Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 207 of 343
Found at i:68432883 original size:8 final size:8
Alignment explanation
Indices: 68432865--68432950 Score: 55
Period size: 8 Copynumber: 9.8 Consensus size: 8
68432855 TAAGATTGTA
68432865 TTAAGTTTT
1 TTAA-TTTT
68432874 TTAATTTTTT
1 TTAA--TTTT
68432884 TTACAATTTT
1 TT--AATTTT
*
68432894 TAATATTTT
1 TTA-ATTTT
68432903 TTAATTTT
1 TTAATTTT
68432911 TATAATTTT
1 T-TAATTTT
* *
68432920 ATATTTTT
1 TTAATTTT
*
68432928 TTACTTTT
1 TTAATTTT
*
68432936 TATAATATT
1 T-TAATTTT
68432945 TTAATT
1 TTAATT
68432951 AGTTACTGAT
Statistics
Matches: 61, Mismatches: 10, Indels: 13
0.73 0.12 0.15
Matches are distributed among these distances:
8 24 0.39
9 24 0.39
10 11 0.18
12 2 0.03
ACGTcount: A:0.28, C:0.02, G:0.01, T:0.69
Consensus pattern (8 bp):
TTAATTTT
Found at i:68432895 original size:19 final size:18
Alignment explanation
Indices: 68432871--68432919 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 18
68432861 TGTATTAAGT
68432871 TTTTTAATTTTTTTTACAA
1 TTTTTAATTTTTTTTA-AA
* *
68432890 TTTTTAATATTTTTTAAT
1 TTTTTAATTTTTTTTAAA
68432908 TTTTATAATTTT
1 TTTT-TAATTTT
68432920 ATATTTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 5 0.19
19 21 0.81
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTTTAATTTTTTTTAAA
Found at i:68432918 original size:17 final size:17
Alignment explanation
Indices: 68432871--68432950 Score: 63
Period size: 17 Copynumber: 4.5 Consensus size: 17
68432861 TGTATTAAGT
* *
68432871 TTTTTAATTTTTTTTACAA
1 TTTTTAA-TTTTTATA-AT
*
68432890 TTTTTAATATTTTTTAAT
1 TTTTTAAT-TTTTATAAT
*
68432908 TTTTATAA-TTTTATATT
1 TTTT-TAATTTTTATAAT
*
68432925 TTTTTACTTTTTATAAT
1 TTTTTAATTTTTATAAT
*
68432942 ATTTTAATT
1 TTTTTAATT
68432951 AGTTACTGAT
Statistics
Matches: 51, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
16 2 0.04
17 26 0.51
18 6 0.12
19 17 0.33
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.70
Consensus pattern (17 bp):
TTTTTAATTTTTATAAT
Found at i:68432919 original size:25 final size:25
Alignment explanation
Indices: 68432881--68432941 Score: 79
Period size: 25 Copynumber: 2.4 Consensus size: 25
68432871 TTTTTAATTT
*
68432881 TTTTTACAATTTT-TAATATTTTTTAA
1 TTTTTATAATTTTAT-AT-TTTTTTAA
*
68432907 TTTTTATAATTTTATATTTTTTTAC
1 TTTTTATAATTTTATATTTTTTTAA
68432932 TTTTTATAAT
1 TTTTTATAAT
68432942 ATTTTAATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
25 17 0.53
26 14 0.44
27 1 0.03
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (25 bp):
TTTTTATAATTTTATATTTTTTTAA
Found at i:68434000 original size:28 final size:28
Alignment explanation
Indices: 68433960--68434016 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
68433950 TCAAGGATAT
68433960 GTCCACTACGATGGTGATAAAACTCTTG
1 GTCCACTACGATGGTGATAAAACTCTTG
*
68433988 GTCCACTACGATGGTGCTAAAACTCTTG
1 GTCCACTACGATGGTGATAAAACTCTTG
68434016 G
1 G
68434017 GGAGGAGTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (28 bp):
GTCCACTACGATGGTGATAAAACTCTTG
Found at i:68440735 original size:50 final size:50
Alignment explanation
Indices: 68440631--68440735 Score: 119
Period size: 50 Copynumber: 2.1 Consensus size: 50
68440621 CCTTAAAAAC
**
68440631 TTTTTCCTTTTACTTTCTCCCCAAAATGTTTACTTTCCCAAACCCCATTT
1 TTTTTCCTTTTACTTTCTCCCCAAAATGTTTACTTTCCCAAACCCCATAA
*
68440681 TTTTTCCTTTTGCTTTCT-CCCAAAACT-TTTAC-TTCCTTTCAAACCCCA-AA
1 TTTTTCCTTTTACTTTCTCCCCAAAA-TGTTTACTTTCC---CAAACCCCATAA
68440731 TTTTT
1 TTTTT
68440736 TTTTCGAATT
Statistics
Matches: 48, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
48 4 0.08
49 12 0.25
50 23 0.48
51 9 0.19
ACGTcount: A:0.20, C:0.30, G:0.02, T:0.48
Consensus pattern (50 bp):
TTTTTCCTTTTACTTTCTCCCCAAAATGTTTACTTTCCCAAACCCCATAA
Found at i:68441406 original size:64 final size:63
Alignment explanation
Indices: 68441288--68441406 Score: 141
Period size: 64 Copynumber: 1.9 Consensus size: 63
68441278 TCTCGTTGTC
* * * * * **
68441288 AGCATCGGTTTAAATTTTAAAAAAATGATTTTTTACTTTTCTGGTGTTGGCGTTCACGTTGCT
1 AGCACCGGTTCAAATTTAAAAAAAATGATATTTGACTTTTCTGGTGCCGGCGTTCACGTTGCT
*
68441351 AGCACCGGTTCAAATTTAAGAAAAAATGACTATTTGA-TTTTTTGGTGCCGGCGTTC
1 AGCACCGGTTCAAATTTAA-AAAAAATGA-TATTTGACTTTTCTGGTGCCGGCGTTC
68441407 TTTTGGTTTG
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
63 16 0.35
64 25 0.54
65 5 0.11
ACGTcount: A:0.26, C:0.14, G:0.20, T:0.39
Consensus pattern (63 bp):
AGCACCGGTTCAAATTTAAAAAAAATGATATTTGACTTTTCTGGTGCCGGCGTTCACGTTGCT
Found at i:68442545 original size:26 final size:24
Alignment explanation
Indices: 68442515--68442563 Score: 80
Period size: 26 Copynumber: 2.0 Consensus size: 24
68442505 AATAAAAAAA
68442515 TTTAAAAATATAATAAATCAAATATG
1 TTTAAAAATATAA-AAA-CAAATATG
68442541 TTTAAAAATATAAAAACAAATAT
1 TTTAAAAATATAAAAACAAATAT
68442564 TAAAACAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (24 bp):
TTTAAAAATATAAAAACAAATATG
Found at i:68442561 original size:12 final size:12
Alignment explanation
Indices: 68442546--68442578 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
68442536 ATATGTTTAA
68442546 AAATATAAAAAC
1 AAATATAAAAAC
*
68442558 AAATATTAAAAC
1 AAATATAAAAAC
68442570 AAATA-AAAA
1 AAATATAAAA
68442579 TAATACTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 3 0.16
12 16 0.84
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.18
Consensus pattern (12 bp):
AAATATAAAAAC
Found at i:68442573 original size:24 final size:25
Alignment explanation
Indices: 68442518--68442579 Score: 67
Period size: 26 Copynumber: 2.6 Consensus size: 25
68442508 AAAAAAATTT
**
68442518 AAAAATATAATAAATCAAATATGTTT
1 AAAAATATAA-AAATCAAATATGTAA
68442544 AAAAATATAAAAA-CAAATAT-TAA
1 AAAAATATAAAAATCAAATATGTAA
*
68442567 AACAA-ATAAAAAT
1 AAAAATATAAAAAT
68442580 AATACTAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
22 7 0.22
23 5 0.16
24 7 0.22
25 3 0.09
26 10 0.31
ACGTcount: A:0.68, C:0.05, G:0.02, T:0.26
Consensus pattern (25 bp):
AAAAATATAAAAATCAAATATGTAA
Found at i:68442577 original size:21 final size:21
Alignment explanation
Indices: 68442550--68442592 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
68442540 GTTTAAAAAT
* *
68442550 ATAAAAACAAATATTAAAACAA
1 ATAAAAA-TAATACTAAAACAA
68442572 ATAAAAATAATACTAAAACAA
1 ATAAAAATAATACTAAAACAA
68442593 TTCTTAAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.72, C:0.09, G:0.00, T:0.19
Consensus pattern (21 bp):
ATAAAAATAATACTAAAACAA
Found at i:68446347 original size:22 final size:20
Alignment explanation
Indices: 68446322--68446370 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
68446312 TTTAGAAAAT
68446322 TTTAAAATTTATTTATATATTC
1 TTTAAAATTTA-TTAT-TATTC
* *
68446344 TTTAGAATTTATTATTATTT
1 TTTAAAATTTATTATTATTC
68446364 TTTAAAA
1 TTTAAAA
68446371 ATATAAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 10 0.42
21 4 0.17
22 10 0.42
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (20 bp):
TTTAAAATTTATTATTATTC
Found at i:68446637 original size:99 final size:99
Alignment explanation
Indices: 68446459--68446644 Score: 259
Period size: 99 Copynumber: 1.9 Consensus size: 99
68446449 GACCAATTTG
* * * **
68446459 CTCATTTTCAAAATTGACAGGGACCAAAAAGGTATTTATACCAATCTGTTATTTGAATTATTCAA
1 CTCATTGTCAAAATTGACAGGGACCAAAAAGGTATTTACACCAATATGTTATTCAAATTATTCAA
* *
68446524 GTTATTTAAATTGTAAAATTCATCTTGACTCGAT
66 GTTACTCAAATTGTAAAATTCATCTTGACTCGAT
*
68446558 CTCATTGTCAAAATTGACAGGGACC-AAAAGGATATTTACACCAATATGTTATTCAAATTATTTG
1 CTCATTGTCAAAATTGACAGGGACCAAAAAGG-TATTTACACCAATATGTTATTCAAATTA-TTC
*
68446622 AA-TTACTCAAGTTGTAAAATTCA
64 AAGTTACTCAAATTGTAAAATTCA
68446645 ACTCGACTTG
Statistics
Matches: 76, Mismatches: 9, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
98 6 0.08
99 66 0.87
100 4 0.05
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (99 bp):
CTCATTGTCAAAATTGACAGGGACCAAAAAGGTATTTACACCAATATGTTATTCAAATTATTCAA
GTTACTCAAATTGTAAAATTCATCTTGACTCGAT
Found at i:68446988 original size:20 final size:20
Alignment explanation
Indices: 68446958--68446995 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
68446948 ACATGTTTTC
68446958 ATTTTTTAAAAT-AAAAAAT
1 ATTTTTTAAAATGAAAAAAT
68446977 ATTTTTTGAAAATGAAAAA
1 ATTTTTT-AAAATGAAAAA
68446996 GAAAAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 7 0.41
20 5 0.29
21 5 0.29
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.39
Consensus pattern (20 bp):
ATTTTTTAAAATGAAAAAAT
Found at i:68457399 original size:25 final size:23
Alignment explanation
Indices: 68457365--68457411 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
68457355 TTGTTATATC
*
68457365 AATTGTTTTCCATATATGCTTAGAA
1 AATTGGTTT-CAT-TATGCTTAGAA
*
68457390 AATTGGTTTCATTTTGCTTAGA
1 AATTGGTTTCATTATGCTTAGA
68457412 TTAATTATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 3 0.15
25 8 0.40
ACGTcount: A:0.28, C:0.11, G:0.15, T:0.47
Consensus pattern (23 bp):
AATTGGTTTCATTATGCTTAGAA
Found at i:68468210 original size:21 final size:21
Alignment explanation
Indices: 68468186--68468329 Score: 123
Period size: 21 Copynumber: 6.6 Consensus size: 21
68468176 TCTTTTCAAC
*
68468186 TCAATTTTTAATCCTTAATCT
1 TCAATTTTCAATCCTTAATCT
* *
68468207 TCAACTTCAATTCTTAATCCTCAATCC
1 TCAA-TT---TTC--AATCCTTAATCT
*
68468234 TCAATTTTCAATCCTCAATCT
1 TCAATTTTCAATCCTTAATCT
*
68468255 TCAATCTTCAAT-CTTCAATCT
1 TCAATTTTCAATCCTT-AATCT
*
68468276 TCAATCTTCAAT-CTTCAATCT
1 TCAATTTTCAATCCTT-AATCT
68468297 TCAATTTTCAATCCTTAAT-T
1 TCAATTTTCAATCCTTAATCT
*
68468317 CTCAATTCTCAAT
1 -TCAATTTTCAAT
68468330 TCTCGATTCT
Statistics
Matches: 106, Mismatches: 8, Indels: 18
0.80 0.06 0.14
Matches are distributed among these distances:
20 3 0.03
21 77 0.73
22 5 0.05
23 3 0.03
25 2 0.02
26 2 0.02
27 14 0.13
ACGTcount: A:0.29, C:0.27, G:0.00, T:0.44
Consensus pattern (21 bp):
TCAATTTTCAATCCTTAATCT
Found at i:68468230 original size:14 final size:15
Alignment explanation
Indices: 68468204--68468332 Score: 127
Period size: 14 Copynumber: 9.2 Consensus size: 15
68468194 TAATCCTTAA
68468204 TCTTCAA-CTTCAAT
1 TCTTCAATCTTCAAT
*
68468218 TCTT-AATCCTCAA-
1 TCTTCAATCTTCAAT
* *
68468231 TCCTCAATTTTCAA-
1 TCTTCAATCTTCAAT
*
68468245 TCCTCAATCTTCAA-
1 TCTTCAATCTTCAAT
68468259 TCTTCAATCTTCAA-
1 TCTTCAATCTTCAAT
68468273 TCTTCAATCTTCAA-
1 TCTTCAATCTTCAAT
68468287 TCTTCAATCTTCAAT
1 TCTTCAATCTTCAAT
68468302 T-TTCAATCCTT-AAT
1 TCTTCAAT-CTTCAAT
68468316 TC-TCAAT-TCTCAAT
1 TCTTCAATCT-TCAAT
68468330 TCT
1 TCT
68468333 CGATTCTTGA
Statistics
Matches: 101, Mismatches: 6, Indels: 15
0.83 0.05 0.12
Matches are distributed among these distances:
12 1 0.01
13 6 0.06
14 90 0.89
15 4 0.04
ACGTcount: A:0.28, C:0.29, G:0.00, T:0.43
Consensus pattern (15 bp):
TCTTCAATCTTCAAT
Found at i:68468235 original size:7 final size:7
Alignment explanation
Indices: 68468202--68468309 Score: 148
Period size: 7 Copynumber: 15.6 Consensus size: 7
68468192 TTTAATCCTT
68468202 AATCTTC
1 AATCTTC
68468209 AA-CTTC
1 AATCTTC
68468215 AATTCTT-
1 AA-TCTTC
*
68468222 AATCCTC
1 AATCTTC
*
68468229 AATCCTC
1 AATCTTC
*
68468236 AATTTTC
1 AATCTTC
*
68468243 AATCCTC
1 AATCTTC
68468250 AATCTTC
1 AATCTTC
68468257 AATCTTC
1 AATCTTC
68468264 AATCTTC
1 AATCTTC
68468271 AATCTTC
1 AATCTTC
68468278 AATCTTC
1 AATCTTC
68468285 AATCTTC
1 AATCTTC
68468292 AATCTTC
1 AATCTTC
*
68468299 AATTTTC
1 AATCTTC
68468306 AATC
1 AATC
68468310 CTTAATTCTC
Statistics
Matches: 90, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
6 9 0.10
7 78 0.87
8 3 0.03
ACGTcount: A:0.30, C:0.29, G:0.00, T:0.42
Consensus pattern (7 bp):
AATCTTC
Found at i:68468323 original size:7 final size:7
Alignment explanation
Indices: 68468213--68468339 Score: 61
Period size: 7 Copynumber: 18.1 Consensus size: 7
68468203 ATCTTCAACT
68468213 TCAATTC
1 TCAATTC
* *
68468220 TTAATCC
1 TCAATTC
*
68468227 TCAATCC
1 TCAATTC
*
68468234 TCAATTT
1 TCAATTC
*
68468241 TCAATCC
1 TCAATTC
68468248 TCAA-TC
1 TCAATTC
68468254 TTCAA-TC
1 -TCAATTC
68468261 TTCAA-TC
1 -TCAATTC
68468268 TTCAA-TC
1 -TCAATTC
68468275 TTCAA-TC
1 -TCAATTC
68468282 TTCAA-TC
1 -TCAATTC
68468289 TTCAA-TC
1 -TCAATTC
*
68468296 TTCAATTT
1 -TCAATTC
*
68468304 TCAATCC
1 TCAATTC
*
68468311 TTAATTC
1 TCAATTC
68468318 TCAATTC
1 TCAATTC
68468325 TCAATTC
1 TCAATTC
*
68468332 TCGATTC
1 TCAATTC
68468339 T
1 T
68468340 TGATTTTTTT
Statistics
Matches: 103, Mismatches: 15, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
6 1 0.01
7 101 0.98
8 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.01, T:0.43
Consensus pattern (7 bp):
TCAATTC
Found at i:68480058 original size:2 final size:2
Alignment explanation
Indices: 68480053--68480077 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
68480043 ACAAAAAGAA
68480053 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
68480078 AAGATTGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:68480884 original size:12 final size:12
Alignment explanation
Indices: 68480869--68480900 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
68480859 TTTGTTTTAT
68480869 TATTATTATTAC
1 TATTATTATTAC
*
68480881 TATTAGTATTAC
1 TATTATTATTAC
68480893 TATTATTA
1 TATTATTA
68480901 CTTTTTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.34, C:0.06, G:0.03, T:0.56
Consensus pattern (12 bp):
TATTATTATTAC
Found at i:68482007 original size:5 final size:5
Alignment explanation
Indices: 68481997--68482034 Score: 58
Period size: 5 Copynumber: 7.4 Consensus size: 5
68481987 ATCTGTGAAA
*
68481997 AAAAT AAAAT AAAAT AAAAT AAAGAA AAAAT AAAAT AA
1 AAAAT AAAAT AAAAT AAAAT AAA-AT AAAAT AAAAT AA
68482035 CACACAAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 26 0.87
6 4 0.13
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.16
Consensus pattern (5 bp):
AAAAT
Found at i:68486460 original size:5 final size:5
Alignment explanation
Indices: 68486450--68486492 Score: 68
Period size: 5 Copynumber: 8.4 Consensus size: 5
68486440 ATTTGTGAAA
*
68486450 AAAAT AAAAT AAAAT AAAAT AAAAT AAAGAA AAAAT AAAAT AA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA-AT AAAAT AAAAT AA
68486493 CACACAAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
5 31 0.89
6 4 0.11
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.16
Consensus pattern (5 bp):
AAAAT
Found at i:68489072 original size:23 final size:24
Alignment explanation
Indices: 68489028--68489072 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
68489018 AAAATCCTAC
* *
68489028 CCATCCAGCCTCTACGCACCATCT
1 CCATCCAACCTCTACACACCATCT
*
68489052 CCATCCAACC-CTACACTCCAT
1 CCATCCAACCTCTACACACCAT
68489073 GTGGGGATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 9 0.50
24 9 0.50
ACGTcount: A:0.24, C:0.51, G:0.04, T:0.20
Consensus pattern (24 bp):
CCATCCAACCTCTACACACCATCT
Found at i:68489477 original size:18 final size:19
Alignment explanation
Indices: 68489436--68489477 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
68489426 GCCCATGTGA
*
68489436 TCTGCCTGTGTGGGCCCAC
1 TCTGCCTGTATGGGCCCAC
*
68489455 -ATGCCTGTAT-GGCCCAC
1 TCTGCCTGTATGGGCCCAC
68489472 TCTGCC
1 TCTGCC
68489478 GAAATTTCCT
Statistics
Matches: 19, Mismatches: 3, Indels: 3
0.76 0.12 0.12
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.10, C:0.38, G:0.26, T:0.26
Consensus pattern (19 bp):
TCTGCCTGTATGGGCCCAC
Found at i:68491307 original size:15 final size:15
Alignment explanation
Indices: 68491287--68491316 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
68491277 AAGAACTTGG
68491287 GTCACTTAATTCTAA
1 GTCACTTAATTCTAA
68491302 GTCACTTAATTCTAA
1 GTCACTTAATTCTAA
68491317 CAATCTCCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.20, G:0.07, T:0.40
Consensus pattern (15 bp):
GTCACTTAATTCTAA
Found at i:68500695 original size:21 final size:20
Alignment explanation
Indices: 68500639--68500698 Score: 79
Period size: 19 Copynumber: 3.0 Consensus size: 20
68500629 TTAAGAGTAT
*
68500639 TTTGTTA-AATATTTTGATA
1 TTTGTTAGAATATTTTGGTA
68500658 TTTGTTAGAA-ATTTTGGTA
1 TTTGTTAGAATATTTTGGTA
*
68500677 TTTGGTTAGAATTTTTTGGTA
1 TTT-GTTAGAATATTTTGGTA
68500698 T
1 T
68500699 ATCAAAATAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
19 18 0.50
20 9 0.25
21 9 0.25
ACGTcount: A:0.25, C:0.00, G:0.18, T:0.57
Consensus pattern (20 bp):
TTTGTTAGAATATTTTGGTA
Found at i:68500771 original size:40 final size:40
Alignment explanation
Indices: 68500722--68500798 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
68500712 ATAAGATGTT
* * * **
68500722 GTTAGAAATATTGGAATCACTTTAAAAATTTTGGTATTAG
1 GTTACAAATATTAGAATCACGTTAAAAAAATTGGTATTAG
*
68500762 GTTACAAATATTAGCATCACGTTAAAAAAATTGGTAT
1 GTTACAAATATTAGAATCACGTTAAAAAAATTGGTAT
68500799 CAATTAAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.40, C:0.08, G:0.16, T:0.36
Consensus pattern (40 bp):
GTTACAAATATTAGAATCACGTTAAAAAAATTGGTATTAG
Found at i:68500800 original size:20 final size:20
Alignment explanation
Indices: 68500722--68500809 Score: 70
Period size: 20 Copynumber: 4.5 Consensus size: 20
68500712 ATAAGATGTT
* *
68500722 GTTAGAAATATTGGAATCAC
1 GTTAAAAATATTGGTATCAC
* * * *
68500742 TTTAAAAATTTTGGTATTAG
1 GTTAAAAATATTGGTATCAC
* * *
68500762 GTTACAAATATTAGCATCAC
1 GTTAAAAATATTGGTATCAC
*
68500782 GTTAAAAAAATTGGTATCA-
1 GTTAAAAATATTGGTATCAC
*
68500801 ATTAAAAAT
1 GTTAAAAAT
68500810 TTTAGTTTCG
Statistics
Matches: 49, Mismatches: 19, Indels: 1
0.71 0.28 0.01
Matches are distributed among these distances:
19 7 0.14
20 42 0.86
ACGTcount: A:0.43, C:0.08, G:0.14, T:0.35
Consensus pattern (20 bp):
GTTAAAAATATTGGTATCAC
Found at i:68501718 original size:20 final size:20
Alignment explanation
Indices: 68501695--68501744 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
68501685 AAATCCAAAT
68501695 TAAAATACTAAAATTCAGGA
1 TAAAATACTAAAATTCAGGA
* *
68501715 TAAAATCCTGAAATTCAGGA
1 TAAAATACTAAAATTCAGGA
68501735 TAAGAATACT
1 TAA-AATACT
68501745 GATGTGGCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 21 0.81
21 5 0.19
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.26
Consensus pattern (20 bp):
TAAAATACTAAAATTCAGGA
Found at i:68501967 original size:4 final size:4
Alignment explanation
Indices: 68501958--68501982 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
68501948 GAATATGTCA
68501958 TAAT TAAT TAAT TAAT TAAT TAAT T
1 TAAT TAAT TAAT TAAT TAAT TAAT T
68501983 CGGTGCTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TAAT
Found at i:68503848 original size:21 final size:21
Alignment explanation
Indices: 68503816--68503885 Score: 56
Period size: 21 Copynumber: 3.4 Consensus size: 21
68503806 TAAGTTTTTA
*
68503816 AAAT-AATGTATAATATAAAT
1 AAATAAATATATAATATAAAT
* **
68503836 AAATAAATATATAAGATATTT
1 AAATAAATATATAATATAAAT
*
68503857 AAGTTAAA-ATATAATATATAAT
1 AA-ATAAATATATAATATA-AAT
68503879 -AATAAAT
1 AAATAAAT
68503886 TACAAATTTT
Statistics
Matches: 37, Mismatches: 9, Indels: 7
0.70 0.17 0.13
Matches are distributed among these distances:
20 8 0.22
21 24 0.65
22 5 0.14
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (21 bp):
AAATAAATATATAATATAAAT
Found at i:68503919 original size:12 final size:13
Alignment explanation
Indices: 68503900--68503930 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
68503890 AATTTTGAAA
68503900 ATATAAATAATAT
1 ATATAAATAATAT
68503913 A-ATAAATAATAT
1 ATATAAATAATAT
68503925 ATATAA
1 ATATAA
68503931 TAAATTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.71
13 5 0.29
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (13 bp):
ATATAAATAATAT
Found at i:68503928 original size:16 final size:15
Alignment explanation
Indices: 68503905--68503935 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
68503895 TGAAAATATA
68503905 AATAATATAATAAAT
1 AATAATATAATAAAT
68503920 AATATATATAATAAAT
1 AATA-ATATAATAAAT
68503936 TAAAAATAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
AATAATATAATAAAT
Found at i:68504276 original size:18 final size:18
Alignment explanation
Indices: 68504240--68504305 Score: 89
Period size: 17 Copynumber: 3.7 Consensus size: 18
68504230 AATCATATCT
*
68504240 TCTAAGATTGTATATCATA
1 TCTAAGATTGCA-ATCATA
*
68504259 TCTAATATTGCAATCATA
1 TCTAAGATTGCAATCATA
*
68504277 TCTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATA
68504294 TCTAAGATTGCA
1 TCTAAGATTGCA
68504306 TGTCATTGGA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
17 16 0.39
18 15 0.37
19 10 0.24
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (18 bp):
TCTAAGATTGCAATCATA
Found at i:68504903 original size:83 final size:83
Alignment explanation
Indices: 68504690--68505124 Score: 764
Period size: 83 Copynumber: 5.2 Consensus size: 83
68504680 TTCGATTTGT
* * * *
68504690 AAGGATGTCAAATCATCTTGAGTCTGTTTGAGAACATTTGAGAATCATATCTGCAAGGTCCTCGA
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
*
68504755 CTTGTTCCTTGTAAGCAC
66 TTTGTTCCTTGTAAGCAC
* * * *
68504773 AAGGATGCCTAAACCATCTTGAGTCTATTTGAGAACATTTGAGAGTCATGTCTGTAAGGTCCTCG
1 AAGGATGCC-AAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCG
68504838 ATTTGTTCCTTGTAAGCAC
65 ATTTGTTCCTTGTAAGCAC
*
68504857 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCTA
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
68504922 TTTGTTCCTTGTAAGCAC
66 TTTGTTCCTTGTAAGCAC
68504940 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
68505005 TTTGTTCCTTGTAAGCAC
66 TTTGTTCCTTGTAAGCAC
68505023 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
68505088 TTTGTTCCTTGTAA-CAC
66 TTTGTTCCTTGTAAGCAC
68505105 AAGGATGCCAAACCATCTTG
1 AAGGATGCCAAACCATCTTG
68505125 GATCTGCTTC
Statistics
Matches: 338, Mismatches: 13, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
82 23 0.07
83 238 0.70
84 77 0.23
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.32
Consensus pattern (83 bp):
AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
TTTGTTCCTTGTAAGCAC
Found at i:68505264 original size:119 final size:119
Alignment explanation
Indices: 68505049--68505403 Score: 586
Period size: 119 Copynumber: 3.0 Consensus size: 119
68505039 CTTGAGTCTG
* * * * *
68505049 TTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGT-AACACAAGGATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
*
68505113 CAAACCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
* * *
68505167 TTTGAGAATGTCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
68505232 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
* * * *
68505286 TTTGAGAGCGTTTAAGAGTCAAATCCGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
68505351 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTAT
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTAT
68505404 CTTCGATCTG
Statistics
Matches: 220, Mismatches: 16, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
118 45 0.20
119 175 0.80
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (119 bp):
TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
Found at i:68505443 original size:44 final size:44
Alignment explanation
Indices: 68505395--68505574 Score: 170
Period size: 44 Copynumber: 4.1 Consensus size: 44
68505385 TGAAGGTTAG
68505395 ATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAA
1 ATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAA
*
68505439 ATCTGCTATCTTC-AACTTGTTCCCTATAAACACAGGGATGCC--
1 ATCTGCTATCTTCGATC-TGTTCCCTATAAACACAGGGATGCCAA
** * * * * * * * *
68505481 ATGCTGAAATCTTCAATCTACTTCGC-AGAGAGCACAGGAATGTCAG
1 AT-CTGCTATCTTCGATCT-GTTCCCTATA-AACACAGGGATGCCAA
* **
68505527 ATCTACTATCTTCGATCTGTTCCCTATAAACATGGGGATGCCAA
1 ATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAA
68505571 ATCT
1 ATCT
68505575 TGTTTCTTTG
Statistics
Matches: 105, Mismatches: 23, Indels: 16
0.73 0.16 0.11
Matches are distributed among these distances:
42 2 0.02
43 14 0.13
44 73 0.70
45 14 0.13
46 2 0.02
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (44 bp):
ATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAA
Found at i:68506468 original size:20 final size:22
Alignment explanation
Indices: 68506445--68506508 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
68506435 TCACCTTGGC
68506445 CTCTCCA-TTTTTTC-CTTTTT
1 CTCTCCATTTTTTTCTCTTTTT
**
68506465 CTCTTTATTTTTTTCTCTTTTT
1 CTCTCCATTTTTTTCTCTTTTT
* * *
68506487 CTTTTCTTTTTTTTCTCTTTTT
1 CTCTCCATTTTTTTCTCTTTTT
68506509 TTTTGAAATA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.14
21 7 0.19
22 25 0.68
ACGTcount: A:0.03, C:0.22, G:0.00, T:0.75
Consensus pattern (22 bp):
CTCTCCATTTTTTTCTCTTTTT
Found at i:68506477 original size:22 final size:21
Alignment explanation
Indices: 68506452--68506512 Score: 81
Period size: 22 Copynumber: 2.9 Consensus size: 21
68506442 GGCCTCTCCA
68506452 TTTTTTC-CTTTTTCTCTTTAT
1 TTTTTTCTCTTTTTCT-TTTAT
*
68506473 TTTTTTCTCTTTTTCTTTTCTT
1 TTTTTTCTCTTTTTCTTTT-AT
68506495 TTTTTTCTCTTTTT-TTTT
1 TTTTTTCTCTTTTTCTTTT
68506513 GAAATAGAAG
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
21 14 0.38
22 23 0.62
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (21 bp):
TTTTTTCTCTTTTTCTTTTAT
Found at i:68506479 original size:14 final size:13
Alignment explanation
Indices: 68506460--68506512 Score: 60
Period size: 13 Copynumber: 4.3 Consensus size: 13
68506450 CATTTTTTCC
68506460 TTTTTCTCTTTATT
1 TTTTTCTCTTT-TT
68506474 TTTTTCTC-TTTT
1 TTTTTCTCTTTTT
*
68506486 TCTTT-TC--TTT
1 TTTTTCTCTTTTT
68506496 TTTTTCTCTTTTT
1 TTTTTCTCTTTTT
68506509 TTTT
1 TTTT
68506513 GAAATAGAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
10 7 0.21
11 4 0.12
12 6 0.18
13 9 0.26
14 8 0.24
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTTCTCTTTTT
Found at i:68506486 original size:11 final size:11
Alignment explanation
Indices: 68506472--68506511 Score: 64
Period size: 11 Copynumber: 3.6 Consensus size: 11
68506462 TTTCTCTTTA
68506472 TTTTTTTCTCT
1 TTTTTTTCTCT
68506483 TTTTCTTT-TCT
1 TTTT-TTTCTCT
68506494 TTTTTTTCTCT
1 TTTTTTTCTCT
68506505 TTTTTTT
1 TTTTTTT
68506512 TGAAATAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 3 0.11
11 21 0.78
12 3 0.11
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTTTTCTCT
Found at i:68511990 original size:3 final size:3
Alignment explanation
Indices: 68511976--68512021 Score: 76
Period size: 3 Copynumber: 15.3 Consensus size: 3
68511966 AAACAAATAC
68511976 AAT AAT ATAT AAT AAT AAT AAT AAT -AT AAT AAT AAT AAT AAT AAT
1 AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
68512021 A
1 A
68512022 TAGTAACATA
Statistics
Matches: 41, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
2 2 0.05
3 36 0.88
4 3 0.07
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:68512004 original size:17 final size:17
Alignment explanation
Indices: 68511976--68512018 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
68511966 AAACAAATAC
68511976 AATAAT-ATATAATAAT
1 AATAATAATATAATAAT
68511992 AATAATAATATAATAAT
1 AATAATAATATAATAAT
68512009 AATAATAATA
1 AATAATAATA
68512019 ATATAGTAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 6 0.23
17 20 0.77
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
AATAATAATATAATAAT
Found at i:68512410 original size:21 final size:21
Alignment explanation
Indices: 68512378--68512447 Score: 65
Period size: 21 Copynumber: 3.4 Consensus size: 21
68512368 TAAGTTTTTA
*
68512378 AAAT-AATGTATAATATAAAT
1 AAATAAATATATAATATAAAT
* *
68512398 AAATAAATATATAAGATATAT
1 AAATAAATATATAATATAAAT
*
68512419 AAGTTAAA-ATATAATATATAAT
1 AA-ATAAATATATAATATA-AAT
68512441 -AATAAAT
1 AAATAAAT
68512448 TACAAATTTT
Statistics
Matches: 39, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
20 8 0.21
21 25 0.64
22 6 0.15
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.34
Consensus pattern (21 bp):
AAATAAATATATAATATAAAT
Found at i:68512411 original size:28 final size:29
Alignment explanation
Indices: 68512380--68512440 Score: 67
Period size: 28 Copynumber: 2.2 Consensus size: 29
68512370 AGTTTTTAAA
68512380 ATAATGTATAATATAA-AT-AAATA-AATAT
1 ATAATG-AT-ATATAAGATAAAATATAATAT
*
68512408 ATAA-GATATATAAGTTAAAATATAATAT
1 ATAATGATATATAAGATAAAATATAATAT
68512436 ATAAT
1 ATAAT
68512441 AATAAATTAC
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
25 6 0.21
26 3 0.11
27 6 0.21
28 13 0.46
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (29 bp):
ATAATGATATATAAGATAAAATATAATAT
Found at i:68512490 original size:16 final size:15
Alignment explanation
Indices: 68512467--68512497 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
68512457 TGAAAATATA
68512467 AATAATATAATAAAT
1 AATAATATAATAAAT
68512482 AATATATATAATAAAT
1 AATA-ATATAATAAAT
68512498 TAAAAATAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
AATAATATAATAAAT
Found at i:68512828 original size:19 final size:19
Alignment explanation
Indices: 68512804--68512876 Score: 107
Period size: 19 Copynumber: 3.9 Consensus size: 19
68512794 AATCATATCT
*
68512804 TCTAAGATTGTATATCATA
1 TCTAAGATTGCATATCATA
68512823 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
68512841 TCTTAAGATTG--TATCATA
1 TC-TAAGATTGCATATCATA
68512859 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
68512877 TGAAGATTAT
Statistics
Matches: 49, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
17 8 0.16
18 16 0.33
19 25 0.51
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.40
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:68512862 original size:36 final size:39
Alignment explanation
Indices: 68512794--68512876 Score: 127
Period size: 36 Copynumber: 2.2 Consensus size: 39
68512784 AGATTTACAA
68512794 AATCATATCTTCTAAGATTGTATATCATATCTAAGATTGC
1 AATCATATCTTCTAAGATTG-ATATCATATCTAAGATTGC
68512834 AATCATATC-T-TAAGATTG-TATCATATCTAAGATTGC
1 AATCATATCTTCTAAGATTGATATCATATCTAAGATTGC
68512870 ATATCAT
1 A-ATCAT
68512877 TGAAGATTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
36 19 0.45
37 5 0.12
38 8 0.19
39 1 0.02
40 9 0.21
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (39 bp):
AATCATATCTTCTAAGATTGATATCATATCTAAGATTGC
Found at i:68513396 original size:7 final size:7
Alignment explanation
Indices: 68513384--68513408 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
68513374 TAGTTAAAAC
68513384 TAATTAA
1 TAATTAA
68513391 TAATTAA
1 TAATTAA
68513398 TAATTAA
1 TAATTAA
68513405 TAAT
1 TAAT
68513409 GGGAAATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
TAATTAA
Found at i:68514523 original size:43 final size:44
Alignment explanation
Indices: 68514474--68514624 Score: 184
Period size: 43 Copynumber: 3.5 Consensus size: 44
68514464 AATTACCGAG
* *
68514474 ATGTGATTACATGTAAGACCATGTCTGGGACCTTGGCATTGTAT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* *
68514518 -TGTGATTACGTGTAAGACCATGCCTGGGACATTGGCATCGT-T
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* * *
68514560 GTATGACTT-CGTGTAAGACCATGTCTGGGACATTGGCATCG-AT
1 ATGTGA-TTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
**
68514603 ATGTGACAACATGTAAGACCAT
1 ATGTGATTACATGTAAGACCAT
68514625 ATTTGGGATA
Statistics
Matches: 92, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
42 1 0.01
43 89 0.97
44 2 0.02
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (44 bp):
ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
Found at i:68515380 original size:22 final size:20
Alignment explanation
Indices: 68515355--68515403 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 20
68515345 GTTATGTAAG
*
68515355 TTTGATGATTTTGGCATATTGA
1 TTTGATG-TTTTGGC-TATGGA
68515377 TTTGGTATGTTTTGGCTATGGA
1 TTT-G-ATGTTTTGGCTATGGA
68515399 TTTGA
1 TTTGA
68515404 GTAGTTAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
20 1 0.04
21 1 0.04
22 11 0.46
23 8 0.33
24 3 0.12
ACGTcount: A:0.18, C:0.04, G:0.27, T:0.51
Consensus pattern (20 bp):
TTTGATGTTTTGGCTATGGA
Found at i:68518283 original size:3 final size:3
Alignment explanation
Indices: 68518275--68518314 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
68518265 ATTTTGTCAC
* *
68518275 TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT TGT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
68518315 TATTTTTTTC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:68532930 original size:31 final size:31
Alignment explanation
Indices: 68532890--68532955 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
68532880 AACCCTTCCT
*
68532890 GCATTAAATCCAACCAAAAACAACAAATATA
1 GCATGAAATCCAACCAAAAACAACAAATATA
* *
68532921 GCATGAAATCCAGCCAAAAACAACAAATGTA
1 GCATGAAATCCAACCAAAAACAACAAATATA
68532952 GCAT
1 GCAT
68532956 AAAAAATACA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.53, C:0.23, G:0.09, T:0.15
Consensus pattern (31 bp):
GCATGAAATCCAACCAAAAACAACAAATATA
Found at i:68533164 original size:21 final size:21
Alignment explanation
Indices: 68533140--68533183 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
68533130 TCTGCTGCCA
68533140 TCGCTGCTACCACTGCCTCCC
1 TCGCTGCTACCACTGCCTCCC
* *
68533161 TCGCTGCTGCCGCTGCCTCCC
1 TCGCTGCTACCACTGCCTCCC
68533182 TC
1 TC
68533184 TCTACTGCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.05, C:0.52, G:0.18, T:0.25
Consensus pattern (21 bp):
TCGCTGCTACCACTGCCTCCC
Found at i:68533191 original size:21 final size:21
Alignment explanation
Indices: 68533152--68533192 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
68533142 GCTGCTACCA
*
68533152 CTGCCTCCCTCGCTGCTGCCG
1 CTGCCTCCCTCGCTACTGCCG
*
68533173 CTGCCTCCCTCTCTACTGCC
1 CTGCCTCCCTCGCTACTGCC
68533193 TCCGCTCTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.02, C:0.54, G:0.17, T:0.27
Consensus pattern (21 bp):
CTGCCTCCCTCGCTACTGCCG
Found at i:68533630 original size:13 final size:14
Alignment explanation
Indices: 68533604--68533632 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
68533594 AGTAATGACG
68533604 AATTAAACCATTAT
1 AATTAAACCATTAT
68533618 AATTAAA-CATTAT
1 AATTAAACCATTAT
68533631 AA
1 AA
68533633 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:68538722 original size:9 final size:9
Alignment explanation
Indices: 68538690--68539113 Score: 114
Period size: 9 Copynumber: 46.7 Consensus size: 9
68538680 TAAGTATAAT
68538690 TAAGTTATG
1 TAAGTTATG
*
68538699 TAAGTCAT-
1 TAAGTTATG
*
68538707 TTA-TTATG
1 TAAGTTATG
68538715 TAAGTTATG
1 TAAGTTATG
68538724 T-A-TTATG
1 TAAGTTATG
68538731 TAAGTTATG
1 TAAGTTATG
*
68538740 TAAATTATG
1 TAAGTTATG
68538749 TAAGTTATG
1 TAAGTTATG
* *
68538758 -AATTTTGATCTT
1 TAA-GTT-A--TG
*
68538770 TAAATTATG
1 TAAGTTATG
68538779 TAAGTTATG
1 TAAGTTATG
68538788 T-A-TTATG
1 TAAGTTATG
68538795 TAAGTTATG
1 TAAGTTATG
* * *
68538804 AAATTTGATCTT
1 TAAGTT-A--TG
*
68538816 TAAATTATTATG
1 T-AA--GTTATG
68538828 TAAGTTATG
1 TAAGTTATG
*
68538837 TAAATTATG
1 TAAGTTATG
*
68538846 TAACTTATG
1 TAAGTTATG
* * *
68538855 AAATTTGATCTT
1 TAAGTT-A--TG
*
68538867 TAAATTATG
1 TAAGTTATG
68538876 TAAGTTATG
1 TAAGTTATG
*
68538885 -AAATT-TG
1 TAAGTTATG
* **
68538892 -AACTTTAAA
1 TAA-GTTATG
*
68538901 TTA-TTATG
1 TAAGTTATG
68538909 TAAGTTATG
1 TAAGTTATG
*
68538918 TAAATTATG
1 TAAGTTATG
*
68538927 TAACTTATG
1 TAAGTTATG
* * *
68538936 -AGATTTGGTCTT
1 TA-A---GTTATG
*
68538948 TAAATTATG
1 TAAGTTATG
68538957 TAAGTTATG
1 TAAGTTATG
*
68538966 T-A-TCATG
1 TAAGTTATG
68538973 TAAGTTATG
1 TAAGTTATG
* * *
68538982 AAATTTGATCTT
1 TAAGTT-A--TG
*
68538994 TAAATTATG
1 TAAGTTATG
*
68539003 TAAGTCATG
1 TAAGTTATG
68539012 T-A-TTATG
1 TAAGTTATG
*
68539019 TAAGCTATG
1 TAAGTTATG
68539028 T-A-TTATG
1 TAAGTTATG
*
68539035 TAAATTATG
1 TAAGTTATG
68539044 TAAGTTATG
1 TAAGTTATG
* * *
68539053 AAATTTGAACTT
1 TAAGTT--A-TG
*
68539065 TAAATTATG
1 TAAGTTATG
68539074 TAAGTTATG
1 TAAGTTATG
68539083 T-A-TTATG
1 TAAGTTATG
*
68539090 TAAATTATG
1 TAAGTTATG
*
68539099 TAAATTATG
1 TAAGTTATG
*
68539108 TGAGTT
1 TAAGTT
68539114 GCTGGTGAAC
Statistics
Matches: 303, Mismatches: 69, Indels: 86
0.66 0.15 0.19
Matches are distributed among these distances:
7 40 0.13
8 30 0.10
9 189 0.62
10 6 0.02
11 6 0.02
12 24 0.08
13 5 0.02
14 1 0.00
15 2 0.01
ACGTcount: A:0.35, C:0.03, G:0.15, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:68538774 original size:30 final size:30
Alignment explanation
Indices: 68538740--68538904 Score: 107
Period size: 30 Copynumber: 5.3 Consensus size: 30
68538730 GTAAGTTATG
68538740 TAAATTATGTAAGTTATGAATTTTGATCTT
1 TAAATTATGTAAGTTATGAATTTTGATCTT
* * **
68538770 TAAATTATGTAAGTTATGTATTATGTAAGTT
1 TAAATTATGTAAGTTATGAATTTTG-ATCTT
* * * ** * * *
68538801 ATGAAATTTGATCTTTAAATTAT-TATGTAAGTTATG
1 -T-AAA-TT-A--TGTAAGTTATGAAT-TTTGATCTT
* *
68538837 TAAATTATGTAACTTATGAAATTTGATCTT
1 TAAATTATGTAAGTTATGAATTTTGATCTT
* *
68538867 TAAATTATGTAAGTTATGAAATTTGAACTT
1 TAAATTATGTAAGTTATGAATTTTGATCTT
68538897 TAAATTAT
1 TAAATTAT
68538905 TATGTAAGTT
Statistics
Matches: 104, Mismatches: 22, Indels: 18
0.72 0.15 0.12
Matches are distributed among these distances:
30 71 0.68
31 4 0.04
32 2 0.02
33 5 0.05
34 5 0.05
35 2 0.02
36 4 0.04
37 11 0.11
ACGTcount: A:0.37, C:0.03, G:0.13, T:0.47
Consensus pattern (30 bp):
TAAATTATGTAAGTTATGAATTTTGATCTT
Found at i:68538800 original size:16 final size:16
Alignment explanation
Indices: 68538694--68539100 Score: 130
Period size: 16 Copynumber: 25.0 Consensus size: 16
68538684 TATAATTAAG
* *
68538694 TTATGTAAGTCATTTA
1 TTATGTAAGTTATGTA
68538710 TTATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
68538726 TTATGTAAGTTATGTAAA
1 TTATGTAAGTTATGT--A
*
68538744 TTATGTAAGTTATGAA
1 TTATGTAAGTTATGTA
* ** **
68538760 TTTTG-ATCTT-TAAA
1 TTATGTAAGTTATGTA
68538774 TTATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
*
68538790 TTATGTAAGTTATGAAA
1 TTATGTAAGTTATG-TA
**
68538807 TT-TG-ATCTTTAAAT-TA
1 TTATGTA-AGTT--ATGTA
68538823 TTATGTAAGTTATGTAAA
1 TTATGTAAGTTATGT--A
* *
68538841 TTATGTAACTTATGAAA
1 TTATGTAAGTTATG-TA
** **
68538858 TT-TG-ATCTT-TAAA
1 TTATGTAAGTTATGTA
*
68538871 TTATGTAAGTTATGAAA
1 TTATGTAAGTTATG-TA
*
68538888 TT-TG-AACTTTAAAT-TA
1 TTATGTAA-GTT--ATGTA
68538904 TTATGTAAGTTATGTAAA
1 TTATGTAAGTTATGT--A
* *
68538922 TTATGTAACTTATGAGA
1 TTATGTAAGTTATG-TA
* **
68538939 TT-TG---GTCTTTAAA
1 TTATGTAAGT-TATGTA
68538952 TTATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
* *
68538968 TCATGTAAGTTATGAAA
1 TTATGTAAGTTATG-TA
** **
68538985 TT-TG-ATCTT-TAAA
1 TTATGTAAGTTATGTA
*
68538998 TTATGTAAGTCATGTA
1 TTATGTAAGTTATGTA
*
68539014 TTATGTAAGCTATGTA
1 TTATGTAAGTTATGTA
*
68539030 TTATGTAAATTATGTAA
1 TTATGTAAGTTATGT-A
* * *
68539047 GTTATGAAATTTGAACTTTAAA
1 -TTATGTAAGTT--A-TGT--A
68539069 TTATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
*
68539085 TTATGTAAATTATGTA
1 TTATGTAAGTTATGTA
68539101 AATTATGTGA
Statistics
Matches: 290, Mismatches: 59, Indels: 84
0.67 0.14 0.19
Matches are distributed among these distances:
13 12 0.04
14 17 0.06
15 25 0.09
16 134 0.46
17 26 0.09
18 61 0.21
19 1 0.00
20 1 0.00
21 11 0.04
22 2 0.01
ACGTcount: A:0.35, C:0.03, G:0.15, T:0.47
Consensus pattern (16 bp):
TTATGTAAGTTATGTA
Found at i:68538884 original size:81 final size:81
Alignment explanation
Indices: 68538789--68539104 Score: 330
Period size: 81 Copynumber: 3.9 Consensus size: 81
68538779 TAAGTTATGT
*
68538789 ATTATGTAAGTTATGAAATTTGATCTTTAAATTATTATGTAAGTTATGTAAATTATGTAACTTAT
1 ATTATGTAAGTTATGAAATTTGAACTTTAAATTATTATGTAAGTTATGTAAATTATGTAACTTAT
68538854 GAAATTTGATCTTTAA
66 GAAATTTGATCTTTAA
68538870 ATTATGTAAGTTATGAAATTTGAACTTTAAATTATTATGTAAGTTATGTAAATTATGTAACTTAT
1 ATTATGTAAGTTATGAAATTTGAACTTTAAATTATTATGTAAGTTATGTAAATTATGTAACTTAT
* *
68538935 GAGATTTGGTCTTTAA
66 GAAATTTGATCTTTAA
* * * * * *
68538951 ATTATGTAAGTTATG-TATCATGTAAGTTATGAAATTTGATCT-T-TAAATTATGTAAGTCATGT
1 ATTATGTAAGTTATGAAAT-TTG-AACTT-T-AAA-TT-AT-TATGTAAGTTATGTAAATTATGT
* *
68539013 -A-TTATGTAAGCTATGTAT-TATGTAA
59 AACTTATG-AA-ATTTG-ATCT-T-TAA
*
68539038 ATTATGTAAGTTATGAAATTTGAACTTT-AA--ATTATGTAAGTTATGT--ATTATGTAAATTAT
1 ATTATGTAAGTTATGAAATTTGAACTTTAAATTATTATGTAAGTTATGTAAATTATGTAACTTAT
68539098 GTAAATT
66 G-AAATT
68539105 ATGTGAGTTG
Statistics
Matches: 197, Mismatches: 21, Indels: 36
0.78 0.08 0.14
Matches are distributed among these distances:
78 6 0.03
79 5 0.03
80 19 0.10
81 95 0.48
82 4 0.02
83 8 0.04
84 5 0.03
85 23 0.12
86 9 0.05
87 21 0.11
88 2 0.01
ACGTcount: A:0.36, C:0.03, G:0.14, T:0.46
Consensus pattern (81 bp):
ATTATGTAAGTTATGAAATTTGAACTTTAAATTATTATGTAAGTTATGTAAATTATGTAACTTAT
GAAATTTGATCTTTAA
Found at i:68539099 original size:71 final size:70
Alignment explanation
Indices: 68538948--68539100 Score: 227
Period size: 71 Copynumber: 2.2 Consensus size: 70
68538938 ATTTGGTCTT
*
68538948 TAAATTATGTAAGTTATGTATCATGTAAGTTATGAAATTTGATCTTTAAATTATGTAAGTCATGT
1 TAAATTATGT-AGTTATGTATCATGTAAGTTATGAAATTTGAACTTTAAATTATGTAAGTCATGT
68539013 ATTATG
65 ATTATG
** * *
68539019 TAAGCTATGTA-TTATGTAAATTATGTAAGTTATGAAATTTGAACTTTAAATTATGTAAGTTATG
1 TAAATTATGTAGTTATGT--ATCATGTAAGTTATGAAATTTGAACTTTAAATTATGTAAGTCATG
68539083 TATTATG
64 TATTATG
68539090 TAAATTATGTA
1 TAAATTATGTA
68539101 AATTATGTGA
Statistics
Matches: 73, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
69 6 0.08
70 1 0.01
71 66 0.90
ACGTcount: A:0.37, C:0.03, G:0.15, T:0.45
Consensus pattern (70 bp):
TAAATTATGTAGTTATGTATCATGTAAGTTATGAAATTTGAACTTTAAATTATGTAAGTCATGTA
TTATG
Found at i:68540616 original size:14 final size:15
Alignment explanation
Indices: 68540594--68540625 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
68540584 TTAGTATATA
68540594 ATATAATTTTACTTC
1 ATATAATTTTACTTC
68540609 ATAT-ATTTTACTTC
1 ATATAATTTTACTTC
68540623 ATA
1 ATA
68540626 ATTATTATAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.34, C:0.12, G:0.00, T:0.53
Consensus pattern (15 bp):
ATATAATTTTACTTC
Found at i:68540773 original size:18 final size:18
Alignment explanation
Indices: 68540750--68540786 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
68540740 AAATACTATG
68540750 ATATATTAATTTGGTAAC
1 ATATATTAATTTGGTAAC
68540768 ATATATTAATTTGGTAAC
1 ATATATTAATTTGGTAAC
68540786 A
1 A
68540787 GGTAATCGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.41, C:0.05, G:0.11, T:0.43
Consensus pattern (18 bp):
ATATATTAATTTGGTAAC
Found at i:68542780 original size:37 final size:37
Alignment explanation
Indices: 68542727--68542810 Score: 114
Period size: 37 Copynumber: 2.3 Consensus size: 37
68542717 CTATGCAGCA
* * * * *
68542727 GATGCACGGGGCGAAGGCGATGGAGGGGATGGTTTGC
1 GATGCATGGGGAGAAGGCGACGGAGGAGATGGGTTGC
68542764 GATGCATGGGGAGAAGGCGACGGAGGAGATGGGTTGC
1 GATGCATGGGGAGAAGGCGACGGAGGAGATGGGTTGC
*
68542801 AATGCATGGG
1 GATGCATGGG
68542811 AGATTTGGGG
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.23, C:0.12, G:0.50, T:0.15
Consensus pattern (37 bp):
GATGCATGGGGAGAAGGCGACGGAGGAGATGGGTTGC
Found at i:68543661 original size:15 final size:15
Alignment explanation
Indices: 68543638--68543669 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
68543628 AAATAATAAT
68543638 TTATATATATTTATC
1 TTATATATATTTATC
*
68543653 TTATTTATATTTATC
1 TTATATATATTTATC
68543668 TT
1 TT
68543670 CTAAATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (15 bp):
TTATATATATTTATC
Found at i:68544768 original size:105 final size:105
Alignment explanation
Indices: 68544583--68544771 Score: 288
Period size: 105 Copynumber: 1.8 Consensus size: 105
68544573 CTCTATAGCC
* * * * * *
68544583 ACTTTTGCGGTGTTTTTATAGAGGCACCGCTAATTCTTATATATTGCGGCGTTTTTAGTAAAACG
1 ACTTTTGCGGCGTTTTTAAAGAAGCACCGCTAATTCTGATATATTGCGGCGTTTTAAGTAAAACA
68544648 CCACTAATGCCTCTATAGCTACATCATCGTTTCTCTCAAG
66 CCACTAATGCCTCTATAGCTACATCATCGTTTCTCTCAAG
* * *
68544688 ACTTTTGCGGCGTTTTTAAAGAAGCGCCGCTAATTCTGATATATTGCGGTGTTTTAAGTGAAACA
1 ACTTTTGCGGCGTTTTTAAAGAAGCACCGCTAATTCTGATATATTGCGGCGTTTTAAGTAAAACA
*
68544753 CCACTAATGCTTCTATAGC
66 CCACTAATGCCTCTATAGC
68544772 GCATTAACAT
Statistics
Matches: 74, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
105 74 1.00
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.36
Consensus pattern (105 bp):
ACTTTTGCGGCGTTTTTAAAGAAGCACCGCTAATTCTGATATATTGCGGCGTTTTAAGTAAAACA
CCACTAATGCCTCTATAGCTACATCATCGTTTCTCTCAAG
Found at i:68545131 original size:44 final size:44
Alignment explanation
Indices: 68544976--68545644 Score: 367
Period size: 44 Copynumber: 14.5 Consensus size: 44
68544966 TCTTATAGTG
* * * * * *
68544976 TCTCCCTGAAGTTGCAGTGGAGAAGATTGAAGATGCAAATCTTA
1 TCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCTACAAAACTTA
* * * *
68545020 TTTCCTTAAAGTTACAGTGGAACAGATTAAAGCTACAAGTAGAAAATCTTA
1 TCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCTAC------AAAA-CTTA
* * * *
68545071 TCTCTCTGAAAGTTGCAGTAGAGCAGATTGAATCTACAAAACTTA
1 TCTCCCT-AAAGTTGCAGTGGAGCAGATTAAAGCTACAAAACTTA
** *
68545116 TCTCCCTAAAGTTGCAGTGGAGCAGATTGTAGATAGCAAATA-TTA
1 TCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCTA-CAAA-ACTTA
* * * * *
68545161 TCTCTCTAAAGTTGTAATAGAGCAGATTAAATCTACAAAACTTA
1 TCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCTACAAAACTTA
* * * *
68545205 ACTCCCTAAAGTTGCAGTGGAGCATATTAAAGCCACAAATCTTA
1 TCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCTACAAAACTTA
* * * * *
68545249 TCTCCCTGAAGTTGCAGTGGAGCATATTAAAGGTAGCGAATCTTA
1 TCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCTA-CAAAACTTA
* * ** ** *
68545294 TTTCCCTGAAGTTATAGTGGAATAGATTAAAGCTATAAGTTACAAATCTTA
1 TCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGC-------TACAAAACTTA
* * * * * *
68545345 TCTCCCTAAAGATGCAGTAGAGCAGATTGAAGATAGCGAATCTTA
1 TCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCTA-CAAAACTTA
* * * * * *
68545390 TTTCCCTGAAGTTGCAATGGAACATATTAAAGCTACAAGTTACATATCCTA
1 TCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCTAC-A---A-A-A-CTTA
* * ** * *
68545441 TCTCCTTGAACATGCAATGGAGCAGATTAAAG----AGAACTTA
1 TCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCTACAAAACTTA
* ** * * * *
68545481 TCTCCCTGAAGTTGCAGTGGAGTGGGTTGAAGCTACAAATCTCA
1 TCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCTACAAAACTTA
* * *
68545525 TCTCCCTAAAGTTGTAGTGGAGCAGATTAAAGATAGCAAATCTTA
1 TCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCTA-CAAAACTTA
* * * *
68545570 TTTCCCTGAAGTTACAGTGGAACAGATTAAAGCTACAAGTTACAAATCTTA
1 TCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCTAC-----A-AAA-CTTA
68545621 TCTCCCTAAAGTTGCAGTGGAGCA
1 TCTCCCTAAAGTTGCAGTGGAGCA
68545645 AATTGAGGCG
Statistics
Matches: 472, Mismatches: 114, Indels: 71
0.72 0.17 0.11
Matches are distributed among these distances:
40 27 0.06
41 1 0.00
42 1 0.00
43 1 0.00
44 161 0.34
45 149 0.32
46 6 0.01
48 1 0.00
49 2 0.00
50 5 0.01
51 92 0.19
52 26 0.06
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (44 bp):
TCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCTACAAAACTTA
Found at i:68545182 original size:89 final size:90
Alignment explanation
Indices: 68545063--68545228 Score: 280
Period size: 89 Copynumber: 1.9 Consensus size: 90
68545053 TACAAGTAGA
* * * *
68545063 AAATCTTATCTCTCTGAAAGTTGCAGTAGAGCAGATTGAATCTACAAAACTTATCTCCCTAAAGT
1 AAATATTATCTCTCTGAAAGTTGCAATAGAGCAGATTAAATCTACAAAACTTAACTCCCTAAAGT
68545128 TGCAGTGGAGCAGATTGTAGATAGC
66 TGCAGTGGAGCAGATTGTAGATAGC
*
68545153 AAATATTATCTCTCT-AAAGTTGTAATAGAGCAGATTAAATCTACAAAACTTAACTCCCTAAAGT
1 AAATATTATCTCTCTGAAAGTTGCAATAGAGCAGATTAAATCTACAAAACTTAACTCCCTAAAGT
68545217 TGCAGTGGAGCA
66 TGCAGTGGAGCA
68545229 TATTAAAGCC
Statistics
Matches: 71, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
89 57 0.80
90 14 0.20
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.29
Consensus pattern (90 bp):
AAATATTATCTCTCTGAAAGTTGCAATAGAGCAGATTAAATCTACAAAACTTAACTCCCTAAAGT
TGCAGTGGAGCAGATTGTAGATAGC
Found at i:68545368 original size:96 final size:96
Alignment explanation
Indices: 68544976--68545644 Score: 534
Period size: 96 Copynumber: 7.2 Consensus size: 96
68544966 TCTTATAGTG
* * * * * *
68544976 TCTCCCTGAAGTTGCAGTGGAGAAGATTGAAGAT-GCAAATCTTATTTCCTTAAAGTTACAGTGG
1 TCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGATAGCGAATCTTATTTCCCTGAAGTTACAGTGG
*
68545040 AACAGATTAAAGCTACAAG-TAGAAAATCTTA
66 AACAGATTAAAGCTACAAGTTA-CAAATCTTA
* * * ** * * * * *
68545071 TCTCTCTGAAAGTTGCAGTAGAGCAGATTGAATCTA-CAAAACTTATCTCCCTAAAGTTGCAGTG
1 TCTCCCT-AAAGTTGCAGTGGAGCAGATTAAAGATAGCGAATCTTATTTCCCTGAAGTTACAGTG
* * *
68545135 GAGCAGATT---G-T---AGATAGCAAATATTA
65 GAACAGATTAAAGCTACAAGTTA-CAAATCTTA
* * * * ** * * ** * *
68545161 TCTCTCTAAAGTTGTAATAGAGCAGATTAAATCTA-CAAAACTTAACTCCCTAAAGTTGCAGTGG
1 TCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGATAGCGAATCTTATTTCCCTGAAGTTACAGTGG
* *
68545225 AGCATATTAAAGC--C-----ACAAATCTTA
66 AACAGATTAAAGCTACAAGTTACAAATCTTA
* * * *
68545249 TCTCCCTGAAGTTGCAGTGGAGCATATTAAAGGTAGCGAATCTTATTTCCCTGAAGTTATAGTGG
1 TCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGATAGCGAATCTTATTTCCCTGAAGTTACAGTGG
* *
68545314 AATAGATTAAAGCTATAAGTTACAAATCTTA
66 AACAGATTAAAGCTACAAGTTACAAATCTTA
* * * * *
68545345 TCTCCCTAAAGATGCAGTAGAGCAGATTGAAGATAGCGAATCTTATTTCCCTGAAGTTGCAATGG
1 TCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGATAGCGAATCTTATTTCCCTGAAGTTACAGTGG
* * *
68545410 AACATATTAAAGCTACAAGTTACATATCCTA
66 AACAGATTAAAGCTACAAGTTACAAATCTTA
* * ** * * *
68545441 TCTCCTTGAACATGCAATGGAGCAGATTAAAG--A--GAA-CTTATCTCCCTGAAGTTGCAGTGG
1 TCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGATAGCGAATCTTATTTCCCTGAAGTTACAGTGG
* * ** * *
68545501 ---AG--T--GGGTTGAAGCTACAAATCTCA
66 AACAGATTAAAGCTACAAGTTACAAATCTTA
* *
68545525 TCTCCCTAAAGTTGTAGTGGAGCAGATTAAAGATAGCAAATCTTATTTCCCTGAAGTTACAGTGG
1 TCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGATAGCGAATCTTATTTCCCTGAAGTTACAGTGG
68545590 AACAGATTAAAGCTACAAGTTACAAATCTTA
66 AACAGATTAAAGCTACAAGTTACAAATCTTA
68545621 TCTCCCTAAAGTTGCAGTGGAGCA
1 TCTCCCTAAAGTTGCAGTGGAGCA
68545645 AATTGAGGCG
Statistics
Matches: 461, Mismatches: 85, Indels: 55
0.77 0.14 0.09
Matches are distributed among these distances:
84 39 0.08
86 2 0.00
88 38 0.08
89 117 0.25
90 17 0.04
91 22 0.05
92 7 0.02
93 1 0.00
94 2 0.00
95 6 0.01
96 210 0.46
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (96 bp):
TCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGATAGCGAATCTTATTTCCCTGAAGTTACAGTGG
AACAGATTAAAGCTACAAGTTACAAATCTTA
Found at i:68545372 original size:51 final size:51
Alignment explanation
Indices: 68545239--68545472 Score: 150
Period size: 45 Copynumber: 4.8 Consensus size: 51
68545229 TATTAAAGCC
* * * *
68545239 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCATATTAAAG--GT-AG--
1 ACAAATCTTATCTCCCTGAAGATGCAATGGAGCAGATTAAAGCTATAAGTT
* * * ** * **
68545285 -CGAATCTTATTTCCCTGAAGTTATAGTGGAATAGATTAAAGCTATAAGTT
1 ACAAATCTTATCTCCCTGAAGATGCAATGGAGCAGATTAAAGCTATAAGTT
* * * *
68545335 ACAAATCTTATCTCCCTAAAGATGCAGTAGAGCAGATTGAAG--AT-AG--
1 ACAAATCTTATCTCCCTGAAGATGCAATGGAGCAGATTAAAGCTATAAGTT
* * * * * *
68545381 -CGAATCTTATTTCCCTGAAGTTGCAATGGAACATATTAAAGCTACAAGTT
1 ACAAATCTTATCTCCCTGAAGATGCAATGGAGCAGATTAAAGCTATAAGTT
* * * *
68545431 ACATATCCTATCTCCTTGAACATGCAATGGAGCAGATTAAAG
1 ACAAATCTTATCTCCCTGAAGATGCAATGGAGCAGATTAAAG
68545473 AGAACTTATC
Statistics
Matches: 139, Mismatches: 37, Indels: 19
0.71 0.19 0.10
Matches are distributed among these distances:
45 66 0.47
47 2 0.01
48 6 0.04
49 2 0.01
51 63 0.45
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.29
Consensus pattern (51 bp):
ACAAATCTTATCTCCCTGAAGATGCAATGGAGCAGATTAAAGCTATAAGTT
Found at i:68545569 original size:276 final size:271
Alignment explanation
Indices: 68544976--68545650 Score: 786
Period size: 276 Copynumber: 2.5 Consensus size: 271
68544966 TCTTATAGTG
* * * *
68544976 TCTCCCTGAAGTTGCAGTGGAGAAGATTGAAGAT-GCAAATCTTATTTCCTTAAAGTTACAGTGG
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGCAAATCTTATTTCCCTGAAGTTACAGTGG
* * *
68545040 AACAGATTAAAGCTACAAG-TAGAAAATCTTATCTCTCTGAAAGTTGCAGTAGAGCAGATTGAAT
66 AACAGATTAAAGCTACAAGTTA-CAAATCTTATCTCCCT-AAAGTTGCAGTAGAGCAGATTGAAG
* * * *
68545104 CTACAAAACTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGTAGATAGCAAATATTATCTCTCTA
129 ATACAAAACTTATCTCCCTAAAGTTGCAATGGAACAGATTGTACATAGCAAATATTATCTCTCTA
** * *
68545169 AAGTTGTAATAGAGCAGATTAAATCTACAAAACTTAACTCCCTAAAGTTGCAGTGGAGCATATTA
194 AACATGCAATAGAGCAGATTAAA--TACAAAACTTAACTCCCTAAAGTTGCAGTGGAGCAGATTA
*
68545234 AAGCCACAAATCTTA
257 AAGCCACAAATCTCA
* * * *
68545249 TCTCCCTGAAGTTGCAGTGGAGCATATTAAAGGTAGCGAATCTTATTTCCCTGAAGTTATAGTGG
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGCAAATCTTATTTCCCTGAAGTTACAGTGG
* * *
68545314 AATAGATTAAAGCTATAAGTTACAAATCTTATCTCCCTAAAGATGCAGTAGAGCAGATTGAAGAT
66 AACAGATTAAAGCTACAAGTTACAAATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTGAAGAT
* * * * * * *
68545379 AGCGAATCTTATTTCCCTGAAGTTGCAATGGAACATATTAAAGCTACA-AGTTACATATCCTATC
131 A-CAAAACTTATCTCCCTAAAGTTGCAATGGAACAGATT---G-TACATAG-CAAATAT--TATC
* * * * * * **
68545443 TC-CTTGAACATGCAATGGAGCAGATT-AA-AGAGAACTTATCTCCCTGAAGTTGCAGTGGAGTG
188 TCTC-TAAACATGCAATAGAGCAGATTAAATACAAAACTTAACTCCCTAAAGTTGCAGTGGAGCA
* * *
68545505 GGTTGAAGCTACAAATCTCA
252 GATTAAAGCCACAAATCTCA
* *
68545525 TCTCCCTAAAGTTGTAGTGGAGCAGATTAAAGATAGCAAATCTTATTTCCCTGAAGTTACAGTGG
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGCAAATCTTATTTCCCTGAAGTTACAGTGG
* *
68545590 AACAGATTAAAGCTACAAGTTACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAAATTGA
66 AACAGATTAAAGCTACAAGTTACAAATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTGA
68545651 GGCGACAAGT
Statistics
Matches: 339, Mismatches: 52, Indels: 19
0.83 0.13 0.05
Matches are distributed among these distances:
273 55 0.16
274 87 0.26
275 2 0.01
276 158 0.47
277 3 0.01
278 8 0.02
279 3 0.01
280 23 0.07
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (271 bp):
TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGCAAATCTTATTTCCCTGAAGTTACAGTGG
AACAGATTAAAGCTACAAGTTACAAATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTGAAGAT
ACAAAACTTATCTCCCTAAAGTTGCAATGGAACAGATTGTACATAGCAAATATTATCTCTCTAAA
CATGCAATAGAGCAGATTAAATACAAAACTTAACTCCCTAAAGTTGCAGTGGAGCAGATTAAAGC
CACAAATCTCA
Found at i:68545639 original size:51 final size:50
Alignment explanation
Indices: 68545514--68545797 Score: 162
Period size: 51 Copynumber: 5.9 Consensus size: 50
68545504 GGGTTGAAGC
* * * *
68545514 TACAAATCTCATCTCCCTAAAGTTGTAGTGGAGCAGATTAAAG--A-TAG
1 TACAAATCTTATCTCCCTAAAGTTGCAGTGGAACAGATTAAAGCTACAAG
* * *
68545561 --CAAATCTTATTTCCCTGAAGTTACAGTGGAACAGATTAAAGCTACAAG
1 TACAAATCTTATCTCCCTAAAGTTGCAGTGGAACAGATTAAAGCTACAAG
* * * * *
68545609 TTACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAAATTGAGGCGACAAG
1 -TACAAATCTTATCTCCCTAAAGTTGCAGTGGAACAGATTAAAGCTACAAG
* * * * * * *
68545660 T-C----C-TATAC-CTCTGAGGTTGCAGTGGATCGGATTAAATCTACCA-
1 TACAAATCTTAT-CTCCCTAAAGTTGCAGTGGAACAGATTAAAGCTACAAG
* * * * * *
68545703 TAACAAGTCTTATCTCCCTAAAGTTGTAGTGGAATATACTAAAGTTACAAG
1 T-ACAAATCTTATCTCCCTAAAGTTGCAGTGGAACAGATTAAAGCTACAAG
* * * * * *
68545754 CTACAAGTCTTATCTCCTTGAAGTTGTAGTGGAATAGGTTAAAG
1 -TACAAATCTTATCTCCCTAAAGTTGCAGTGGAACAGATTAAAG
68545798 ATACGAATAT
Statistics
Matches: 177, Mismatches: 43, Indels: 30
0.71 0.17 0.12
Matches are distributed among these distances:
43 1 0.01
44 27 0.15
45 38 0.21
47 1 0.01
48 2 0.01
49 3 0.02
50 27 0.15
51 77 0.44
52 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.29
Consensus pattern (50 bp):
TACAAATCTTATCTCCCTAAAGTTGCAGTGGAACAGATTAAAGCTACAAG
Found at i:68550306 original size:4 final size:4
Alignment explanation
Indices: 68550297--68550347 Score: 57
Period size: 4 Copynumber: 12.8 Consensus size: 4
68550287 TTTATTTTCC
* ** * *
68550297 TTAT TTAT TTAT TTAT TTAT TTAT ATAT TTAT ACAT TTAT CTAT TTTT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT
68550345 TTA
1 TTA
68550348 GTTTTATGTT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (4 bp):
TTAT
Found at i:68556055 original size:112 final size:111
Alignment explanation
Indices: 68555834--68556169 Score: 421
Period size: 112 Copynumber: 3.0 Consensus size: 111
68555824 TTTTGCACCA
*
68555834 CTTCTGTCCCCAGCACCATAATACATGCCAATGCCAATAACAACA--ATAT-ATCCACCACCTT-
1 CTTCTGTCCCCAGCACCATAATACATGCCAATGCCAACAACAACACCA-ATGATCCACCA-CTTC
*
68555895 TGACAATTCTCACATTTTATCCGCAATCGGGCTATGCAAAACCATATG
64 TGACAATTCTCACATTTTATCCGCAATCAGGCTATGCAAAACCATATG
* * *
68555943 CTTCTGTCCCCATCACCATAATACTTGCCAATGCCAACAACAACACCAATGCATCCAACACTTCT
1 CTTCTGTCCCCAGCACCATAATACATGCCAATGCCAACAACAACACCAATG-ATCCACCACTTCT
** *
68556008 GACAATTCTCACATTTTATTTGCAAAT-AGGTTATGCAAAACCATATG
65 GACAATTCTCACATTTTATCCGC-AATCAGGCTATGCAAAACCATATG
* * * * *
68556055 CTTCTGTCCCCAGCACCATAATACATGTCAATCCCAAGAACAACACCAATGTATCCGCCACCTCT
1 CTTCTGTCCCCAGCACCATAATACATGCCAATGCCAACAACAACACCAATG-ATCCACCACTTCT
* * * * * *
68556120 AACAATTCTCACATTTTATCCACAACCGGGTTATGCAACACCATATG
65 GACAATTCTCACATTTTATCCGCAATCAGGCTATGCAAAACCATATG
68556167 CTT
1 CTT
68556170 ATCCATTGAT
Statistics
Matches: 196, Mismatches: 24, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
109 42 0.21
110 2 0.01
111 6 0.03
112 143 0.73
113 3 0.02
ACGTcount: A:0.33, C:0.32, G:0.10, T:0.26
Consensus pattern (111 bp):
CTTCTGTCCCCAGCACCATAATACATGCCAATGCCAACAACAACACCAATGATCCACCACTTCTG
ACAATTCTCACATTTTATCCGCAATCAGGCTATGCAAAACCATATG
Found at i:68557453 original size:236 final size:236
Alignment explanation
Indices: 68557040--68557513 Score: 930
Period size: 236 Copynumber: 2.0 Consensus size: 236
68557030 TAGCGTGAGC
68557040 TCGACAGTGTGATAATATCTCCGGCGAACTCCAACCCGAGCAGGTAACCGAAGTCAACAATCTAT
1 TCGACAGTGTGATAATATCTCCGGCGAACTCCAACCCGAGCAGGTAACCGAAGTCAACAATCTAT
68557105 AAAACAGAGGAATGTAACAACGGAGTAAGCTTTCATAAGCTTAGTAAGTCTTAAGCAATGCAAAC
66 AAAACAGAGGAATGTAACAACGGAGTAAGCTTTCATAAGCTTAGTAAGTCTTAAGCAATGCAAAC
68557170 AAATAAACGCAATTATACTTCGATTATTCAATTTCTTAAGTGGCCATATTTTAGGTATATTGCCA
131 AAATAAACGCAATTATACTTCGATTATTCAATTTCTTAAGTGGCCATATTTTAGGTATATTGCCA
*
68557235 TCTGGCCGAATACACACAAACACATAATGCACGTTCAGCAT
196 TCTGGCCGAATACACACAAACACATAATACACGTTCAGCAT
68557276 TCGACAGTGTGATAATATCTCCGGCGAACTCCAACCCGAGCAGGTAACCGAAGTCAACAATCTAT
1 TCGACAGTGTGATAATATCTCCGGCGAACTCCAACCCGAGCAGGTAACCGAAGTCAACAATCTAT
*
68557341 AAAACAGAGGAATGTAACAACGGAGTAAGCTTTCATAAGCTTAGTAAGTCTTAAGCAATGTAAAC
66 AAAACAGAGGAATGTAACAACGGAGTAAGCTTTCATAAGCTTAGTAAGTCTTAAGCAATGCAAAC
68557406 AAATAAACGCAATTATACTTCGATTATTCAATTTCTTAAGTGGCCATATTTTAGGTATATTGCCA
131 AAATAAACGCAATTATACTTCGATTATTCAATTTCTTAAGTGGCCATATTTTAGGTATATTGCCA
68557471 TCTGGCCGAATACACACAAACACATAATACACGTTCAGCAT
196 TCTGGCCGAATACACACAAACACATAATACACGTTCAGCAT
68557512 TC
1 TC
68557514 TTATCACACT
Statistics
Matches: 236, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
236 236 1.00
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (236 bp):
TCGACAGTGTGATAATATCTCCGGCGAACTCCAACCCGAGCAGGTAACCGAAGTCAACAATCTAT
AAAACAGAGGAATGTAACAACGGAGTAAGCTTTCATAAGCTTAGTAAGTCTTAAGCAATGCAAAC
AAATAAACGCAATTATACTTCGATTATTCAATTTCTTAAGTGGCCATATTTTAGGTATATTGCCA
TCTGGCCGAATACACACAAACACATAATACACGTTCAGCAT
Found at i:68558293 original size:43 final size:42
Alignment explanation
Indices: 68558226--68558380 Score: 231
Period size: 43 Copynumber: 3.6 Consensus size: 42
68558216 CCGACATTAC
68558226 GCCTGCTAGGCACGAAGGCCCGAATACACATCATCGGCACAAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCA-CGGCACAAA
* *
68558269 GCCTGCTAGGCACGAA-GCCTCGAATACACATCACCAGCACGAA
1 GCCTGCTAGGCACGAAGGCC-CGAATACACATCA-CGGCACAAA
*
68558312 GCCTGCTAGGCACGAAGGCCCGAATACACATCACTGGCACTAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCAC-GGCACAAA
*
68558355 GCCTACTAGGCACGAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
68558381 TAATACCAGC
Statistics
Matches: 103, Mismatches: 6, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
42 4 0.04
43 96 0.93
44 3 0.03
ACGTcount: A:0.32, C:0.33, G:0.23, T:0.12
Consensus pattern (42 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACGGCACAAA
Found at i:68558358 original size:86 final size:84
Alignment explanation
Indices: 68558226--68558401 Score: 257
Period size: 86 Copynumber: 2.1 Consensus size: 84
68558216 CCGACATTAC
*
68558226 GCCTGCTAGGCACGAAGGCCCGAATACACATCATCGGCACAAAGCCTGCTAGGCACGAA-GCCTC
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCATCGGCACAAAGCCTACTAGGCACGAAGGCC-C
68558290 GAATACACATCACCAGCACGAA
65 GAATACA-AT-ACCAGCACGAA
*
68558312 GCCTGCTAGGCACGAAGGCCCGAATACACATCA-CTGGCACTAAGCCTACTAGGCACGAAGGCCC
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCATC-GGCACAAAGCCTACTAGGCACGAAGGCCC
* * *
68558376 GAATATAATACCAGCACTAG
65 GAATACAATACCAGCACGAA
68558396 GCCTGC
1 GCCTGC
68558402 GGGATTTATC
Statistics
Matches: 83, Mismatches: 5, Indels: 6
0.88 0.05 0.06
Matches are distributed among these distances:
84 15 0.18
85 3 0.04
86 62 0.75
87 3 0.04
ACGTcount: A:0.31, C:0.33, G:0.23, T:0.13
Consensus pattern (84 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCATCGGCACAAAGCCTACTAGGCACGAAGGCCCG
AATACAATACCAGCACGAA
Found at i:68558442 original size:36 final size:38
Alignment explanation
Indices: 68558373--68558453 Score: 105
Period size: 36 Copynumber: 2.2 Consensus size: 38
68558363 GGCACGAAGG
* *
68558373 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAT
1 CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAT
*
68558411 CCCGGATATAATA-CAGCACGAAG-CTGCGGGATTTA-
1 CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAT
*
68558446 ACCGAATA
1 CCCGAATA
68558454 CACATCAAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
35 6 0.16
36 12 0.32
37 8 0.21
38 12 0.32
ACGTcount: A:0.32, C:0.25, G:0.22, T:0.21
Consensus pattern (38 bp):
CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAT
Found at i:68563193 original size:234 final size:235
Alignment explanation
Indices: 68562784--68563255 Score: 847
Period size: 234 Copynumber: 2.0 Consensus size: 235
68562774 TAGCGTGAGC
*
68562784 TCGACAGTGTGATAATATCTCCGGCGAACTCCAACCCGAGCAAGTAACCGAAGTCAATAATCTAT
1 TCGACAGTGTGATAATATCTCCGGCGAACTCCAACCCGAGCAAGTAACCGAAGTCAACAATCTAT
*
68562849 AAAACAGAGGAATGTAACAACGGAGTACGCTTTCATAAGCTTAGTAAGTCATAAGCAATGCAAAC
66 AAAACAGAGGAATGTAACAACGGAGTAAGCTTTCATAAGCTTAGTAAGTCATAAGCAATGCAAAC
68562914 AAATAAACGCAATTATACTTCGATTATTCAATTTCTTAAGTGGCCATATTCTAGG-TATTGCCAT
131 AAATAAACGCAATTATACTTCGATTATTCAATTTCTTAAGTGGCCATATTCTAGGATATTGCCAT
* *
68562978 CTGGCCGAATACACACAAACACATAATGCATGTTCAGCAT
196 CTAGCCGAATACACACAAACACATAATGCACGTTCAGCAT
* *
68563018 TCGACAGTGTGATAATATCTCCTGCGAACTCCAACCCGAGCAGGTAACCGAAGTCAACAATCTAT
1 TCGACAGTGTGATAATATCTCCGGCGAACTCCAACCCGAGCAAGTAACCGAAGTCAACAATCTAT
* *
68563083 AAAATAGAGGAATGTAACAACGGAGTAAGCTTTCATAAGCTTAGTAAGTCTTAAGCAATGCAAAC
66 AAAACAGAGGAATGTAACAACGGAGTAAGCTTTCATAAGCTTAGTAAGTCATAAGCAATGCAAAC
*
68563148 AAATAAATGCAATTATACTTCGATTATTCAATTTCTTAAGTGGCCATATTCTAGGTATATTGCCA
131 AAATAAACGCAATTATACTTCGATTATTCAATTTCTTAAGTGGCCATATTCTAGG-ATATTGCCA
68563213 TCTAGCCGAATACACACAAACACATAATGCACGTTCAGCAT
195 TCTAGCCGAATACACACAAACACATAATGCACGTTCAGCAT
68563254 TC
1 TC
68563256 TTATCACACT
Statistics
Matches: 227, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
234 178 0.78
236 49 0.22
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.26
Consensus pattern (235 bp):
TCGACAGTGTGATAATATCTCCGGCGAACTCCAACCCGAGCAAGTAACCGAAGTCAACAATCTAT
AAAACAGAGGAATGTAACAACGGAGTAAGCTTTCATAAGCTTAGTAAGTCATAAGCAATGCAAAC
AAATAAACGCAATTATACTTCGATTATTCAATTTCTTAAGTGGCCATATTCTAGGATATTGCCAT
CTAGCCGAATACACACAAACACATAATGCACGTTCAGCAT
Found at i:68563990 original size:43 final size:43
Alignment explanation
Indices: 68563911--68564185 Score: 401
Period size: 43 Copynumber: 6.4 Consensus size: 43
68563901 ACATATCATT
* * *
68563911 TCACCGGCATTACGCCTACTAGGCACGAAGGCCCGAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
* * *
68563954 TTACCGACACGAAGCCTGCTAGGCACGAAGGCCCGAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
* * *
68563997 TCACTGGCACGAAGCCTGCTAGGCACGAAGGCCCAAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
*
68564040 TCACCGGTACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
68564083 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
* * *
68564126 TCACCGGCACTAAGCCTGCTAGCCATGAAGGCCCGAATATA-A
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
* *
68564168 T-ACCAGCACTAGGCCTGC
1 TCACCGGCACTAAGCCTGC
68564186 GGGATTTATC
Statistics
Matches: 212, Mismatches: 20, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
41 15 0.07
42 2 0.01
43 195 0.92
ACGTcount: A:0.31, C:0.33, G:0.23, T:0.13
Consensus pattern (43 bp):
TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
Found at i:68564211 original size:38 final size:38
Alignment explanation
Indices: 68564157--68564240 Score: 123
Period size: 38 Copynumber: 2.2 Consensus size: 38
68564147 GCCATGAAGG
* * *
68564157 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAT
1 CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAA
* *
68564195 CCCGGATATAATACCAGCACGAAGCTTGCGGGATTTAA
1 CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAA
68564233 CCCGAATA
1 CCCGAATA
68564241 CACAAATATC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.21
Consensus pattern (38 bp):
CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:68574779 original size:26 final size:24
Alignment explanation
Indices: 68574719--68574775 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 24
68574709 TTTTTCCTCA
68574719 TTTTTCTTTCTTTCTTCTTCCCTT
1 TTTTTCTTTCTTTCTTCTTCCCTT
68574743 TTCTATTCTTTCTTT-TTCTTCCCCTT
1 TT-T-TTCTTTCTTTCTTCTT-CCCTT
68574769 CTTTTTC
1 -TTTTTC
68574776 CTTTTCCCCC
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
24 2 0.07
25 9 0.31
26 16 0.55
27 2 0.07
ACGTcount: A:0.02, C:0.30, G:0.00, T:0.68
Consensus pattern (24 bp):
TTTTTCTTTCTTTCTTCTTCCCTT
Found at i:68574863 original size:34 final size:33
Alignment explanation
Indices: 68574820--68574886 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 33
68574810 AGTTCCTCCT
* *
68574820 CCGCAGCACTCTTCCTCGACTGACCAACCCACA
1 CCGCAGCACTCCTCCTCGACCGACCAACCCACA
*
68574853 CCGCATGCACTCCTCCTCGGCCGACCAACCCACA
1 CCGCA-GCACTCCTCCTCGACCGACCAACCCACA
68574887 TCATGCGCGC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 5 0.17
34 25 0.83
ACGTcount: A:0.22, C:0.51, G:0.13, T:0.13
Consensus pattern (33 bp):
CCGCAGCACTCCTCCTCGACCGACCAACCCACA
Found at i:68589310 original size:16 final size:16
Alignment explanation
Indices: 68589289--68589321 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
68589279 TAATGTATGA
68589289 TTACTTGTGGATTATT
1 TTACTTGTGGATTATT
68589305 TTACTTGTGGATTATT
1 TTACTTGTGGATTATT
68589321 T
1 T
68589322 CGAACATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.06, G:0.18, T:0.58
Consensus pattern (16 bp):
TTACTTGTGGATTATT
Found at i:68601737 original size:14 final size:15
Alignment explanation
Indices: 68601688--68601737 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
68601678 CGTATCTTGG
*
68601688 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
68601703 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
68601718 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
68601732 TTTCTT
1 TTTCTT
68601738 GTTATCTTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 8 0.26
15 23 0.74
ACGTcount: A:0.10, C:0.18, G:0.12, T:0.60
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:68604156 original size:46 final size:45
Alignment explanation
Indices: 68604106--68604279 Score: 203
Period size: 46 Copynumber: 3.8 Consensus size: 45
68604096 ATGTTGAGCA
68604106 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
68604152 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
68604199 TCCGAGCTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*
68604244 -CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
68604280 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 11, Indels: 17
0.80 0.08 0.12
Matches are distributed among these distances:
42 1 0.01
43 3 0.03
44 21 0.19
45 19 0.17
46 36 0.33
47 24 0.22
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:68607100 original size:254 final size:254
Alignment explanation
Indices: 68606651--68607152 Score: 718
Period size: 254 Copynumber: 2.0 Consensus size: 254
68606641 ATGATGCTAC
* * *
68606651 TCTTTTTAGGTATGCATTGCACTAGACTTACTCAATTGCTGTAAAAAATAAGGTAAATAATTCCA
1 TCTTTTTAGGTACGCATTGCACTAGACTTACCCAATTGCTATAAAAAATAAGGTAAATAATTCCA
* * * * *
68606716 TCATCAAGCCATTTTGTAATTTCCTTCTTAACAACTTTATTCATCTTCTCGTTTAATCTTCTTTG
66 GCATCAAGCCAGTTTATAATTTCCTTCTTAACAACTTCATTCATCTTCTCATTTAATCTTCTTTG
* * * *
68606781 CTGCTCAATCGATTGCTTGCTTTAATCTTCCAACTTGATTTTGTACATGAAAAAAGATGGACTAA
131 CTGCTCAATCGATTGCTTACCTTAATCTTCAAACTTAATTTTGTACATGAAAAAAGATGGACTAA
* * *
68606846 TGCCTCTAATATCAGCAATACTCCAAGCAATAGCTTATTTATGTTGCTTAAGATTCCAT
196 TGCCTCGAATATCAGCAATACTCCAAGCAATAGCTCATTTATGTTACTTAAGATTCCAT
** * * * *
68606905 TCTTTTTAGGTACGCATTTTACTGGACTTACCCAATTGCTATCAGAAATAGGGTAAATAATTCCA
1 TCTTTTTAGGTACGCATTGCACTAGACTTACCCAATTGCTATAAAAAATAAGGTAAATAATTCCA
* * *
68606970 GCATCAAGCCAGTTTAT-ATTATCTTTCTTAACGACTTCCTTCATCTTCTCATTTAATCTTCTTT
66 GCATCAAGCCAGTTTATAATT-TCCTTCTTAACAACTTCATTCATCTTCTCATTTAATCTTCTTT
* * * *
68607034 GCTGCTCAATCGATTGCTTACCTTCATCTTCAAACTTAATTTTTTACATGCAAAGAGATGGACTA
130 GCTGCTCAATCGATTGCTTACCTTAATCTTCAAACTTAATTTTGTACATGAAAAAAGATGGACTA
* *
68607099 ATGCCTCGAATATCAGCAATACTCCAAGCAGTAGCTCGTTTATGTTACTTAAGA
195 ATGCCTCGAATATCAGCAATACTCCAAGCAATAGCTCATTTATGTTACTTAAGA
68607153 ATATGGACCA
Statistics
Matches: 217, Mismatches: 30, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
253 3 0.01
254 214 0.99
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (254 bp):
TCTTTTTAGGTACGCATTGCACTAGACTTACCCAATTGCTATAAAAAATAAGGTAAATAATTCCA
GCATCAAGCCAGTTTATAATTTCCTTCTTAACAACTTCATTCATCTTCTCATTTAATCTTCTTTG
CTGCTCAATCGATTGCTTACCTTAATCTTCAAACTTAATTTTGTACATGAAAAAAGATGGACTAA
TGCCTCGAATATCAGCAATACTCCAAGCAATAGCTCATTTATGTTACTTAAGATTCCAT
Found at i:68621219 original size:14 final size:13
Alignment explanation
Indices: 68621201--68621299 Score: 80
Period size: 14 Copynumber: 7.5 Consensus size: 13
68621191 ACATTGCATT
*
68621201 AATAAGAAAATAAT
1 AATAA-AAAATAAA
*
68621215 AATAATAAACTAAA
1 AATAA-AAAATAAA
* *
68621229 TATAATAAATAAA
1 AATAAAAAATAAA
68621242 AAT-AAAAATAAA
1 AATAAAAAATAAA
68621254 AATAAAGTAAAATAAA
1 AAT-AA--AAAATAAA
68621270 AATAACAAAAT-AA
1 AATAA-AAAATAAA
68621283 AAT--AAAATAAA
1 AATAAAAAATAAA
68621294 AATAAA
1 AATAAA
68621300 GAAAGAACAA
Statistics
Matches: 69, Mismatches: 9, Indels: 15
0.74 0.10 0.16
Matches are distributed among these distances:
10 5 0.07
11 5 0.07
12 11 0.16
13 14 0.20
14 21 0.30
15 2 0.03
16 11 0.16
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (13 bp):
AATAAAAAATAAA
Found at i:68621288 original size:24 final size:23
Alignment explanation
Indices: 68621207--68621299 Score: 100
Period size: 24 Copynumber: 3.8 Consensus size: 23
68621197 CATTAATAAG
68621207 AAAATAATAATAATAAACTAAATATAAT
1 AAAATAA-AATAA-AAA-TAAA-A-AAT
68621235 -AAATAAAAATAAAAAT-AAAAAT
1 AAAAT-AAAATAAAAATAAAAAAT
*
68621257 AAAGTAAAATAAAAATAACAAAAT
1 AAAATAAAATAAAAATAA-AAAAT
68621281 AAAATAAAATAAAAATAAA
1 AAAATAAAATAAAAATAAA
68621300 GAAAGAACAA
Statistics
Matches: 59, Mismatches: 2, Indels: 13
0.80 0.03 0.18
Matches are distributed among these distances:
22 14 0.24
23 6 0.10
24 24 0.41
25 1 0.02
26 3 0.05
27 9 0.15
28 2 0.03
ACGTcount: A:0.76, C:0.02, G:0.01, T:0.20
Consensus pattern (23 bp):
AAAATAAAATAAAAATAAAAAAT
Found at i:68621299 original size:6 final size:6
Alignment explanation
Indices: 68621207--68621299 Score: 86
Period size: 6 Copynumber: 15.3 Consensus size: 6
68621197 CATTAATAAG
* *
68621207 AAAATA ATAATA ATAAACTA AATATA ATAAATA AAAATA AAAATA AAAAT-
1 AAAATA AAAATA A-AAA-TA AAAATA A-AAATA AAAATA AAAATA AAAATA
*
68621257 AAAGT- AAAATA AAAATA ACAAA-A TAAAAT- AAAATA AAAATA AA
1 AAAATA AAAATA AAAATA A-AAATA -AAAATA AAAATA AAAATA AA
68621300 GAAAGAACAA
Statistics
Matches: 73, Mismatches: 6, Indels: 16
0.77 0.06 0.17
Matches are distributed among these distances:
5 13 0.18
6 44 0.60
7 13 0.18
8 3 0.04
ACGTcount: A:0.76, C:0.02, G:0.01, T:0.20
Consensus pattern (6 bp):
AAAATA
Found at i:68621644 original size:26 final size:26
Alignment explanation
Indices: 68621592--68621650 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 26
68621582 GGGAGAGGAT
**
68621592 AGGGAGAGGTCAAAACAACGATGTGA
1 AGGGAGAGGTCAAAACAACGACATGA
**
68621618 AGGGAGAGGTCAAAATGACGACATGA
1 AGGGAGAGGTCAAAACAACGACATGA
*
68621644 AGAGAGA
1 AGGGAGA
68621651 AGGGAAGGAG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.44, C:0.10, G:0.36, T:0.10
Consensus pattern (26 bp):
AGGGAGAGGTCAAAACAACGACATGA
Found at i:68624259 original size:17 final size:17
Alignment explanation
Indices: 68624237--68624288 Score: 68
Period size: 17 Copynumber: 2.9 Consensus size: 17
68624227 CATTTATCAT
68624237 TTATCATTTATCGGGCA
1 TTATCATTTATCGGGCA
*
68624254 TTATCATTTATTTCAGGCA
1 TTATCATTTA--TCGGGCA
*
68624273 TTATCACTTATCGGGC
1 TTATCATTTATCGGGC
68624289 TTTGTCGGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 15 0.50
19 15 0.50
ACGTcount: A:0.23, C:0.19, G:0.15, T:0.42
Consensus pattern (17 bp):
TTATCATTTATCGGGCA
Found at i:68624264 original size:7 final size:7
Alignment explanation
Indices: 68624215--68624248 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
68624205 AAATAACATT
68624215 TTTATCA
1 TTTATCA
68624222 TTTATCA
1 TTTATCA
68624229 TTTATCA
1 TTTATCA
68624236 TTTATCA
1 TTTATCA
68624243 TTTATC
1 TTTATC
68624249 GGGCATTATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.26, C:0.15, G:0.00, T:0.59
Consensus pattern (7 bp):
TTTATCA
Found at i:68624274 original size:19 final size:18
Alignment explanation
Indices: 68624237--68624283 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
68624227 CATTTATCAT
*
68624237 TTATCATTTA-TCGGGCA
1 TTATCATTTATTCAGGCA
68624254 TTATCATTTATTTCAGGCA
1 TTATCATTTA-TTCAGGCA
*
68624273 TTATCACTTAT
1 TTATCATTTAT
68624284 CGGGCTTTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 10 0.38
18 1 0.04
19 15 0.58
ACGTcount: A:0.26, C:0.17, G:0.11, T:0.47
Consensus pattern (18 bp):
TTATCATTTATTCAGGCA
Found at i:68627840 original size:13 final size:13
Alignment explanation
Indices: 68627822--68627846 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
68627812 CCTCAACTTA
68627822 GTTGTTTTAGCTG
1 GTTGTTTTAGCTG
68627835 GTTGTTTTAGCT
1 GTTGTTTTAGCT
68627847 AGTGGGAAGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.08, G:0.28, T:0.56
Consensus pattern (13 bp):
GTTGTTTTAGCTG
Found at i:68630641 original size:32 final size:31
Alignment explanation
Indices: 68630556--68630652 Score: 176
Period size: 31 Copynumber: 3.1 Consensus size: 31
68630546 AGAATGGGTC
68630556 ATTCAAAACCCAAAAAAGAAAAAATAATGTT
1 ATTCAAAACCCAAAAAAGAAAAAATAATGTT
*
68630587 ATTCAAAACTCAAAAAAGAAAAAATAATGTT
1 ATTCAAAACCCAAAAAAGAAAAAATAATGTT
68630618 ATTCAAAACCCAAAAAAGAAAAAAATAATGTT
1 ATTCAAAACCCAAAAAAG-AAAAAATAATGTT
68630650 ATT
1 ATT
68630653 TGCAGAATCA
Statistics
Matches: 63, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
31 47 0.75
32 16 0.25
ACGTcount: A:0.61, C:0.11, G:0.06, T:0.22
Consensus pattern (31 bp):
ATTCAAAACCCAAAAAAGAAAAAATAATGTT
Found at i:68634660 original size:22 final size:26
Alignment explanation
Indices: 68634630--68634678 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 26
68634620 TACATGTGTA
68634630 TATTCTTTATATA-GT-AT-TATTAT
1 TATTCTTTATATATGTCATATATTAT
68634653 TATT-TTTATATATGTCATATATTAT
1 TATTCTTTATATATGTCATATATTAT
68634678 T
1 T
68634679 GTACTTAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 8 0.35
23 6 0.26
24 2 0.09
25 7 0.30
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.61
Consensus pattern (26 bp):
TATTCTTTATATATGTCATATATTAT
Found at i:68637158 original size:66 final size:64
Alignment explanation
Indices: 68637088--68637212 Score: 178
Period size: 66 Copynumber: 1.9 Consensus size: 64
68637078 TAAATTGACA
* * * *
68637088 ACTTGATCTTTCAAAATGCATCAAAAAGAACCTCAAACTTCTTTTAAAAAAAGCAATTAAGACTC
1 ACTTGAACTTTCAAAATGCATAAAAAAGAACCTCAAA-AT-TTCTAAAAAAAGCAATTAAGACTC
68637153 T
64 T
* *
68637154 ACTTGAACTTTCAAAATGCATAAAAAAGACCCTCAAAATTTCTCAAAAAAGCAATTAAG
1 ACTTGAACTTTCAAAATGCATAAAAAAGAACCTCAAAATTTCTAAAAAAAGCAATTAAG
68637213 CCCATGCCCT
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
64 18 0.34
65 1 0.02
66 34 0.64
ACGTcount: A:0.46, C:0.19, G:0.08, T:0.26
Consensus pattern (64 bp):
ACTTGAACTTTCAAAATGCATAAAAAAGAACCTCAAAATTTCTAAAAAAAGCAATTAAGACTCT
Found at i:68637275 original size:18 final size:19
Alignment explanation
Indices: 68637254--68637300 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
68637244 TATAAATAAT
68637254 AAATAATAAATTTT-AGAA
1 AAATAATAAATTTTAAGAA
* *
68637272 AAATTATTAAATTTTAATAA
1 AAA-TAATAAATTTTAAGAA
68637292 AAAT-ATAAA
1 AAATAATAAA
68637301 AACTTTAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 7 0.29
19 11 0.46
20 6 0.25
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (19 bp):
AAATAATAAATTTTAAGAA
Found at i:68637358 original size:17 final size:17
Alignment explanation
Indices: 68637336--68637368 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
68637326 AATTTTTTTT
68637336 ATAAAAAATTGTAAAAA
1 ATAAAAAATTGTAAAAA
68637353 ATAAAAAATTGTAAAA
1 ATAAAAAATTGTAAAA
68637369 TTTTATAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.24
Consensus pattern (17 bp):
ATAAAAAATTGTAAAAA
Found at i:68637665 original size:10 final size:10
Alignment explanation
Indices: 68637652--68637740 Score: 55
Period size: 9 Copynumber: 9.4 Consensus size: 10
68637642 CTTTATAAAA
68637652 TTTTATAATT
1 TTTTATAATT
68637662 TTTT-T-ATAT
1 TTTTATAAT-T
* *
68637671 TTCTAT-ATA
1 TTTTATAATT
68637680 TTTTATAATT
1 TTTTATAATT
**
68637690 TTTTACGA-T
1 TTTTATAATT
**
68637699 TTTTATAAAA
1 TTTTATAATT
*
68637709 TTTTACAA-T
1 TTTTATAATT
68637718 TTTTAT-ATT
1 TTTTATAATT
*
68637727 TTTTATGATT
1 TTTTATAATT
68637737 TTTT
1 TTTT
68637741 TCCAAAATTT
Statistics
Matches: 61, Mismatches: 12, Indels: 12
0.72 0.14 0.14
Matches are distributed among these distances:
8 3 0.05
9 29 0.48
10 29 0.48
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.66
Consensus pattern (10 bp):
TTTTATAATT
Found at i:68637704 original size:57 final size:59
Alignment explanation
Indices: 68637605--68637721 Score: 168
Period size: 57 Copynumber: 2.0 Consensus size: 59
68637595 TTTTACGAAA
* *
68637605 TTTATATTTCTTTACATTTTGTATAATTTTCTTACGACTTTATAAAATTTTATAATTTT
1 TTTATATTTCTATACATTTTGTATAATTTTCTTACGACTTTATAAAATTTTACAATTTT
* *
68637664 TTTATATTTCTATATA-TTT-TATAATTTT-TTACGATTTTTATAAAATTTTACAATTTT
1 TTTATATTTCTATACATTTTGTATAATTTTCTTACGA-CTTTATAAAATTTTACAATTTT
68637721 T
1 T
68637722 ATATTTTTTA
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
56 6 0.11
57 30 0.57
58 3 0.06
59 14 0.26
ACGTcount: A:0.30, C:0.07, G:0.03, T:0.61
Consensus pattern (59 bp):
TTTATATTTCTATACATTTTGTATAATTTTCTTACGACTTTATAAAATTTTACAATTTT
Found at i:68637722 original size:28 final size:28
Alignment explanation
Indices: 68637626--68637729 Score: 97
Period size: 28 Copynumber: 3.7 Consensus size: 28
68637616 TTACATTTTG
*
68637626 TATAATTTTCTTACGA-CTTTATAAAATTT
1 TATAATTTT-TTA-GATTTTTATAAAATTT
* * *
68637655 TATAATTTTTTTATATTTCTAT-ATATTT
1 TATAA-TTTTTTAGATTTTTATAAAATTT
68637683 TATAATTTTTTACGATTTTTATAAAATTT
1 TATAATTTTTTA-GATTTTTATAAAATTT
* *
68637712 TACAA-TTTTTATATTTTT
1 TATAATTTTTTAGATTTTT
68637730 TATGATTTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
27 13 0.21
28 24 0.39
29 21 0.34
30 4 0.06
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.61
Consensus pattern (28 bp):
TATAATTTTTTAGATTTTTATAAAATTT
Found at i:68637740 original size:19 final size:20
Alignment explanation
Indices: 68637680--68637740 Score: 56
Period size: 19 Copynumber: 3.2 Consensus size: 20
68637670 TTTCTATATA
*
68637680 TTTTATAATTTTTTACGA-T
1 TTTTATAATTTTTTATGATT
** * *
68637699 TTTTATAAAATTTTA-CAAT
1 TTTTATAATTTTTTATGATT
68637718 TTTTAT-ATTTTTTATGATT
1 TTTTATAATTTTTTATGATT
68637737 TTTT
1 TTTT
68637741 TCCAAAATTT
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
18 7 0.21
19 26 0.79
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.66
Consensus pattern (20 bp):
TTTTATAATTTTTTATGATT
Found at i:68639223 original size:28 final size:27
Alignment explanation
Indices: 68639192--68639247 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 27
68639182 TTATTTAAAT
*
68639192 TATATTATTTTA-ATATTTAATAATTTTA
1 TATATT-TTTTATATA-TTAAAAATTTTA
*
68639220 TATATTTTTTATTTATTAAAAATTTTA
1 TATATTTTTTATATATTAAAAATTTTA
68639247 T
1 T
68639248 TTAATCTTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 17 0.68
28 8 0.32
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (27 bp):
TATATTTTTTATATATTAAAAATTTTA
Found at i:68639557 original size:90 final size:90
Alignment explanation
Indices: 68639310--68639636 Score: 505
Period size: 97 Copynumber: 3.6 Consensus size: 90
68639300 TTAAGGATGT
* * * *
68639310 AAAAAGCCCTCAAATTTTTTCAAAACAAACAATTAAGCCCTCC-TTTTTTTTTTGCACTCAATTG
1 AAAAGGCCCTCAAATTTATTCAAAAAAAACAATTAAGGCCTCCTTTTTTTTTTTGCACTCAATTG
68639374 ACCACTTGATCTTTAAAAATGCATC
66 ACCACTTGATCTTTAAAAATGCATC
*
68639399 AAAAGGCCCTCAAATTTATTCAAAAAAAGCAATTAAGGCCTCCTTTTTTTTTTTTTTTTTTGCAC
1 AAAAGGCCCTCAAATTTATTCAAAAAAAACAATTAAGGCCTCC-------TTTTTTTTTTTGCAC
68639464 TCAATTGACCACTTGATCTTTAAAAATGCATC
59 TCAATTGACCACTTGATCTTTAAAAATGCATC
68639496 AAAAGGCCCTCAAATTTATTCAAAAAAAACAATTAAGGCCTCCTTTTTTTTTTTGCACTCAATTG
1 AAAAGGCCCTCAAATTTATTCAAAAAAAACAATTAAGGCCTCCTTTTTTTTTTTGCACTCAATTG
68639561 ACCACTTGATCTTTAAAAATGCATC
66 ACCACTTGATCTTTAAAAATGCATC
* *
68639586 AAAAAGGCCCTCAAACTTATTCAAAAAAAGCAATTAAGGCC-CCTTTTTTTT
1 -AAAAGGCCCTCAAATTTATTCAAAAAAAACAATTAAGGCCTCCTTTTTTTT
68639637 CCACTAAATT
Statistics
Matches: 221, Mismatches: 8, Indels: 17
0.90 0.03 0.07
Matches are distributed among these distances:
89 38 0.17
90 57 0.26
91 38 0.17
97 88 0.40
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (90 bp):
AAAAGGCCCTCAAATTTATTCAAAAAAAACAATTAAGGCCTCCTTTTTTTTTTTGCACTCAATTG
ACCACTTGATCTTTAAAAATGCATC
Found at i:68639699 original size:87 final size:88
Alignment explanation
Indices: 68639451--68639708 Score: 310
Period size: 90 Copynumber: 2.9 Consensus size: 88
68639441 CTTTTTTTTT
* * * *
68639451 TTTTTTTTTGCACTCAATTGACCACTTGATCTTTAAAAATGCATCAAAAGGCCCTCAAATTTATT
1 TTTTTTTTTCCACTAAATTGACCACTTGATCTTTAAAAATGCATCAAAAAGCCCTCAAAATTATT
*
68639516 CAAAAAAAACAATTAAGGCCTCC
66 CAAAAAAAGCAATTAAGGCCTCC
* * *
68639539 TTTTTTTTTTTGCACTCAATTGACCACTTGATCTTTAAAAATGCATCAAAAAGGCCCTCAAACTT
1 --TTTTTTTTTCCACTAAATTGACCACTTGATCTTTAAAAATGCATCAAAAA-GCCCTCAAAATT
68639604 ATTCAAAAAAAGCAATTAAGGCC-CC
63 ATTCAAAAAAAGCAATTAAGGCCTCC
*** * * *
68639629 -TTTTTTTTCCACTAAATTGGGTACTTGAAT-TTTCAAAATGCATCAAAAAACCCTCAAAA-AAT
1 TTTTTTTTTCCACTAAATTGACCACTTG-ATCTTTAAAAATGCATCAAAAAGCCCTCAAAATTA-
68639691 TTC-AAAAAAGCAATTAAG
64 TTCAAAAAAAGCAATTAAG
68639709 CCCATGCTTT
Statistics
Matches: 153, Mismatches: 12, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
85 16 0.10
86 11 0.07
87 40 0.26
88 2 0.01
90 51 0.33
91 33 0.22
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.33
Consensus pattern (88 bp):
TTTTTTTTTCCACTAAATTGACCACTTGATCTTTAAAAATGCATCAAAAAGCCCTCAAAATTATT
CAAAAAAAGCAATTAAGGCCTCC
Found at i:68639764 original size:19 final size:19
Alignment explanation
Indices: 68639738--68639788 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
68639728 TTTAAAAAAT
*
68639738 ATAAAAATATTAAATTTTA
1 ATAAAAATATTAAATCTTA
68639757 GA-AAAAATATTAAATCTTA
1 -ATAAAAATATTAAATCTTA
68639776 ATAAAAAT-TTAAA
1 ATAAAAATATTAAA
68639789 AAATTTAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 6 0.21
19 22 0.76
20 1 0.03
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (19 bp):
ATAAAAATATTAAATCTTA
Found at i:68640123 original size:21 final size:21
Alignment explanation
Indices: 68640097--68640141 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
68640087 TAAATTTATA
* *
68640097 TTTCTTTAC-ATTTTGTATAAT
1 TTTC-TTACGATTTTATAAAAT
68640118 TTTCTTACGATTTTATAAAAT
1 TTTCTTACGATTTTATAAAAT
68640139 TTT
1 TTT
68640142 ATAATTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.27, C:0.09, G:0.04, T:0.60
Consensus pattern (21 bp):
TTTCTTACGATTTTATAAAAT
Found at i:68640190 original size:53 final size:54
Alignment explanation
Indices: 68640091--68640256 Score: 189
Period size: 53 Copynumber: 3.0 Consensus size: 54
68640081 AATTACTAAA
*
68640091 TTTATATTTCTTTAC-ATTTTGTATAATTTTCTTACGATTTTATAAAATTTTATAATTT
1 TTTATATTT-TCTACAATTTT-TAT-A-TTT-TTACGATTTTATAAAATTTTATAATTT
*
68640149 TTTATA-TTTCTA-TATATTTTATATTTTTACGATTTTATAAAATTTTA-AATTT
1 TTTATATTTTCTACAAT-TTTTATATTTTTACGATTTTATAAAATTTTATAATTT
* * *
68640201 TTTATATTTTCTACAATTTTTATATTTTTCCAATTTT-TAATAATTTTTTAATTT
1 TTTATATTTTCTACAATTTTTATATTTTTACGATTTTATAA-AATTTTATAATTT
68640255 TT
1 TT
68640257 AAAATTTTAT
Statistics
Matches: 97, Mismatches: 5, Indels: 16
0.82 0.04 0.14
Matches are distributed among these distances:
52 14 0.14
53 51 0.53
54 12 0.12
55 1 0.01
56 8 0.08
57 5 0.05
58 6 0.06
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.63
Consensus pattern (54 bp):
TTTATATTTTCTACAATTTTTATATTTTTACGATTTTATAAAATTTTATAATTT
Found at i:68640220 original size:17 final size:16
Alignment explanation
Indices: 68640148--68640237 Score: 65
Period size: 17 Copynumber: 5.2 Consensus size: 16
68640138 TTTTATAATT
* *
68640148 TTTTATATTTCTATATA
1 TTTTATATTTTTACA-A
*
68640165 TTTTATATTTTTACGA
1 TTTTATATTTTTACAA
*
68640181 TTTTATAAAATTTTA-AA
1 TTTTAT--ATTTTTACAA
68640198 TTTTTTATATTTTCTACAA
1 --TTTTATATTTT-TACAA
*
68640217 TTTTTATATTTTTCCAA
1 -TTTTATATTTTTACAA
68640234 TTTT
1 TTTT
68640238 TAATAATTTT
Statistics
Matches: 60, Mismatches: 7, Indels: 13
0.75 0.09 0.16
Matches are distributed among these distances:
16 11 0.18
17 21 0.35
18 20 0.33
19 8 0.13
ACGTcount: A:0.29, C:0.07, G:0.01, T:0.63
Consensus pattern (16 bp):
TTTTATATTTTTACAA
Found at i:68640221 original size:27 final size:26
Alignment explanation
Indices: 68640091--68640229 Score: 84
Period size: 27 Copynumber: 5.1 Consensus size: 26
68640081 AATTACTAAA
* *
68640091 TTTATATTTCTTTACATTTTGTATAATTT
1 TTTATATTT-TCTAAATTTT-TA-AATTT
* * *
68640120 TCTTACGATTTTATAAAATTTTATAATTT
1 T-TTA-TATTTTCTAAATTTTTA-AATTT
* *
68640149 TTTATA-TTTCTATATATTTTATA-TT
1 TTTATATTTTCTAAAT-TTTTAAATTT
* * *
68640174 TTTACGATTTTATAAAATTTTAAATTT
1 TTTA-TATTTTCTAAATTTTTAAATTT
*
68640201 TTTATATTTTCTACAATTTTTATATTT
1 TTTATATTTTCTA-AATTTTTAAATTT
68640228 TT
1 TT
68640230 CCAATTTTTA
Statistics
Matches: 85, Mismatches: 18, Indels: 16
0.71 0.15 0.13
Matches are distributed among these distances:
25 6 0.07
26 21 0.25
27 31 0.36
28 3 0.04
29 10 0.12
30 10 0.12
31 4 0.05
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.63
Consensus pattern (26 bp):
TTTATATTTTCTAAATTTTTAAATTT
Found at i:68640236 original size:27 final size:25
Alignment explanation
Indices: 68640127--68640274 Score: 102
Period size: 27 Copynumber: 5.6 Consensus size: 25
68640117 TTTTCTTACG
*
68640127 ATTTTATAAAATTTTATAATTTTTTA
1 ATTTTATAAAATTTTAT-ATTTTTCA
* *
68640153 TATTTCTAT-ATATTTTATATTTTTACG
1 -ATTT-TATAAAATTTTATATTTTT-CA
* *
68640180 ATTTTATAAAATTTTAAATTTTTTA
1 ATTTTATAAAATTTTATATTTTTCA
* *
68640205 TATTTTCTACAATTTTTATATTTTTCCA
1 -ATTTTATA-AAATTTTATATTTTT-CA
* *
68640233 ATTTT-TAATAATTTTTTAATTTTTAAA
1 ATTTTATAA-AATTTTAT-ATTTTT-CA
68640260 ATTTTATTAAAATTT
1 ATTTTA-TAAAATTT
68640275 AATAATATTT
Statistics
Matches: 96, Mismatches: 15, Indels: 19
0.74 0.12 0.15
Matches are distributed among these distances:
25 4 0.04
26 38 0.40
27 42 0.44
28 9 0.09
29 3 0.03
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.61
Consensus pattern (25 bp):
ATTTTATAAAATTTTATATTTTTCA
Found at i:68640247 original size:18 final size:18
Alignment explanation
Indices: 68640196--68640264 Score: 63
Period size: 18 Copynumber: 3.9 Consensus size: 18
68640186 TAAAATTTTA
*
68640196 AATTTTTTAT-ATTTTCTAC
1 AATTTTTAATAATTTTC--C
*
68640215 AATTTTT-ATATTTTTCC
1 AATTTTTAATAATTTTCC
**
68640232 AATTTTTAATAATTTTTT
1 AATTTTTAATAATTTTCC
68640250 AATTTTTAA-AATTTT
1 AATTTTTAATAATTTT
68640265 ATTAAAATTT
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
17 14 0.32
18 18 0.41
19 12 0.27
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (18 bp):
AATTTTTAATAATTTTCC
Found at i:68640269 original size:18 final size:18
Alignment explanation
Indices: 68640215--68640280 Score: 66
Period size: 18 Copynumber: 3.7 Consensus size: 18
68640205 TATTTTCTAC
*
68640215 AATTTTT-AT-ATTTTTCC
1 AATTTTTAATAATTTTT-T
68640232 AATTTTTAATAATTTTTT
1 AATTTTTAATAATTTTTT
68640250 AATTTTTAA-AATTTTATT
1 AATTTTTAATAATTTT-TT
**
68640268 AAAATTTAATAAT
1 AATTTTTAATAAT
68640281 ATTTATAGCT
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
17 13 0.31
18 20 0.48
19 9 0.21
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (18 bp):
AATTTTTAATAATTTTTT
Found at i:68640280 original size:28 final size:27
Alignment explanation
Indices: 68640249--68640316 Score: 64
Period size: 28 Copynumber: 2.4 Consensus size: 27
68640239 AATAATTTTT
68640249 TAATTTTTAAAATTTTATTAAAATTTAA
1 TAATTTTTAAAATTTTATT-AAATTTAA
* ** * *
68640277 TAATATTTATAGCTTTTATTGATTTTAA
1 TAATTTTTA-AAATTTTATTAAATTTAA
*
68640305 TATTTTTTAAAA
1 TAATTTTTAAAA
68640317 AATTTCTTAA
Statistics
Matches: 30, Mismatches: 9, Indels: 3
0.71 0.21 0.07
Matches are distributed among these distances:
27 1 0.03
28 21 0.70
29 8 0.27
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (27 bp):
TAATTTTTAAAATTTTATTAAATTTAA
Found at i:68640546 original size:87 final size:86
Alignment explanation
Indices: 68640332--68640556 Score: 231
Period size: 87 Copynumber: 2.6 Consensus size: 86
68640322 CTTAATTTTT
* * *
68640332 AAAAACAGGGGCTTAATTGATTTTTTTGAAATAA-TTTGAGGGTCTTTTTGATGTATTTTGAAAG
1 AAAAACAGGGGCTTAATTGACTTTTTTGAAA-AAGTTT-AAGGCCTTTTT-ATGTATTTTGAAAG
* *
68640396 TTCAAATACCCAATTGAGTGCAAA
63 TTCAAATACCCAAATGAGTGAAAA
* * ** *
68640420 AATAATATAGGCTTAATT-ACTTTTTCTGAAAAGGTTTTAAGGCCTTTTTATGTATTTTGAAAGT
1 AAAAACAGGGGCTTAATTGACTTTTT-TGAAAAAG-TTTAAGGCCTTTTTATGTATTTTGAAAGT
* *
68640484 TCAAGTATCCAAATGAGTGAAAA
64 TCAAATACCCAAATGAGTGAAAA
* * *
68640507 GAAAAAGCAGGGGTTTAATTGA-TTTTTTGAAAAAGTTTAAGACCTCTTTA
1 -AAAAA-CAGGGGCTTAATTGACTTTTTTGAAAAAGTTTAAGGCCTTTTTA
68640557 CACCTTTAAG
Statistics
Matches: 111, Mismatches: 20, Indels: 13
0.77 0.14 0.09
Matches are distributed among these distances:
87 54 0.49
88 39 0.35
89 17 0.15
90 1 0.01
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.38
Consensus pattern (86 bp):
AAAAACAGGGGCTTAATTGACTTTTTTGAAAAAGTTTAAGGCCTTTTTATGTATTTTGAAAGTTC
AAATACCCAAATGAGTGAAAA
Found at i:68641322 original size:24 final size:24
Alignment explanation
Indices: 68641293--68641348 Score: 87
Period size: 24 Copynumber: 2.3 Consensus size: 24
68641283 AAGCCCTCCC
68641293 AAAAAAAACCTAA-CCAAAAAAAA
1 AAAAAAAACCTAACCCAAAAAAAA
68641316 AAGAAAAAACCTAACCCAAAAAAAA
1 AA-AAAAAACCTAACCCAAAAAAAA
*
68641341 TAAAAAAA
1 AAAAAAAA
68641349 GAAAAGAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
23 2 0.07
24 17 0.57
25 11 0.37
ACGTcount: A:0.77, C:0.16, G:0.02, T:0.05
Consensus pattern (24 bp):
AAAAAAAACCTAACCCAAAAAAAA
Found at i:68641387 original size:35 final size:36
Alignment explanation
Indices: 68641308--68641377 Score: 108
Period size: 35 Copynumber: 1.9 Consensus size: 36
68641298 AAACCTAACC
68641308 AAAAAA-AAAAGAAAAAACCTAACCCAAAAAAAATA
1 AAAAAAGAAAAGAAAAAACCTAACCCAAAAAAAATA
68641343 AAAAAAGAAAAG-AAAAACCTAACCCCCAAAAAAAA
1 AAAAAAGAAAAGAAAAAACCTAA--CCCAAAAAAAA
68641378 AACCAAGAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
35 16 0.50
36 5 0.16
37 11 0.34
ACGTcount: A:0.74, C:0.17, G:0.04, T:0.04
Consensus pattern (36 bp):
AAAAAAGAAAAGAAAAAACCTAACCCAAAAAAAATA
Done.