06
42 24 0.67
43 10 0.28
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (43 bp):
AATCAAATATCGATGCCTATGTCCCAGACAGGGTCTTACAAGA
Found at i:30477209 original size:43 final size:42
Alignment explanation
Indices: 30477097--30477246 Score: 135
Period size: 43 Copynumber: 3.5 Consensus size: 42
30477087 TATTGCCAGC
* * * *
30477097 GTCCCAAACGTGGTCTTACATAT-AATCAAATATCGATGCCTCT
1 GTCCCAGACATGGTCTTACACATAAATCAAATAT-GATG-CTAT
* *
30477140 GTCCCAGACAGGGTCTTACA-AGAAATCAAATATGATGCTGAT
1 GTCCCAGACATGGTCTTACACATAAATCAAATATGATGCT-AT
* *
30477182 GTCCCAGACATGGTCTTACACATAAATCTCAAGT-TGATGCCAAT
1 GTCCCAGACATGGTCTTACACATAAA--TCAAATATGATG-CTAT
* *
30477226 GTCACAGACGTGGTCTTACAC
1 GTCCCAGACATGGTCTTACAC
30477247 GAAAACACAT
Statistics
Matches: 90, Mismatches: 11, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
41 2 0.02
42 25 0.28
43 31 0.34
44 26 0.29
45 6 0.07
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (42 bp):
GTCCCAGACATGGTCTTACACATAAATCAAATATGATGCTAT
Found at i:30489013 original size:12 final size:12
Alignment explanation
Indices: 30488996--30489021 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
30488986 AAAATAGGGC
30488996 TTTAGCGGCGTT
1 TTTAGCGGCGTT
30489008 TTTAGCGGCGTT
1 TTTAGCGGCGTT
30489020 TT
1 TT
30489022 ATCAACAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTAGCGGCGTT
Found at i:30489121 original size:41 final size:40
Alignment explanation
Indices: 30489045--30489135 Score: 110
Period size: 41 Copynumber: 2.2 Consensus size: 40
30489035 GCAAAAATTT
* *
30489045 TAAAATACAGAGCAATAGCGGCGTTTTAAGAAAAACGCCGC
1 TAAAA-ACAGAGCAACAGCGGCGTTTTAACAAAAACGCCGC
* * * *
30489086 TAAAAACAGAGCAACAGCGGCATTTTTTACTAAAACGCCTC
1 TAAAAACAGAGCAACAGCGGC-GTTTTAACAAAAACGCCGC
30489127 TAAAAACAG
1 TAAAAACAG
30489136 TTAGCGGCGC
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
40 15 0.35
41 28 0.65
ACGTcount: A:0.43, C:0.21, G:0.18, T:0.19
Consensus pattern (40 bp):
TAAAAACAGAGCAACAGCGGCGTTTTAACAAAAACGCCGC
Found at i:30489195 original size:41 final size:41
Alignment explanation
Indices: 30489136--30489249 Score: 192
Period size: 41 Copynumber: 2.8 Consensus size: 41
30489126 CTAAAAACAG
** *
30489136 TTAGCGGCGCTTTAGGTAAAACGCCGCTAAAAACCAGATCA
1 TTAGCGGCGCTTCGGGTAAAACGCCGCTAAAAACCAGAGCA
*
30489177 TTAGCGGCGCTTCGGGTAAAATGCCGCTAAAAACCAGAGCA
1 TTAGCGGCGCTTCGGGTAAAACGCCGCTAAAAACCAGAGCA
30489218 TTAGCGGCGCTTCGGGTAAAACGCCGCTAAAA
1 TTAGCGGCGCTTCGGGTAAAACGCCGCTAAAA
30489250 GTCATAGAAC
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 68 1.00
ACGTcount: A:0.32, C:0.25, G:0.25, T:0.18
Consensus pattern (41 bp):
TTAGCGGCGCTTCGGGTAAAACGCCGCTAAAAACCAGAGCA
Found at i:30489423 original size:41 final size:41
Alignment explanation
Indices: 30489366--30489446 Score: 135
Period size: 41 Copynumber: 2.0 Consensus size: 41
30489356 ATATAATCGT
*
30489366 CCAGAGTATTAGCGGCGCCTTCGATAAAACGCCGCTAAAAA
1 CCAGAGCATTAGCGGCGCCTTCGATAAAACGCCGCTAAAAA
* *
30489407 CCAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGCTAAAA
1 CCAGAGCATTAGCGGCGCCTTCGATAAAACGCCGCTAAAA
30489447 GTCATAGAAC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.32, C:0.27, G:0.23, T:0.17
Consensus pattern (41 bp):
CCAGAGCATTAGCGGCGCCTTCGATAAAACGCCGCTAAAAA
Found at i:30489511 original size:197 final size:197
Alignment explanation
Indices: 30489176--30489562 Score: 724
Period size: 197 Copynumber: 2.0 Consensus size: 197
30489166 AAACCAGATC
* *
30489176 ATTAGCGGCGCTTCGGGTAAAATGCCGCTAAAAACCAGAGCATTAGCGGCGCTTCGGGTAAAACG
1 ATTAGCGGCGCTTCGGATAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTCGGGTAAAACG
30489241 CCGCTAAAAGTCATAGAACCCCTAAACCGAACAAAAATCATAAACACTGAGCTTATAACCCCTAA
66 CCGCTAAAAGTCATAGAACCCCTAAACCGAACAAAAATCATAAACACTGAGCTTATAACCCCTAA
30489306 AAAAATAATTATTAAAATTTATGGTTATACAATATATTAAACATTCTCTTATATAATCGTCCAGA
131 AAAAATAATTATTAAAATTTATGGTTATACAATATATTAAACATTCTCTTATATAATCGTCCAGA
30489371 GT
196 GT
30489373 ATTAGCGGCGCCTTC-GATAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTC-GGTAAAA
1 ATTAGCGGCG-CTTCGGATAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGC-TTCGGGTAAAA
30489436 CGCCGCTAAAAGTCATAGAACCCCTAAACCGAACAAAAATCATAAACACTGAGCTTATAACCCCT
64 CGCCGCTAAAAGTCATAGAACCCCTAAACCGAACAAAAATCATAAACACTGAGCTTATAACCCCT
30489501 AAAAAAATAATTATTAAAATTTATGGTTATACAATATATTAAACATTCTCTTATATAATCGT
129 AAAAAAATAATTATTAAAATTTATGGTTATACAATATATTAAACATTCTCTTATATAATCGT
30489563 AAAAGAGATA
Statistics
Matches: 186, Mismatches: 2, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
197 179 0.96
198 7 0.04
ACGTcount: A:0.40, C:0.21, G:0.14, T:0.25
Consensus pattern (197 bp):
ATTAGCGGCGCTTCGGATAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTCGGGTAAAACG
CCGCTAAAAGTCATAGAACCCCTAAACCGAACAAAAATCATAAACACTGAGCTTATAACCCCTAA
AAAAATAATTATTAAAATTTATGGTTATACAATATATTAAACATTCTCTTATATAATCGTCCAGA
GT
Found at i:30489695 original size:36 final size:39
Alignment explanation
Indices: 30489625--30489700 Score: 104
Period size: 36 Copynumber: 2.0 Consensus size: 39
30489615 ATAGTTTAAG
* * *
30489625 ATATATGGTTTAGGGTTTAAGCAGGTTTATGAGTTAACT
1 ATATATGGTTTAAGATTTAAGCAGGTTTAGGAGTTAACT
30489664 ATATATGGTTTAAGATTT-A-C-GGTTTAGGAGTTAACT
1 ATATATGGTTTAAGATTTAAGCAGGTTTAGGAGTTAACT
30489700 A
1 A
30489701 GTAATTGAAG
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
36 16 0.47
37 1 0.03
38 1 0.03
39 16 0.47
ACGTcount: A:0.30, C:0.05, G:0.24, T:0.41
Consensus pattern (39 bp):
ATATATGGTTTAAGATTTAAGCAGGTTTAGGAGTTAACT
Found at i:30493485 original size:21 final size:20
Alignment explanation
Indices: 30493447--30493486 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
30493437 GGTGATTCCA
*
30493447 TTTTGGTTATTTAGATGTTC
1 TTTTGGTTATTTACATGTTC
*
30493467 TTTTGGTCTATTTTCATGTT
1 TTTTGGT-TATTTACATGTT
30493487 TCTATCCAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.12, C:0.07, G:0.17, T:0.62
Consensus pattern (20 bp):
TTTTGGTTATTTACATGTTC
Found at i:30493684 original size:133 final size:133
Alignment explanation
Indices: 30493446--30493830 Score: 761
Period size: 133 Copynumber: 2.9 Consensus size: 133
30493436 TGGTGATTCC
*
30493446 ATTTTGGTTATTTAGATGTTCTTTTGGTCTATTTTCATGTTTCTATCCAACTTATGTGTTTAGTG
1 ATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTG
30493511 TGGACTTAGATTGATTTAAGAGTTTATTGCTGTCTTGTTGCTCACGTTTTATATAATAAAATTGT
66 TGGACTTAGATTGATTTAAGAGTTTATTGCTGTCTTGTTGCTCACGTTTTATATAATAAAATTGT
30493576 TAT
131 TAT
30493579 ATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTG
1 ATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTG
30493644 TGGACTTAGATTGATTTAAGAGTTTATTGCTGTCTTGTTGCTCACGTTTTATATAATAAAATTGT
66 TGGACTTAGATTGATTTAAGAGTTTATTGCTGTCTTGTTGCTCACGTTTTATATAATAAAATTGT
30493709 TAT
131 TAT
30493712 ATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTG
1 ATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTG
30493777 TGGACTTAGATTGATTTAAGAGTTTATTGCTGTCTTGTTGCTCACGTTTTATAT
66 TGGACTTAGATTGATTTAAGAGTTTATTGCTGTCTTGTTGCTCACGTTTTATAT
30493831 TGTTGAATTC
Statistics
Matches: 251, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
133 251 1.00
ACGTcount: A:0.20, C:0.10, G:0.18, T:0.51
Consensus pattern (133 bp):
ATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTG
TGGACTTAGATTGATTTAAGAGTTTATTGCTGTCTTGTTGCTCACGTTTTATATAATAAAATTGT
TAT
Found at i:30495509 original size:160 final size:160
Alignment explanation
Indices: 30495245--30496250 Score: 2003
Period size: 160 Copynumber: 6.3 Consensus size: 160
30495235 TAAGGTACGC
30495245 TTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACTTGACCTTATAGTATTAATTATTT
1 TTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACTTGACCTTATAGTATTAATTATTT
30495310 GAAGTATGAATAAGTATGAATTAATTTTATTACCATATATGTAGCTTGCTTGTCCATTATAATTA
66 GAAGTATGAATAAGTATGAATTAATTTTATTACCATATATGTAGCTTGCTTGTCCATTATAATTA
30495375 CAACAATAGCTGACCTTCTCTCCAACCTTA
131 CAACAATAGCTGACCTTCTCTCCAACCTTA
30495405 TTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACTTGACCTTATAGTATTAATTATTT
1 TTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACTTGACCTTATAGTATTAATTATTT
30495470 GAAGTATGAATAAGTATGAATTAATTTTATTACCATATATGTAGCTTGCTTGTCCATTATAATTA
66 GAAGTATGAATAAGTATGAATTAATTTTATTACCATATATGTAGCTTGCTTGTCCATTATAATTA
30495535 CAACAATAGCTGACCTTCTCTCCAACCTTA
131 CAACAATAGCTGACCTTCTCTCCAACCTTA
30495565 TTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACTTGACCTTATAGTATTAATTATTT
1 TTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACTTGACCTTATAGTATTAATTATTT
30495630 GAAGTATGAATAAGTATGAATTAATTTTATTACCATATATGTAGCTTGCTTGTCCATTATAATTA
66 GAAGTATGAATAAGTATGAATTAATTTTATTACCATATATGTAGCTTGCTTGTCCATTATAATTA
30495695 CAACAATAGCTGACCTTCTCTCCAACCTTA
131 CAACAATAGCTGACCTTCTCTCCAACCTTA
30495725 TTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACTTGACCTTATAGTATTAATTATTT
1 TTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACTTGACCTTATAGTATTAATTATTT
30495790 GAAGTATGAATAAGTATGAATTAATTTTATTACCATATATGTAGCTTGCTTGTCCATTATAATTA
66 GAAGTATGAATAAGTATGAATTAATTTTATTACCATATATGTAGCTTGCTTGTCCATTATAATTA
30495855 CAACAATAGCTGACCTTCTCTCCAACCTTA
131 CAACAATAGCTGACCTTCTCTCCAACCTTA
30495885 TTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACTTGACCTTATAGTATTAATTATTT
1 TTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACTTGACCTTATAGTATTAATTATTT
30495950 GAAGTATGAATAAGTATGAATTAATTTTATTACCATATATGTAGCTTGCTTGTCCATTATAATTA
66 GAAGTATGAATAAGTATGAATTAATTTTATTACCATATATGTAGCTTGCTTGTCCATTATAATTA
30496015 CAACAATAGCTGACCTTCTCTCCAACCTTA
131 CAACAATAGCTGACCTTCTCTCCAACCTTA
30496045 TTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACTTGACCTTATAGTATTAATTATTT
1 TTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACTTGACCTTATAGTATTAATTATTT
30496110 GAAGTATGAATAAGTATGAATTAATTTTATTACCATATATGTAGCTTGCTTGTCCATTATAATTA
66 GAAGTATGAATAAGTATGAATTAATTTTATTACCATATATGTAGCTTGCTTGTCCATTATAATTA
30496175 CAACAATAGCTGACCTTCTCTCCAACCTTA
131 CAACAATAGCTGACCTTCTCTCCAACCTTA
*
30496205 TTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGAC
1 TTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACTTGAC
30496251 GGGTTGCCTT
Statistics
Matches: 845, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
160 845 1.00
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (160 bp):
TTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACTTGACCTTATAGTATTAATTATTT
GAAGTATGAATAAGTATGAATTAATTTTATTACCATATATGTAGCTTGCTTGTCCATTATAATTA
CAACAATAGCTGACCTTCTCTCCAACCTTA
Found at i:30496608 original size:21 final size:21
Alignment explanation
Indices: 30496579--30496618 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
30496569 GTTTTTATAT
*
30496579 TTTGGTTCAACTTAAGTATTA
1 TTTGATTCAACTTAAGTATTA
30496600 TTTGATTCAACTTAAGTAT
1 TTTGATTCAACTTAAGTAT
30496619 GAATTAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.10, G:0.12, T:0.47
Consensus pattern (21 bp):
TTTGATTCAACTTAAGTATTA
Found at i:30497060 original size:460 final size:460
Alignment explanation
Indices: 30496200--30497165 Score: 1914
Period size: 460 Copynumber: 2.1 Consensus size: 460
30496190 TTCTCTCCAA
30496200 CCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATAT
1 CCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATAT
*
30496265 CGAGCTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAA
66 CGAGCTGCAAGATATAATAGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAA
30496330 ATTCAAAAAGAATTGAAAAAAGTTCTATCGCTATTGAATATTTATATAACCTTAATTTATTTCCA
131 ATTCAAAAAGAATTGAAAAAAGTTCTATCGCTATTGAATATTTATATAACCTTAATTTATTTCCA
*
30496395 CTTTACTTATAAAAATTAAACTACGATTCTTTTTTGATATTATTATATTCAAATTACTATTTTGT
196 CTTTACTTATAAAAATTAAACTACGATTCTTTCTTGATATTATTATATTCAAATTACTATTTTGT
30496460 TATATTAAACATGTTTGATTTTAATATTTATTATTTTTAAATGTCTTTAAAATTTATAGCTAATT
261 TATATTAAACATGTTTGATTTTAATATTTATTATTTTTAAATGTCTTTAAAATTTATAGCTAATT
30496525 TTTATCAAAATAGTATTATTAATTATTATTTGAAGTATGAATAAGTTTTTATATTTTGGTTCAAC
326 TTTATCAAAATAGTATTATTAATTATTATTTGAAGTATGAATAAGTTTTTATATTTTGGTTCAAC
30496590 TTAAGTATTATTTGATTCAACTTAAGTATGAATTAATTTTATTACCATATATGTAGCTTGCTTGT
391 TTAAGTATTATTTGATTCAACTTAAGTATGAATTAATTTTATTACCATATATGTAGCTTGCTTGT
30496655 CCATT
456 CCATT
30496660 CCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATAT
1 CCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATAT
30496725 CGAGCTGCAAGATATAATAGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAA
66 CGAGCTGCAAGATATAATAGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAA
30496790 ATTCAAAAAGAATTGAAAAAAGTTCTATCGCTATTGAATATTTATATAACCTTAATTTATTTCCA
131 ATTCAAAAAGAATTGAAAAAAGTTCTATCGCTATTGAATATTTATATAACCTTAATTTATTTCCA
30496855 CTTTACTTATAAAAATTAAACTACGATTCTTTCTTGATATTATTATATTCAAATTACTATTTTGT
196 CTTTACTTATAAAAATTAAACTACGATTCTTTCTTGATATTATTATATTCAAATTACTATTTTGT
30496920 TATATTAAACATGTTTGATTTTAATATTTATTATTTTTAAATGTCTTTAAAATTTATAGCTAATT
261 TATATTAAACATGTTTGATTTTAATATTTATTATTTTTAAATGTCTTTAAAATTTATAGCTAATT
30496985 TTTATCAAAATAGTATTATTAATTATTATTTGAAGTATGAATAAGTTTTTATATTTTGGTTCAAC
326 TTTATCAAAATAGTATTATTAATTATTATTTGAAGTATGAATAAGTTTTTATATTTTGGTTCAAC
30497050 TTAAGTATTATTTGATTCAACTTAAGTATGAATTAATTTTATTACCATATATGTAGCTTGCTTGT
391 TTAAGTATTATTTGATTCAACTTAAGTATGAATTAATTTTATTACCATATATGTAGCTTGCTTGT
30497115 CCATT
456 CCATT
30497120 CCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAAC
1 CCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAAC
30497166 ATATATGTAG
Statistics
Matches: 504, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
460 504 1.00
ACGTcount: A:0.35, C:0.11, G:0.11, T:0.42
Consensus pattern (460 bp):
CCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATAT
CGAGCTGCAAGATATAATAGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAA
ATTCAAAAAGAATTGAAAAAAGTTCTATCGCTATTGAATATTTATATAACCTTAATTTATTTCCA
CTTTACTTATAAAAATTAAACTACGATTCTTTCTTGATATTATTATATTCAAATTACTATTTTGT
TATATTAAACATGTTTGATTTTAATATTTATTATTTTTAAATGTCTTTAAAATTTATAGCTAATT
TTTATCAAAATAGTATTATTAATTATTATTTGAAGTATGAATAAGTTTTTATATTTTGGTTCAAC
TTAAGTATTATTTGATTCAACTTAAGTATGAATTAATTTTATTACCATATATGTAGCTTGCTTGT
CCATT
Found at i:30497068 original size:21 final size:21
Alignment explanation
Indices: 30497039--30497078 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
30497029 GTTTTTATAT
*
30497039 TTTGGTTCAACTTAAGTATTA
1 TTTGATTCAACTTAAGTATTA
30497060 TTTGATTCAACTTAAGTAT
1 TTTGATTCAACTTAAGTAT
30497079 GAATTAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.10, G:0.12, T:0.47
Consensus pattern (21 bp):
TTTGATTCAACTTAAGTATTA
Found at i:30497177 original size:70 final size:70
Alignment explanation
Indices: 30497095--30497235 Score: 273
Period size: 70 Copynumber: 2.0 Consensus size: 70
30497085 ATTTTATTAC
30497095 CATATATGTAGCTTGCTTGTCCATTCCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCT
1 CATATATGTAGCTTGCTTGTCCATTCCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCT
30497160 GGAAA
66 GGAAA
*
30497165 CATATATGTAGCTTGCTTGTCCATTCCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGTT
1 CATATATGTAGCTTGCTTGTCCATTCCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCT
30497230 GGAAA
66 GGAAA
30497235 C
1 C
30497236 CTGACGGGTT
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 70 1.00
ACGTcount: A:0.33, C:0.13, G:0.14, T:0.40
Consensus pattern (70 bp):
CATATATGTAGCTTGCTTGTCCATTCCTTATTTTAAATATTTTAAAGATTCAAAGTATATAGGCT
GGAAA
Found at i:30497992 original size:537 final size:537
Alignment explanation
Indices: 30497350--30498424 Score: 2141
Period size: 537 Copynumber: 2.0 Consensus size: 537
30497340 AGTTCTATCG
30497350 TTATTGAATATTTATATAACCTTAATTTATTTCCACTTTACTTATAAAAATTAAACTACGATTCT
1 TTATTGAATATTTATATAACCTTAATTTATTTCCACTTTACTTATAAAAATTAAACTACGATTCT
*
30497415 TTTTTGATATTATTATATTCAAATTACTATTTTGTTATATTAAACATGTTTGATTTTAATATTTA
66 TTCTTGATATTATTATATTCAAATTACTATTTTGTTATATTAAACATGTTTGATTTTAATATTTA
30497480 TTATTTTTAAATGTCTTTAAAATTTTGTTATATTAATAAGATTTCCAAAAAATTTCTATGGAGCT
131 TTATTTTTAAATGTCTTTAAAATTTTGTTATATTAATAAGATTTCCAAAAAATTTCTATGGAGCT
30497545 TATAAATAATTCTATTGACCTTAAAAAAGAATTAAAAATTTCAACGACTGAATGGCCAATTATAA
196 TATAAATAATTCTATTGACCTTAAAAAAGAATTAAAAATTTCAACGACTGAATGGCCAATTATAA
30497610 ATTTCATTTATCAACATAACATTATTGATCATTGTTTAAATATATTATAACTAATTTTTATCAAA
261 ATTTCATTTATCAACATAACATTATTGATCATTGTTTAAATATATTATAACTAATTTTTATCAAA
30497675 ATAGTATTAATATTGATCATTACTTAAATAAATTACATAACTCACATAACGTACATAACAACTTA
326 ATAGTATTAATATTGATCATTACTTAAATAAATTACATAACTCACATAACGTACATAACAACTTA
30497740 CATAACTTAACTAATACATGTAGTTTAATCTAATAATTTCCTTAAAAGCATATAGTTTAAAAGTT
391 CATAACTTAACTAATACATGTAGTTTAATCTAATAATTTCCTTAAAAGCATATAGTTTAAAAGTT
30497805 CAAATTTCATAACTTACATAATCTACATAACTTACATAAAACATAAATATATATCATATCAAGAC
456 CAAATTTCATAACTTACATAATCTACATAACTTACATAAAACATAAATATATATCATATCAAGAC
30497870 TTACATAATAAACAACT
521 TTACATAATAAACAACT
30497887 TTATTGAATATTTATATAACCTTAATTTATTTCCACTTTACTTATAAAAATTAAACTACGATTCT
1 TTATTGAATATTTATATAACCTTAATTTATTTCCACTTTACTTATAAAAATTAAACTACGATTCT
30497952 TTCTTGATATTATTATATTCAAATTACTATTTTGTTATATTAAACATGTTTGATTTTAATATTTA
66 TTCTTGATATTATTATATTCAAATTACTATTTTGTTATATTAAACATGTTTGATTTTAATATTTA
30498017 TTATTTTTAAATGTCTTTAAAATTTTGTTATATTAATAAGATTTCCAAAAAATTTCTATGGAGCT
131 TTATTTTTAAATGTCTTTAAAATTTTGTTATATTAATAAGATTTCCAAAAAATTTCTATGGAGCT
30498082 TATAAATAATTCTATTGACCTTAAAAAAGAATTAAAAATTTCAACGACTGAATGGCCAATTATAA
196 TATAAATAATTCTATTGACCTTAAAAAAGAATTAAAAATTTCAACGACTGAATGGCCAATTATAA
30498147 ATTTCATTTATCAACATAACATTATTGATCATTGTTTAAATATATTATAACTAATTTTTATCAAA
261 ATTTCATTTATCAACATAACATTATTGATCATTGTTTAAATATATTATAACTAATTTTTATCAAA
30498212 ATAGTATTAATATTGATCATTACTTAAATAAATTACATAACTCACATAACGTACATAACAACTTA
326 ATAGTATTAATATTGATCATTACTTAAATAAATTACATAACTCACATAACGTACATAACAACTTA
30498277 CATAACTTAACTAATACATGTAGTTTAATCTAATAATTTCCTTAAAAGCATATAGTTTAAAAGTT
391 CATAACTTAACTAATACATGTAGTTTAATCTAATAATTTCCTTAAAAGCATATAGTTTAAAAGTT
30498342 CAAATTTCATAACTTACATAATCTACATAACTTACATAAAACATAAATATATATCATATCAAGAC
456 CAAATTTCATAACTTACATAATCTACATAACTTACATAAAACATAAATATATATCATATCAAGAC
30498407 TTACATAATAAACAACT
521 TTACATAATAAACAACT
30498424 T
1 T
30498425 ACCCGTGAAA
Statistics
Matches: 537, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
537 537 1.00
ACGTcount: A:0.41, C:0.12, G:0.05, T:0.41
Consensus pattern (537 bp):
TTATTGAATATTTATATAACCTTAATTTATTTCCACTTTACTTATAAAAATTAAACTACGATTCT
TTCTTGATATTATTATATTCAAATTACTATTTTGTTATATTAAACATGTTTGATTTTAATATTTA
TTATTTTTAAATGTCTTTAAAATTTTGTTATATTAATAAGATTTCCAAAAAATTTCTATGGAGCT
TATAAATAATTCTATTGACCTTAAAAAAGAATTAAAAATTTCAACGACTGAATGGCCAATTATAA
ATTTCATTTATCAACATAACATTATTGATCATTGTTTAAATATATTATAACTAATTTTTATCAAA
ATAGTATTAATATTGATCATTACTTAAATAAATTACATAACTCACATAACGTACATAACAACTTA
CATAACTTAACTAATACATGTAGTTTAATCTAATAATTTCCTTAAAAGCATATAGTTTAAAAGTT
CAAATTTCATAACTTACATAATCTACATAACTTACATAAAACATAAATATATATCATATCAAGAC
TTACATAATAAACAACT
Found at i:30504209 original size:44 final size:43
Alignment explanation
Indices: 30504160--30504363 Score: 194
Period size: 44 Copynumber: 4.7 Consensus size: 43
30504150 CTGGGCAAAT
*
30504160 TAGCGGCGTTTTTTTTAAAAAGCGCCGCTAATGTTCTTGGTCTA
1 TAGCGGCG-TTTTTTTAAAAAGCGCCGCTAAAGTTCTTGGTCTA
*
30504204 TAGCGGCGTTTTTTTACTAAAGCGCCGCTAAAGTTCTTGGTCTA
1 TAGCGGCGTTTTTTTA-AAAAGCGCCGCTAAAGTTCTTGGTCTA
* * * * * *** * *
30504248 TAGCGGCGCTTTTGTAAAAAACGCCGCCAAAG-ACCAAGACTTG
1 TAGCGGCGTTTTTTTAAAAAGCGCCGCTAAAGTTCTTGGTC-TA
* * *
30504291 TAGCGGCGTTTTTTTATAAAAGCGCCGCTAAAGGTCCTGGTCTT
1 TAGCGGCGTTTTTTTA-AAAAGCGCCGCTAAAGTTCTTGGTCTA
* * * *
30504335 TAGCTGCGCTTTTATAAAAAACGCCGCTA
1 TAGCGGCGTTTTTTTAAAAAGCGCCGCTA
30504364 TACACCAAGA
Statistics
Matches: 130, Mismatches: 26, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
42 3 0.02
43 48 0.37
44 75 0.58
45 4 0.03
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.31
Consensus pattern (43 bp):
TAGCGGCGTTTTTTTAAAAAGCGCCGCTAAAGTTCTTGGTCTA
Found at i:30504295 original size:43 final size:43
Alignment explanation
Indices: 30504248--30504451 Score: 225
Period size: 43 Copynumber: 4.7 Consensus size: 43
30504238 TCTTGGTCTA
* *
30504248 TAGCGGCGCTTTTGTAAAAAACGCCGCCAAAGACCAAG-ACTT
1 TAGCGGCGCTTTTATAAAAAACGCCGCTAAAGACCAAGAACTT
* * * * * **
30504290 GTAGCGGCGTTTTTTTATAAAAGCGCCGCTAAAGGTCC-TGGTCTT
1 -TAGCGGCGCTTTTATA-AAAAACGCCGCTAAA-GACCAAGAACTT
* * *
30504335 TAGCTGCGCTTTTATAAAAAACGCCGCTATACACCAAGAACTT
1 TAGCGGCGCTTTTATAAAAAACGCCGCTAAAGACCAAGAACTT
* * *
30504378 TAGCGGCGCTTTTATAAAAAACGTCGCTATAGACCAAGAACAT
1 TAGCGGCGCTTTTATAAAAAACGCCGCTAAAGACCAAGAACTT
30504421 TAGCGGCGCTTTTAT-AAAAACGCCGCTAAAG
1 TAGCGGCGCTTTTATAAAAAACGCCGCTAAAG
30504452 GTCCTGGTCT
Statistics
Matches: 134, Mismatches: 23, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
42 16 0.12
43 85 0.63
44 27 0.20
45 6 0.04
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (43 bp):
TAGCGGCGCTTTTATAAAAAACGCCGCTAAAGACCAAGAACTT
Found at i:30504313 original size:87 final size:87
Alignment explanation
Indices: 30504204--30504390 Score: 261
Period size: 87 Copynumber: 2.1 Consensus size: 87
30504194 TCTTGGTCTA
* * *
30504204 TAGCGGCGTTTTTTTACTAAAGCGCCGCTAAAGTTCTTGGTCTATAGCGGCGCTTTTGTAAAAAA
1 TAGCGGCGTTTTTTTACTAAAGCGCCGCTAAAGGTCCTGGTCTATAGCGGCGCTTTTATAAAAAA
*
30504269 CGCCGCCAAAGACCAAG-ACTT
66 CGCCGCCAAACACCAAGAACTT
* *
30504290 GTAGCGGCGTTTTTTTA-TAAAAGCGCCGCTAAAGGTCCTGGTCTTTAGCTGCGCTTTTATAAAA
1 -TAGCGGCGTTTTTTTACT-AAAGCGCCGCTAAAGGTCCTGGTCTATAGCGGCGCTTTTATAAAA
* *
30504354 AACGCCGCTATACACCAAGAACTT
64 AACGCCGCCAAACACCAAGAACTT
*
30504378 TAGCGGCGCTTTT
1 TAGCGGCGTTTTT
30504391 ATAAAAAACG
Statistics
Matches: 89, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
86 1 0.01
87 84 0.94
88 4 0.04
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (87 bp):
TAGCGGCGTTTTTTTACTAAAGCGCCGCTAAAGGTCCTGGTCTATAGCGGCGCTTTTATAAAAAA
CGCCGCCAAACACCAAGAACTT
Found at i:30507763 original size:42 final size:44
Alignment explanation
Indices: 30507659--30507795 Score: 145
Period size: 42 Copynumber: 3.2 Consensus size: 44
30507649 TGTTATCGTG
** * * *
30507659 TAAGACCACATCTAGGACATTGGCATCGATTTGTGATTTATGTA
1 TAAGACCATGTCTAGGACATTGGCATCGATATATGATTTACGTA
30507703 TAAGACCATGTCTAGGACATTGGCATCG-TATATGATTT-CGTA
1 TAAGACCATGTCTAGGACATTGGCATCGATATATGATTTACGTA
* * * * * * *
30507745 TAAGGCCTTGTCTGGGACAATGGCATCGATATTTGA-TTACATG
1 TAAGACCATGTCTAGGACATTGGCATCGATATATGATTTACGTA
30507788 TAAGACCA
1 TAAGACCA
30507796 CATCTGAGTT
Statistics
Matches: 77, Mismatches: 14, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
42 29 0.38
43 22 0.29
44 26 0.34
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (44 bp):
TAAGACCATGTCTAGGACATTGGCATCGATATATGATTTACGTA
Found at i:30508013 original size:19 final size:20
Alignment explanation
Indices: 30507991--30508029 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
30507981 AATGACAACG
30507991 AATGATATGA-ATG-TATATA
1 AATGA-ATGATATGTTATATA
30508010 AATGAATGATATGTTATATA
1 AATGAATGATATGTTATATA
30508030 TGCTCGTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.22
19 8 0.44
20 6 0.33
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.38
Consensus pattern (20 bp):
AATGAATGATATGTTATATA
Found at i:30508195 original size:18 final size:18
Alignment explanation
Indices: 30508172--30508208 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
30508162 TGAGTTTTCA
30508172 AATTCAAATAACTCGAAT
1 AATTCAAATAACTCGAAT
*
30508190 AATTCAAATAATTCGAAT
1 AATTCAAATAACTCGAAT
30508208 A
1 A
30508209 TCAAATTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.51, C:0.14, G:0.05, T:0.30
Consensus pattern (18 bp):
AATTCAAATAACTCGAAT
Found at i:30520662 original size:25 final size:27
Alignment explanation
Indices: 30520634--30520701 Score: 79
Period size: 25 Copynumber: 2.6 Consensus size: 27
30520624 AAAATTGGTA
30520634 AGACATTTTCCATTCT-TCTCT-A-AGC
1 AGACATTTTCCATTCTCT-TCTAACAGC
**
30520659 AGACATTTTCTGTTCTCTTCTAAGCAGC
1 AGACATTTTCCATTCTCTTCTAA-CAGC
30520687 AGACATTTTCCATTC
1 AGACATTTTCCATTC
30520702 CTCAAAGCTT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
25 17 0.49
26 2 0.06
28 16 0.46
ACGTcount: A:0.24, C:0.26, G:0.10, T:0.40
Consensus pattern (27 bp):
AGACATTTTCCATTCTCTTCTAACAGC
Found at i:30523111 original size:15 final size:16
Alignment explanation
Indices: 30523086--30523118 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
30523076 ATTTTTGAAC
30523086 TTTCAATGCTTTCATT
1 TTTCAATGCTTTCATT
30523102 TTTC-ATGCTTTCATT
1 TTTCAATGCTTTCATT
30523117 TT
1 TT
30523119 AAGTGGTACT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.15, C:0.18, G:0.06, T:0.61
Consensus pattern (16 bp):
TTTCAATGCTTTCATT
Found at i:30524697 original size:35 final size:36
Alignment explanation
Indices: 30524649--30524717 Score: 131
Period size: 35 Copynumber: 1.9 Consensus size: 36
30524639 ATTTGTTAGA
30524649 TATTGATTATGTTTTAAGCTTGTTGGATATTGAATT
1 TATTGATTATGTTTTAAGCTTGTTGGATATTGAATT
30524685 TATT-ATTATGTTTTAAGCTTGTTGGATATTGAA
1 TATTGATTATGTTTTAAGCTTGTTGGATATTGAA
30524718 ATGGTTGAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 29 0.88
36 4 0.12
ACGTcount: A:0.26, C:0.03, G:0.19, T:0.52
Consensus pattern (36 bp):
TATTGATTATGTTTTAAGCTTGTTGGATATTGAATT
Found at i:30525747 original size:33 final size:33
Alignment explanation
Indices: 30525705--30525819 Score: 108
Period size: 33 Copynumber: 3.3 Consensus size: 33
30525695 ATGTTCTTAC
30525705 TATGTGGTGTACCATTAATTATGTATTTGGATA
1 TATGTGGTGTACCATTAATTATGTATTTGGATA
** * * *
30525738 TATGTGGTGTAATATT-ATGCACTAGACAATGTT-GTTA
1 TATGTGGTGTACCATTAAT-TA-T-G--TAT-TTGGATA
30525775 CTATGTGGTGTACCATTAATTATGTATTTGGATA
1 -TATGTGGTGTACCATTAATTATGTATTTGGATA
30525809 TATGTGGTGTA
1 TATGTGGTGTA
30525820 ATATTATGCA
Statistics
Matches: 63, Mismatches: 10, Indels: 18
0.69 0.11 0.20
Matches are distributed among these distances:
32 2 0.03
33 28 0.44
34 6 0.10
35 1 0.02
36 1 0.02
37 6 0.10
38 17 0.27
39 2 0.03
ACGTcount: A:0.27, C:0.07, G:0.23, T:0.43
Consensus pattern (33 bp):
TATGTGGTGTACCATTAATTATGTATTTGGATA
Found at i:30525785 original size:71 final size:71
Alignment explanation
Indices: 30525666--30525875 Score: 393
Period size: 71 Copynumber: 2.9 Consensus size: 71
30525656 TTGATACATT
* *
30525666 TATGTGGTGTAATATTATGCACTTGGACAATGTTCTTACTATGTGGTGTACCATTAATTATGTAT
1 TATGTGGTGTAATATTATGCAC-TAGACAATGTTGTTACTATGTGGTGTACCATTAATTATGTAT
30525731 TTGGATA
65 TTGGATA
30525738 TATGTGGTGTAATATTATGCACTAGACAATGTTGTTACTATGTGGTGTACCATTAATTATGTATT
1 TATGTGGTGTAATATTATGCACTAGACAATGTTGTTACTATGTGGTGTACCATTAATTATGTATT
30525803 TGGATA
66 TGGATA
30525809 TATGTGGTGTAATATTATGCACTAGACAATGTTGTTACTATGTGGTGTACCATTAATTATGTATT
1 TATGTGGTGTAATATTATGCACTAGACAATGTTGTTACTATGTGGTGTACCATTAATTATGTATT
30525874 TG
66 TG
30525876 AATAATATTA
Statistics
Matches: 136, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
71 114 0.84
72 22 0.16
ACGTcount: A:0.27, C:0.09, G:0.21, T:0.43
Consensus pattern (71 bp):
TATGTGGTGTAATATTATGCACTAGACAATGTTGTTACTATGTGGTGTACCATTAATTATGTATT
TGGATA
Found at i:30526089 original size:14 final size:14
Alignment explanation
Indices: 30526070--30526097 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
30526060 ACAATTTATT
30526070 AATATATATTAATA
1 AATATATATTAATA
30526084 AATATATATTAATA
1 AATATATATTAATA
30526098 TATGTAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
AATATATATTAATA
Found at i:30526202 original size:14 final size:15
Alignment explanation
Indices: 30526180--30526256 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
30526170 TTACCAAACA
30526180 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
30526194 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
30526209 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
30526229 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
30526243 ACGGAAAA-CATTTT
1 CCAGAAAATCATTTT
30526257 ACTGTCAAAC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 22 0.44
15 14 0.28
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:30526221 original size:20 final size:20
Alignment explanation
Indices: 30526196--30526235 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
30526186 AATATTTTCC
*
30526196 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
30526216 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
30526236 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:30526241 original size:34 final size:35
Alignment explanation
Indices: 30526184--30526250 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
30526174 CAAACACCAG
*
30526184 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
30526219 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
30526251 CATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:30526257 original size:14 final size:14
Alignment explanation
Indices: 30526219--30526258 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
30526209 ACAGAAAAGT
*
30526219 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
30526233 AAATCATTTTACGG
1 AAAACATTTTACAG
30526247 AAAACATTTTAC
1 AAAACATTTTAC
30526259 TGTCAAACAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:30543072 original size:22 final size:22
Alignment explanation
Indices: 30543032--30543086 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
30543022 ACTTATCAAA
30543032 TATTATCC-T-AAAATACTACC
1 TATTATCCTTAAAAATACTACC
*
30543052 TATTGATCCTTAAAAAT-CTACT
1 TATT-ATCCTTAAAAATACTACC
*
30543074 TATTATTCTTAAA
1 TATTATCCTTAAA
30543087 TAAACAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
20 4 0.13
21 12 0.40
22 9 0.30
23 5 0.17
ACGTcount: A:0.38, C:0.18, G:0.02, T:0.42
Consensus pattern (22 bp):
TATTATCCTTAAAAATACTACC
Found at i:30547824 original size:5 final size:6
Alignment explanation
Indices: 30547790--30547823 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
30547780 AAATTTTGGG
30547790 AAAAAT AAAAAT AAAAAT AGAAAAT -AAAAT AAAA
1 AAAAAT AAAAAT AAAAAT A-AAAAT AAAAAT AAAA
30547824 TCTATTTTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 5 0.19
6 16 0.62
7 5 0.19
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:30548308 original size:9 final size:9
Alignment explanation
Indices: 30548289--30548367 Score: 56
Period size: 9 Copynumber: 8.6 Consensus size: 9
30548279 AAATGAAGTT
30548289 TTTTAAT-A
1 TTTTAATAA
30548297 TTTTAATAA
1 TTTTAATAA
30548306 TTTTAATAA
1 TTTTAATAA
*
30548315 TTTATTATAA
1 TTT-TAATAA
30548325 GTTTT-ATAA
1 -TTTTAATAA
*
30548334 GTTTTTATGAA
1 -TTTTAAT-AA
*
30548345 TTTT-ATATT
1 TTTTAATA-A
*
30548354 TTTTTATAA
1 TTTTAATAA
30548363 TTTTA
1 TTTTA
30548368 TTGTTGTTGT
Statistics
Matches: 60, Mismatches: 4, Indels: 13
0.78 0.05 0.17
Matches are distributed among these distances:
8 8 0.13
9 32 0.53
10 15 0.25
11 5 0.08
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (9 bp):
TTTTAATAA
Found at i:30548324 original size:19 final size:18
Alignment explanation
Indices: 30548289--30548367 Score: 74
Period size: 19 Copynumber: 4.3 Consensus size: 18
30548279 AAATGAAGTT
*
30548289 TTTTAAT-ATTTTAATAA
1 TTTTAATAATTTTTATAA
30548306 TTTTAATAATTTATTATAA
1 TTTTAATAATTT-TTATAA
30548325 GTTTT-ATAAGTTTTTATGAA
1 -TTTTAATAA-TTTTTAT-AA
*
30548345 TTTT-ATATTTTTTTATAA
1 TTTTAATA-ATTTTTATAA
30548363 TTTTA
1 TTTTA
30548368 TTGTTGTTGT
Statistics
Matches: 53, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
17 7 0.13
18 10 0.19
19 27 0.51
20 9 0.17
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (18 bp):
TTTTAATAATTTTTATAA
Found at i:30548445 original size:39 final size:39
Alignment explanation
Indices: 30548300--30548458 Score: 128
Period size: 39 Copynumber: 4.1 Consensus size: 39
30548290 TTTAATATTT
* *
30548300 TAATAATTTTAATAATTTATTATAAGTTTTATAAGTTTTTA
1 TAAT-ATTTTATTAATTTTTTAT-AGTTTTATAAGTTTTTA
* * * * * *
30548341 TGA-ATTTTA-TATTTTTTTATAATTTTAT-TGTTGTTG
1 TAATATTTTATTAATTTTTTATAGTTTTATAAGTTTTTA
* * * * *
30548377 TAATTTTTTTTGTAATTTATTATATTTTTATGAGTTTTTA
1 TAATATTTTAT-TAATTTTTTATAGTTTTATAAGTTTTTA
*
30548417 TAATATTTTATTAATATTTTTA-AGTTTTATAAGTTTATA
1 TAATATTTTATTAAT-TTTTTATAGTTTTATAAGTTTTTA
30548456 TAA
1 TAA
30548459 AATTGAAAAT
Statistics
Matches: 91, Mismatches: 22, Indels: 12
0.73 0.18 0.10
Matches are distributed among these distances:
36 7 0.08
37 11 0.12
38 9 0.10
39 43 0.47
40 19 0.21
41 2 0.02
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (39 bp):
TAATATTTTATTAATTTTTTATAGTTTTATAAGTTTTTA
Found at i:30548646 original size:15 final size:16
Alignment explanation
Indices: 30548626--30548658 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
30548616 ATATTTAATT
30548626 ATTCAAATATT-GATA
1 ATTCAAATATTGGATA
*
30548641 ATTCAATTATTGGATA
1 ATTCAAATATTGGATA
30548657 AT
1 AT
30548659 AAAGATAGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.42, C:0.06, G:0.09, T:0.42
Consensus pattern (16 bp):
ATTCAAATATTGGATA
Found at i:30554879 original size:38 final size:38
Alignment explanation
Indices: 30554825--30555199 Score: 252
Period size: 38 Copynumber: 8.9 Consensus size: 38
30554815 TGGAAAAACA
*
30554825 TGGTGCTAAGTGGATATGCCACGGTTATACATGTAACG
1 TGGTGCTAAGTGGATATGCCACGATTATACATGTAACG
* * *
30554863 TGGTGCTAAGTAGATATACCACGATTACACATATTGATACATGTAACA
1 TGGTGCTAAGTGGATATGCCACG---------ATT-ATACATGTAACG
30554911 TGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCAT-TAACG
1 TGGTGCTAAGTGGATATGCCAC-G----AT-TA-T-A--CATGTAACG
* * *
30554958 TGGTGCTAGGTGGATATACCACGATTAAACATGTAACG
1 TGGTGCTAAGTGGATATGCCACGATTATACATGTAACG
30554996 TGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCAT-TAACG
1 TGGTGCTAAGTGGATATGCCAC-G----AT-TA-T-A--CATGTAACG
* * *
30555043 TGGTGCTAGGTGGATATACCACGATTAAACATGTAACG
1 TGGTGCTAAGTGGATATGCCACGATTATACATGTAACG
30555081 TGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCAT-TAACG
1 TGGTGCTAAGTGGATATGCCAC-G----AT-TA-T-A--CATGTAACG
* * *
30555128 TGGTGCTAGGTGGATATACCACGATTAAACATGTAACG
1 TGGTGCTAAGTGGATATGCCACGATTATACATGTAACG
30555166 TGGTGCTAAGTGGATATGCCACGATTATACATGT
1 TGGTGCTAAGTGGATATGCCACGATTATACATGT
30555200 TAATTTGAAA
Statistics
Matches: 270, Mismatches: 28, Indels: 78
0.72 0.07 0.21
Matches are distributed among these distances:
37 9 0.03
38 107 0.40
39 5 0.02
41 6 0.02
42 6 0.02
43 4 0.01
44 8 0.03
45 2 0.01
46 6 0.02
47 76 0.28
48 40 0.15
49 1 0.00
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.30
Consensus pattern (38 bp):
TGGTGCTAAGTGGATATGCCACGATTATACATGTAACG
Found at i:30554980 original size:47 final size:47
Alignment explanation
Indices: 30554858--30555154 Score: 324
Period size: 47 Copynumber: 6.7 Consensus size: 47
30554848 GTTATACATG
* * *
30554858 TAACGTGGTGCTAAGTAGATATACCACGATTACACATATTGATACAT
1 TAACGTGGTGCTAAGTGGATATACCACGATTACATATATTGATTCAT
* * *
30554905 GTAACATGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCAT
1 -TAACGTGGTGCTAAGTGGATATACCACGATTACATATATTGATTCAT
* *
30554953 TAACGTGGTGCTAGGTGGATATACCACGATTA-A-ACA-TG------
1 TAACGTGGTGCTAAGTGGATATACCACGATTACATATATTGATTCAT
* *
30554991 TAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCAT
1 TAACGTGGTGCTAAGTGGATATACCACGATTACATATATTGATTCAT
* *
30555038 TAACGTGGTGCTAGGTGGATATACCACGATTA-A-ACA-TG------
1 TAACGTGGTGCTAAGTGGATATACCACGATTACATATATTGATTCAT
* *
30555076 TAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCAT
1 TAACGTGGTGCTAAGTGGATATACCACGATTACATATATTGATTCAT
*
30555123 TAACGTGGTGCTAGGTGGATATACCACGATTA
1 TAACGTGGTGCTAAGTGGATATACCACGATTA
30555155 AACATGTAAC
Statistics
Matches: 205, Mismatches: 26, Indels: 37
0.76 0.10 0.14
Matches are distributed among these distances:
38 58 0.28
39 2 0.01
40 4 0.02
41 4 0.02
44 4 0.02
45 4 0.02
46 2 0.01
47 86 0.42
48 41 0.20
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (47 bp):
TAACGTGGTGCTAAGTGGATATACCACGATTACATATATTGATTCAT
Found at i:30555017 original size:85 final size:85
Alignment explanation
Indices: 30554901--30555188 Score: 567
Period size: 85 Copynumber: 3.4 Consensus size: 85
30554891 ACATATTGAT
*
30554901 ACATGTAACATGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
30554966 GGTGGATATACCACGATTAA
66 GGTGGATATACCACGATTAA
30554986 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
30555051 GGTGGATATACCACGATTAA
66 GGTGGATATACCACGATTAA
30555071 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
30555136 GGTGGATATACCACGATTAA
66 GGTGGATATACCACGATTAA
30555156 ACATGTAACGTGGTGCTAAGTGGATATGCCACG
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACG
30555189 ATTATACATG
Statistics
Matches: 202, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 202 1.00
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.30
Consensus pattern (85 bp):
ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
GGTGGATATACCACGATTAA
Found at i:30558477 original size:15 final size:15
Alignment explanation
Indices: 30558437--30558477 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
30558427 CTGTAAATGA
30558437 GATTTCCTTATCATG
1 GATTTCCTTATCATG
** *
30558452 GATTTTTTTATCTTG
1 GATTTCCTTATCATG
30558467 GATTTCCTTAT
1 GATTTCCTTAT
30558478 TCTGTGCTTC
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.17, C:0.15, G:0.12, T:0.56
Consensus pattern (15 bp):
GATTTCCTTATCATG
Found at i:30560590 original size:69 final size:69
Alignment explanation
Indices: 30560323--30560603 Score: 278
Period size: 69 Copynumber: 4.1 Consensus size: 69
30560313 GATTATTAAG
* * * * * **
30560323 AATATGACAGCTGGGAGCTTTGTTCTCACTAACAGTTTTGGAGGTTGCTGCTCTTCGCCTATGAA
1 AATATGACAGCTGGGAGCTTTGCTCTCACTAACTGTTTTGGAGGTTACGGCTCTTCGCTTGCGAA
*
30560388 CTTT
66 CCTT
* * * * ** *
30560392 AATATGATAGCTGGGAGCTTTGCTCTCAGTAAGTATTTTGGAGGTTACGGCTCTTTACCTGCGAA
1 AATATGACAGCTGGGAGCTTTGCTCTCACTAACTGTTTTGGAGGTTACGGCTCTTCGCTTGCGAA
30560457 CCTT
66 CCTT
* * * * *
30560461 AATATGACA-TTTGGAGCATTTGCTCTTC-CTAACTGTTTTGGAGGTTATGGCTCTTTGCTTGCA
1 AATATGACAGCTGGGAGC-TTTGCTC-TCACTAACTGTTTTGGAGGTTACGGCTCTTCGCTTGCG
30560524 AACCTT
64 AACCTT
* * * * * * *
30560530 AATATGACAGCTAGAAGCTGTGCTCTCAGTAATTGTTTTAGAGGTTGCGGCTCTTCGCTTGCGAA
1 AATATGACAGCTGGGAGCTTTGCTCTCACTAACTGTTTTGGAGGTTACGGCTCTTCGCTTGCGAA
*
30560595 CATT
66 CCTT
30560599 AATAT
1 AATAT
30560604 CATGTGAACG
Statistics
Matches: 173, Mismatches: 35, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
68 8 0.05
69 158 0.91
70 7 0.04
ACGTcount: A:0.22, C:0.19, G:0.23, T:0.36
Consensus pattern (69 bp):
AATATGACAGCTGGGAGCTTTGCTCTCACTAACTGTTTTGGAGGTTACGGCTCTTCGCTTGCGAA
CCTT
Found at i:30566450 original size:41 final size:41
Alignment explanation
Indices: 30566405--30566535 Score: 163
Period size: 41 Copynumber: 3.2 Consensus size: 41
30566395 TGCTTAAACA
* * *
30566405 AGCTGTGGGTTGGGACATTAGCTAACGATGTTGCTCACACG
1 AGCTGTGGGTCGGGACATTAGCTAACAATGCTGCTCACACG
* * *
30566446 AGCTGTGGGTGGGGATATTAACTAACAATGCTGCTCACACG
1 AGCTGTGGGTCGGGACATTAGCTAACAATGCTGCTCACACG
* * * * *
30566487 AGCTGTGGGTCAGGACGTTAGCTAACAATGCTACTCAAACA
1 AGCTGTGGGTCGGGACATTAGCTAACAATGCTGCTCACACG
30566528 AGCTGTGG
1 AGCTGTGG
30566536 AGAATTCACA
Statistics
Matches: 77, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 77 1.00
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (41 bp):
AGCTGTGGGTCGGGACATTAGCTAACAATGCTGCTCACACG
Found at i:30567744 original size:144 final size:144
Alignment explanation
Indices: 30567483--30567773 Score: 528
Period size: 144 Copynumber: 2.0 Consensus size: 144
30567473 CATGAGGAAT
30567483 GAATCGAGAAGGAAAGGTTTGAAAATATACCTTTTGAAATCTAAAAAATATGAAAGAACCATTGC
1 GAATCGAGAAGGAAAGGTTTGAAAATATACCTTTTGAAATCTAAAAAATATGAAAGAACCATTGC
* * *
30567548 TGGCTTAATCCCCTTCGCACACTGCCGATCCAAAGCTGCAACAGAATCGTCCTAGCCTCTACGTA
66 TAGCTTAATCCCCTTCGCACAATACCGATCCAAAGCTGCAACAGAATCGTCCTAGCCTCTACGTA
30567613 GTCCGCCCAGTTGC
131 GTCCGCCCAGTTGC
30567627 GAATCGAGAAGGAAAGGTTTGAAAATATACCTTTTGAAATCTAAAAAATATGAAAGAACCATTGC
1 GAATCGAGAAGGAAAGGTTTGAAAATATACCTTTTGAAATCTAAAAAATATGAAAGAACCATTGC
* * *
30567692 TAGCTTAATCCCCTTCGTACAATACCGATCCAAAGCTGCATCAGAATTGTCCTAGCCTCTACGTA
66 TAGCTTAATCCCCTTCGCACAATACCGATCCAAAGCTGCAACAGAATCGTCCTAGCCTCTACGTA
30567757 GTCCGCCCAGTTGC
131 GTCCGCCCAGTTGC
30567771 GAA
1 GAA
30567774 CGAATGAACA
Statistics
Matches: 141, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
144 141 1.00
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (144 bp):
GAATCGAGAAGGAAAGGTTTGAAAATATACCTTTTGAAATCTAAAAAATATGAAAGAACCATTGC
TAGCTTAATCCCCTTCGCACAATACCGATCCAAAGCTGCAACAGAATCGTCCTAGCCTCTACGTA
GTCCGCCCAGTTGC
Found at i:30573152 original size:12 final size:12
Alignment explanation
Indices: 30573135--30573160 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
30573125 GAATGGGAAT
30573135 ATGTGATTTTGA
1 ATGTGATTTTGA
30573147 ATGTGATTTTGA
1 ATGTGATTTTGA
30573159 AT
1 AT
30573161 ATATATGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (12 bp):
ATGTGATTTTGA
Found at i:30577491 original size:59 final size:57
Alignment explanation
Indices: 30577399--30577510 Score: 188
Period size: 59 Copynumber: 1.9 Consensus size: 57
30577389 TTTTATTATA
* *
30577399 TATAAATATATAATATATGCATGCTTTGATTGGTTTAGTGCATGTTGTAGTTTTGTATG
1 TATAAATATATAATATATACATGCTTTGATTGGTTTAATGCATG-T-TAGTTTTGTATG
30577458 TATAAATATATAATATATACATGCTTTGATTGGTTTAATGCATGTTAGTTTTG
1 TATAAATATATAATATATACATGCTTTGATTGGTTTAATGCATGTTAGTTTTG
30577511 GAAAATTATA
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
57 8 0.16
58 1 0.02
59 42 0.82
ACGTcount: A:0.29, C:0.05, G:0.18, T:0.47
Consensus pattern (57 bp):
TATAAATATATAATATATACATGCTTTGATTGGTTTAATGCATGTTAGTTTTGTATG
Found at i:30577876 original size:17 final size:17
Alignment explanation
Indices: 30577850--30577894 Score: 81
Period size: 17 Copynumber: 2.6 Consensus size: 17
30577840 GTCTAAAGAT
*
30577850 TAATTCATTGTTTGACA
1 TAATTTATTGTTTGACA
30577867 TAATTTATTGTTTGACA
1 TAATTTATTGTTTGACA
30577884 TAATTTATTGT
1 TAATTTATTGT
30577895 CAATGTTTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.29, C:0.07, G:0.11, T:0.53
Consensus pattern (17 bp):
TAATTTATTGTTTGACA
Found at i:30582216 original size:33 final size:35
Alignment explanation
Indices: 30582152--30582216 Score: 80
Period size: 33 Copynumber: 1.9 Consensus size: 35
30582142 AATTGTAATT
* *
30582152 TATTTATCTAATTACTTTTTATTTAAGTAAATAGA
1 TATTTATCTAATTACTTATTATTAAAGTAAATAGA
* *
30582187 TATTTAT-TATTTA-TTATTATTAAATTAAAT
1 TATTTATCTAATTACTTATTATTAAAGTAAAT
30582217 TAAACACAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
33 14 0.54
34 5 0.19
35 7 0.27
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.55
Consensus pattern (35 bp):
TATTTATCTAATTACTTATTATTAAAGTAAATAGA
Found at i:30582465 original size:23 final size:23
Alignment explanation
Indices: 30582439--30582483 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
30582429 TGTATATGTG
30582439 TAGTTAATTGTATA-ATAGATATT
1 TAGTTAATT-TATATATAGATATT
*
30582462 TAGTTAATTTATATATATATAT
1 TAGTTAATTTATATATAGATAT
30582484 ATAAGTGAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (23 bp):
TAGTTAATTTATATATAGATATT
Found at i:30584047 original size:18 final size:19
Alignment explanation
Indices: 30584024--30584068 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
30584014 TTACTGAATC
* *
30584024 ATATTGATAA-ATTGATTG
1 ATATTGAAAATATTGACTG
30584042 ATATTGAAAAATATTGACTG
1 ATATTG-AAAATATTGACTG
30584062 ATATTGA
1 ATATTGA
30584069 GCTTGGAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 6 0.26
19 4 0.17
20 13 0.57
ACGTcount: A:0.42, C:0.02, G:0.16, T:0.40
Consensus pattern (19 bp):
ATATTGAAAATATTGACTG
Found at i:30590622 original size:40 final size:39
Alignment explanation
Indices: 30590575--30590654 Score: 106
Period size: 40 Copynumber: 2.0 Consensus size: 39
30590565 GCTTGTAAAG
* *
30590575 ATGGTAGATAAAAGCAAAAAAAAGAGAATGTCTAGGGAA
1 ATGGTAGACAAAAGCAAAAAAAAGAGAATGTCGAGGGAA
** *
30590614 NATGGTAGACAAAAGCAAGGAAATGAGAATGTCGAGGGAA
1 -ATGGTAGACAAAAGCAAAAAAAAGAGAATGTCGAGGGAA
30590654 A
1 A
30590655 GACCAAAGAC
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
39 1 0.03
40 34 0.97
ACGTcount: A:0.50, C:0.06, G:0.29, T:0.14
Consensus pattern (39 bp):
ATGGTAGACAAAAGCAAAAAAAAGAGAATGTCGAGGGAA
Found at i:30592699 original size:28 final size:28
Alignment explanation
Indices: 30592659--30592715 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
30592649 TTGCTCCACC
30592659 CAAAGTAAAAACATTCCTACTTGTAAAG
1 CAAAGTAAAAACATTCCTACTTGTAAAG
30592687 CAAAGTAAAAACATTCCTACTTGTAAAG
1 CAAAGTAAAAACATTCCTACTTGTAAAG
30592715 C
1 C
30592716 TAACTTTATC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.46, C:0.19, G:0.11, T:0.25
Consensus pattern (28 bp):
CAAAGTAAAAACATTCCTACTTGTAAAG
Found at i:30597465 original size:8 final size:8
Alignment explanation
Indices: 30597452--30597481 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
30597442 GAAGCCTGTA
30597452 ACATATGC
1 ACATATGC
*
30597460 ACATATGT
1 ACATATGC
30597468 ACATATGC
1 ACATATGC
30597476 ACATAT
1 ACATAT
30597482 AACATCTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (8 bp):
ACATATGC
Found at i:30599405 original size:29 final size:29
Alignment explanation
Indices: 30599363--30599418 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
30599353 ACATATTTAG
30599363 GTTTATCTACTAATATAAGTTATCTTTTC
1 GTTTATCTACTAATATAAGTTATCTTTTC
30599392 GTTTATCTACTAATATAAGTTATCTTT
1 GTTTATCTACTAATATAAGTTATCTTT
30599419 CCGTATTACG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.29, C:0.12, G:0.07, T:0.52
Consensus pattern (29 bp):
GTTTATCTACTAATATAAGTTATCTTTTC
Found at i:30600569 original size:19 final size:19
Alignment explanation
Indices: 30600545--30600584 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
30600535 CGTGGTGTGC
*
30600545 TTAGTTTTCTTGTGGCTTT
1 TTAGTTTACTTGTGGCTTT
* *
30600564 TTAGTTTACTTTTTGCTTT
1 TTAGTTTACTTGTGGCTTT
30600583 TT
1 TT
30600585 CGCCTTTCAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.07, C:0.10, G:0.15, T:0.68
Consensus pattern (19 bp):
TTAGTTTACTTGTGGCTTT
Found at i:30600985 original size:28 final size:28
Alignment explanation
Indices: 30600928--30600985 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 28
30600918 TCATAACTCC
* * *
30600928 TATCATAAAAAATGAAAAAGAATTAAAA
1 TATCATAAAAAATAAAAAAAAAGTAAAA
* *
30600956 TATCATTAAAAATAAAAAAAAAGTATAA
1 TATCATAAAAAATAAAAAAAAAGTAAAA
30600984 TA
1 TA
30600986 AGAATTAAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.67, C:0.03, G:0.05, T:0.24
Consensus pattern (28 bp):
TATCATAAAAAATAAAAAAAAAGTAAAA
Found at i:30601342 original size:14 final size:14
Alignment explanation
Indices: 30601323--30601352 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
30601313 ATACTTAAGT
30601323 TATAATTTTGTAAC
1 TATAATTTTGTAAC
30601337 TATAATTTTGTAAC
1 TATAATTTTGTAAC
30601351 TA
1 TA
30601353 ATGTTAGTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.50
Consensus pattern (14 bp):
TATAATTTTGTAAC
Found at i:30601470 original size:19 final size:19
Alignment explanation
Indices: 30601433--30601473 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
30601423 TTAAAATCTA
*
30601433 ATTAAATAAAAATATTAAT
1 ATTAAATAAAAATAATAAT
30601452 ATTAAATAAAACA-AATAAT
1 ATTAAATAAAA-ATAATAAT
30601471 ATT
1 ATT
30601474 TTCCTCCCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 19 0.95
20 1 0.05
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (19 bp):
ATTAAATAAAAATAATAAT
Found at i:30602946 original size:19 final size:18
Alignment explanation
Indices: 30602907--30602975 Score: 61
Period size: 18 Copynumber: 3.8 Consensus size: 18
30602897 TTTAATATTT
*
30602907 TTTTATA-ATTTTTGAGTA
1 TTTTATATATTTTTGA-AA
*
30602925 TTTTATATATTTTTATAAA
1 TTTTATATATTTTT-GAAA
*
30602944 TTTTA-ATACTTTTTGAAT
1 TTTTATATA-TTTTTGAAA
*
30602962 TTTTATGTATTTTT
1 TTTTATATATTTTT
30602976 TCATTTTTAT
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
18 22 0.52
19 19 0.45
20 1 0.02
ACGTcount: A:0.28, C:0.01, G:0.06, T:0.65
Consensus pattern (18 bp):
TTTTATATATTTTTGAAA
Found at i:30603189 original size:31 final size:31
Alignment explanation
Indices: 30603124--30603197 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 31
30603114 TTTAAGGTAT
* * *
30603124 AGTGGCTAAAATTGATAACTTATCTAACAAA
1 AGTGACTAAAATTGACAACTAATCTAACAAA
* * * *
30603155 AGTGATTAAAGTTGACAACTAATCTAAGAGA
1 AGTGACTAAAATTGACAACTAATCTAACAAA
30603186 AGTGACTAAAAT
1 AGTGACTAAAAT
30603198 AACAAATTTT
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.46, C:0.11, G:0.16, T:0.27
Consensus pattern (31 bp):
AGTGACTAAAATTGACAACTAATCTAACAAA
Found at i:30608009 original size:26 final size:25
Alignment explanation
Indices: 30607980--30608069 Score: 65
Period size: 26 Copynumber: 3.5 Consensus size: 25
30607970 AACTCGAAAT
30607980 CTAAAACCTAAAACTTAATATAAACC
1 CTAAAACC-AAAACTTAATATAAACC
** * *
30608006 CTAATTCCTAAACTCAATCATAAACC
1 CTAAAACCAAAACTTAAT-ATAAACC
* * * *
30608032 TTATAAACCCAAAC-TCATATAAACT
1 CTA-AAACCAAAACTTAATATAAACC
*
30608057 CTAAATCCAAAAC
1 CTAAAACCAAAAC
30608070 CTAAAACGGG
Statistics
Matches: 48, Mismatches: 14, Indels: 6
0.71 0.21 0.09
Matches are distributed among these distances:
24 8 0.17
25 16 0.33
26 17 0.35
27 7 0.15
ACGTcount: A:0.49, C:0.27, G:0.00, T:0.24
Consensus pattern (25 bp):
CTAAAACCAAAACTTAATATAAACC
Found at i:30624062 original size:28 final size:28
Alignment explanation
Indices: 30623998--30624062 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 28
30623988 TCGCCAAATT
30623998 CAAAGTAAACTACAATATGATATGGTGA
1 CAAAGTAAACTACAATATGATATGGTGA
**
30624026 -AATTTAAACTCACAATATGATATGGT-A
1 CAAAGTAAACT-ACAATATGATATGGTGA
*
30624053 CAAAGCAAAC
1 CAAAGTAAAC
30624063 CAATTTTGTA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
27 9 0.30
28 21 0.70
ACGTcount: A:0.48, C:0.14, G:0.14, T:0.25
Consensus pattern (28 bp):
CAAAGTAAACTACAATATGATATGGTGA
Found at i:30625247 original size:40 final size:40
Alignment explanation
Indices: 30625202--30625343 Score: 176
Period size: 40 Copynumber: 3.5 Consensus size: 40
30625192 GACAAATCAC
* *
30625202 CTATATATGGCACTTAGTGTGCGATTCGATAAAGCTTCGA
1 CTATATATGGCACTTAGTGTGCGATTCGAGATAGCTTCGA
*
30625242 CTATATATGGCACTTAGTGTGCGAGATCGAGATAGCTTCGA
1 CTATATATGGCACTTAGTGTGCGA-TTCGAGATAGCTTCGA
* * * * *
30625283 CTATAGATGGCACTTAGTGTACAATTTGAGATAGCTTCGG
1 CTATATATGGCACTTAGTGTGCGATTCGAGATAGCTTCGA
* * *
30625323 CCATGTATGACACTTAGTGTG
1 CTATATATGGCACTTAGTGTG
30625344 TGAGATATCA
Statistics
Matches: 87, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
40 53 0.61
41 34 0.39
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.32
Consensus pattern (40 bp):
CTATATATGGCACTTAGTGTGCGATTCGAGATAGCTTCGA
Found at i:30626814 original size:24 final size:24
Alignment explanation
Indices: 30626770--30626815 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
30626760 AATTGATTAA
**
30626770 GATTGAATGATGATGGTAAGTAAT
1 GATTGAATGATGATGAAAAGTAAT
30626794 GATTGAATGTATGA-GAAAAGTA
1 GATTGAATG-ATGATGAAAAGTA
30626816 TGTTTAATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 15 0.79
25 4 0.21
ACGTcount: A:0.41, C:0.00, G:0.28, T:0.30
Consensus pattern (24 bp):
GATTGAATGATGATGAAAAGTAAT
Found at i:30632848 original size:40 final size:39
Alignment explanation
Indices: 30632804--30632911 Score: 119
Period size: 41 Copynumber: 2.7 Consensus size: 39
30632794 CAACAAATAA
*
30632804 GCTATATGTGGCAGTTAGTGTGCGATTCGACATAGCTTCG
1 GCTATATATGGCAGTTAGTGTGCGATT-GACATAGCTTCG
* * * *
30632844 GCTATATATGACACTTAGTGTGCGAGATTGAGATAGCTTTG
1 GCTATATATGGCAGTTAGTGTGC--GATTGACATAGCTTCG
*
30632885 GCTATATATGG-TGCTTAGTGTGCGATT
1 GCTATATATGGCAG-TTAGTGTGCGATT
30632912 TGGGATAGCT
Statistics
Matches: 57, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
39 4 0.07
40 20 0.35
41 29 0.51
42 4 0.07
ACGTcount: A:0.22, C:0.14, G:0.29, T:0.35
Consensus pattern (39 bp):
GCTATATATGGCAGTTAGTGTGCGATTGACATAGCTTCG
Found at i:30632890 original size:41 final size:41
Alignment explanation
Indices: 30632804--30632952 Score: 142
Period size: 40 Copynumber: 3.7 Consensus size: 41
30632794 CAACAAATAA
* * *
30632804 GCTATATGTGGCAGTTAGTGTGC--GATTCGACATAGCTTCG
1 GCTATATATGGCACTTAGTGTGCGAGATT-GAGATAGCTTCG
* *
30632844 GCTATATATGACACTTAGTGTGCGAGATTGAGATAGCTTTG
1 GCTATATATGGCACTTAGTGTGCGAGATTGAGATAGCTTCG
** * * *
30632885 GCTATATATGGTGCTTAGTGTGCGA-TTTGGGATAGCTTCA
1 GCTATATATGGCACTTAGTGTGCGAGATTGAGATAGCTTCG
* * * *
30632925 ACTATGTACGGCACTTAGTGTGTGAGAT
1 GCTATATATGGCACTTAGTGTGCGAGAT
30632953 ATCGAGTATT
Statistics
Matches: 87, Mismatches: 19, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
40 50 0.57
41 33 0.38
42 4 0.05
ACGTcount: A:0.23, C:0.14, G:0.29, T:0.34
Consensus pattern (41 bp):
GCTATATATGGCACTTAGTGTGCGAGATTGAGATAGCTTCG
Found at i:30635702 original size:25 final size:25
Alignment explanation
Indices: 30635674--30635724 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
30635664 TTGTAAGTAA
30635674 TGATAGAATGTATGAGAAAATTATG
1 TGATAGAATGTATGAGAAAATTATG
30635699 TGATAGAATGTATGAGAAAATTATG
1 TGATAGAATGTATGAGAAAATTATG
30635724 T
1 T
30635725 TTAATTGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.43, C:0.00, G:0.24, T:0.33
Consensus pattern (25 bp):
TGATAGAATGTATGAGAAAATTATG
Found at i:30636371 original size:19 final size:19
Alignment explanation
Indices: 30636332--30636368 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
30636322 TTGTTTGATA
30636332 AAAATAAATATTAATTTTT
1 AAAATAAATATTAATTTTT
*
30636351 AAAAT-AATATTGATTTTT
1 AAAATAAATATTAATTTTT
30636369 TAATTTTAAT
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:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (19 bp):
AAAATAAATATTAATTTTT
Found at i:30637320 original size:37 final size:38
Alignment explanation
Indices: 30637270--30637344 Score: 116
Period size: 37 Copynumber: 2.0 Consensus size: 38
30637260 CCACCCTTGA
*
30637270 AAGAGTGCGTAATAGCTCACTGATC-AGCGCTCTTGCG
1 AAGAGTGCATAATAGCTCACTGATCAAGCGCTCTTGCG
* *
30637307 AAGAGTGTATAATAGCTCATTGATCAAGCGCTCTTGCG
1 AAGAGTGCATAATAGCTCACTGATCAAGCGCTCTTGCG
30637345 CCAAAGATGA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
37 22 0.65
38 12 0.35
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (38 bp):
AAGAGTGCATAATAGCTCACTGATCAAGCGCTCTTGCG
Found at i:30640888 original size:20 final size:20
Alignment explanation
Indices: 30640865--30640914 Score: 61
Period size: 19 Copynumber: 2.5 Consensus size: 20
30640855 ATTACAAAAG
30640865 AATTTCAAAATAAATTT-T-AA
1 AATTTCAAAAT--ATTTATAAA
30640885 AA-TTCAAAATATTTATAAA
1 AATTTCAAAATATTTATAAA
30640904 AATTTCAAAAT
1 AATTTCAAAAT
30640915 TTATATTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
17 4 0.15
18 1 0.04
19 12 0.44
20 10 0.37
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (20 bp):
AATTTCAAAATATTTATAAA
Done.