Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 221 of 362
Found at i:74625617 original size:21 final size:22
Alignment explanation
Indices: 74625572--74625622 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 22
74625562 TGTAGGGCTC
*
74625572 ACACGCCCGTGTGGTCCAAGGG
1 ACACGCCCGTGTGGACCAAGGG
**
74625594 ACACGCCCGTGT-GACCTTGGG
1 ACACGCCCGTGTGGACCAAGGG
74625615 ACACGCCC
1 ACACGCCC
74625623 CTGCTATAGG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 14 0.54
22 12 0.46
ACGTcount: A:0.18, C:0.37, G:0.31, T:0.14
Consensus pattern (22 bp):
ACACGCCCGTGTGGACCAAGGG
Found at i:74635201 original size:20 final size:20
Alignment explanation
Indices: 74635172--74635209 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
74635162 TGATATGGTC
* *
74635172 TGTCCTATCACAGACATCCT
1 TGTCCCATCAAAGACATCCT
74635192 TGTCCCATCAAAGACATC
1 TGTCCCATCAAAGACATC
74635210 AACCCTACGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.34, G:0.11, T:0.26
Consensus pattern (20 bp):
TGTCCCATCAAAGACATCCT
Found at i:74644156 original size:21 final size:20
Alignment explanation
Indices: 74644109--74644156 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
74644099 ATATTAATTT
* *
74644109 TTAACTTTAAAAATTTTTTG
1 TTAATTTTAAAAATGTTTTG
*
74644129 TAAAATTTTAAAAATAGTTTTG
1 T-TAATTTTAAAAAT-GTTTTG
74644151 TTAATT
1 TTAATT
74644157 AATTTGGAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
20 1 0.05
21 15 0.68
22 6 0.27
ACGTcount: A:0.40, C:0.02, G:0.06, T:0.52
Consensus pattern (20 bp):
TTAATTTTAAAAATGTTTTG
Found at i:74645983 original size:6 final size:6
Alignment explanation
Indices: 74645972--74646074 Score: 59
Period size: 6 Copynumber: 16.3 Consensus size: 6
74645962 AAATATATAA
* * *
74645972 AAAAAT AAAAAT AAAAGT AAAAAT -AAAA- CAAAAT AAAATATT AAATAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAA-A-T AAA-AAT
* * *
74646021 ACAAAAT AAGAAAT AAGAAT AATAAT -AAAAT AAAGAAT AATAACAT AATAAT
1 A-AAAAT AA-AAAT AAAAAT AAAAAT AAAAAT AAA-AAT AA-AA-AT AAAAAT
74646073 AA
1 AA
74646075 TAGTAATAAT
Statistics
Matches: 77, Mismatches: 9, Indels: 22
0.71 0.08 0.20
Matches are distributed among these distances:
5 12 0.16
6 34 0.44
7 18 0.23
8 12 0.16
9 1 0.01
ACGTcount: A:0.74, C:0.03, G:0.04, T:0.19
Consensus pattern (6 bp):
AAAAAT
Found at i:74646006 original size:45 final size:46
Alignment explanation
Indices: 74645957--74646054 Score: 121
Period size: 45 Copynumber: 2.2 Consensus size: 46
74645947 TTGTAAAATC
*
74645957 AAATAAAATATATAAA-AAAATAAAAATAA-AAGTAAAAATAA-AACA
1 AAATAAAATAT-TAAATAAAA-AAAAATAAGAAATAAAAATAATAACA
* * *
74646002 AAATAAAATATTAAATAAAACAAAATAAGAAATAAGAATAATAATA
1 AAATAAAATATTAAATAAAAAAAAATAAGAAATAAAAATAATAACA
74646048 AAATAAA
1 AAATAAA
74646055 GAATAATAAC
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
44 11 0.24
45 25 0.54
46 10 0.22
ACGTcount: A:0.76, C:0.02, G:0.03, T:0.19
Consensus pattern (46 bp):
AAATAAAATATTAAATAAAAAAAAATAAGAAATAAAAATAATAACA
Found at i:74646021 original size:17 final size:17
Alignment explanation
Indices: 74645950--74646054 Score: 78
Period size: 17 Copynumber: 6.2 Consensus size: 17
74645940 AAGCTAATTG
*
74645950 TAAAATCAAATA-AAATA
1 TAAAATAAAATATAAA-A
74645967 TATAAA-AAAATA-AAAA
1 TA-AAATAAAATATAAAA
74645983 TAAAAGTAAAA-ATAAAA
1 TAAAA-TAAAATATAAAA
* *
74646000 CAAAATAAAATATTAAA
1 TAAAATAAAATATAAAA
*
74646017 TAAAACAAAATA-AGAAA
1 TAAAATAAAATATA-AAA
*
74646034 TAAGAATAATA-ATAAAA
1 TAA-AATAAAATATAAAA
74646051 TAAA
1 TAAA
74646055 GAATAATAAC
Statistics
Matches: 72, Mismatches: 8, Indels: 17
0.74 0.08 0.18
Matches are distributed among these distances:
15 3 0.04
16 10 0.14
17 50 0.69
18 9 0.12
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.20
Consensus pattern (17 bp):
TAAAATAAAATATAAAA
Found at i:74646026 original size:22 final size:22
Alignment explanation
Indices: 74645957--74646029 Score: 87
Period size: 22 Copynumber: 3.3 Consensus size: 22
74645947 TTGTAAAATC
*
74645957 AAATAAAATATATAAA-AAAATAA
1 AAATAAAATAT-TAAATAAAA-CA
*
74645980 AAATAAAAGTA-AAAATAAAACA
1 AAATAAAA-TATTAAATAAAACA
74646002 AAATAAAATATTAAATAAAACA
1 AAATAAAATATTAAATAAAACA
74646024 AAATAA
1 AAATAA
74646030 GAAATAAGAA
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
21 2 0.05
22 28 0.64
23 12 0.27
24 2 0.05
ACGTcount: A:0.77, C:0.03, G:0.01, T:0.19
Consensus pattern (22 bp):
AAATAAAATATTAAATAAAACA
Found at i:74646046 original size:3 final size:3
Alignment explanation
Indices: 74646032--74646283 Score: 174
Period size: 3 Copynumber: 84.7 Consensus size: 3
74646022 CAAAATAAGA
* * *
74646032 AAT AAG AAT AAT AAT AA- AAT AAAG AAT AAT AA- CAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * * * *
74646076 AGT AAT AAT AAG CAT GAT AAT ACT AAT ACT AAT ACT AAT ACT AAT ACT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
74646124 AAT AAT AAT AAT AAT AAAT AGT AA- AAT AA- AAT AAT AAT AGT AAT
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * **
74646168 AAT AAT AAT AAT AAA AAT AAA AAT AAT AGT AAT AAT AAT GGT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * **
74646216 AAAT AGT AAT GAT AAT -AT ATT AAT AAC AAT AAT -GT GTT AAT AAT
1 -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
74646260 AAT AAT AATT AAT TAT ACT AAT AA
1 AAT AAT AA-T AAT AAT AAT AAT AA
74646284 AACAACAAAA
Statistics
Matches: 186, Mismatches: 53, Indels: 20
0.72 0.20 0.08
Matches are distributed among these distances:
2 10 0.05
3 165 0.89
4 11 0.06
ACGTcount: A:0.60, C:0.04, G:0.06, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:74647702 original size:44 final size:43
Alignment explanation
Indices: 74647637--74647788 Score: 121
Period size: 44 Copynumber: 3.5 Consensus size: 43
74647627 AATCTGACCT
* * *
74647637 ACTGCAACTTCATAGG-TATAGGATTTATCGTTTTAGTCCGCTCC
1 ACTGCAACTTCA-GGGAGATAGGATTTATCG-TTCAGTCCGCTCC
* * * *
74647681 ACTGCAACTTCAGGGAGATAGGA-TTAGTAGCTTCAATCTGCTCT
1 ACTGCAACTTCAGGGAGATAGGATTTA-TCG-TTCAGTCCGCTCC
** *
74647725 GTTGCAACTTCAGGGAGATAAGATTGGTATC-TTCAGTCCGCTCC
1 ACTGCAACTTCAGGGAGATAGGATT--TATCGTTCAGTCCGCTCC
* *
74647769 ACTACAACTACAGGGAGATA
1 ACTGCAACTTCAGGGAGATA
74647789 AGACTTGCAA
Statistics
Matches: 84, Mismatches: 19, Indels: 10
0.74 0.17 0.09
Matches are distributed among these distances:
43 5 0.06
44 75 0.89
45 1 0.01
46 1 0.01
47 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.30
Consensus pattern (43 bp):
ACTGCAACTTCAGGGAGATAGGATTTATCGTTCAGTCCGCTCC
Found at i:74647789 original size:44 final size:44
Alignment explanation
Indices: 74647671--74648461 Score: 213
Period size: 44 Copynumber: 17.8 Consensus size: 44
74647661 TTATCGTTTT
*
74647671 AGTCCGCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTC
1 AGTCCGCTCCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTC
* * *** * *
74647715 AATCTGCTCTGTTGCAACTTCAGGGAGATAAGATTGGTATCTTC
1 AGTCCGCTCCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTC
* * * **
74647759 AGTCCGCTCCACTACAACTACAGGGAGATAAGACTT-GCAATTTC
1 AGTCCGCTCCACTGCAACTTCAGGGAGATAAGA-TTAGTAGCTTC
* * * * * *
74647803 A-ACTTGCTCTACTACAACTTCA--GAGATAAGGTTAGTGGCTGT-
1 AGTC-CGCTCCACTGCAACTTCAGGGAGATAAGATTAGTAGCT-TC
* * * ** * *
74647845 AATCTGCTCCACTACAACTTCAGGGAGATAAGATTCACCATCTTT
1 AGTCCGCTCCACTGCAACTTCAGGGAGATAAGATT-AGTAGCTTC
* * ** * * *
74647890 ATTCTGCTCTGCTACAACTTTAGGGAGATAAGACTT-GTAACTTC
1 AGTCCGCTCCACTGCAACTTCAGGGAGATAAGA-TTAGTAGCTTC
* * * * * *
74647934 A-ACATGCCCCATTGCAACTTCAGGGGGAGAAG-TT--T-GC--C
1 AGTC-CGCTCCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTC
* * * ** * * *
74647972 ATGATCCGCTCTACTACAACTTTAGATAAATAAGATCTGTAATTATAACTTC
1 A-G-TCCGCTCCACTGCAACTTCAGGGAGATAAGA--T-T-A--GTAGCTTC
* *** ** ** * *
74648024 AATCTATTCCACAACAACTTCAAAGAGATAAGACTAGTAACTTC
1 AGTCCGCTCCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTC
* * * * * * *
74648068 A-ACCTGCTCTACTGCAACTTCAGAGAGATAAGGTTTGT--TTTG
1 AGTCC-GCTCCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTC
* * * * *
74648110 A-TCTGCTCTACTGCAACTTTAGAGAGATAAGATCTGTAATTTATAGCTTC
1 AGTCCGCTCCACTGCAACTTCAGGGAGATAAGA--T-T-A---GTAGCTTC
* * * * * * * *
74648160 AATCTGTTCTACTGCAACTTCAGGGAAATAAGATTTGCTATCCTC
1 AGTCCGCTCCACTGCAACTTCAGGGAGATAAGATTAG-TAGCTTC
* *
74648205 AGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTT-GT-GTCTTC
1 AGTCCGCTCCACTGCAACTTCAGGGAGATAAGA-TTAGTAG-CTTC
* * * * *
74648249 A-ACCTGCTCCACTGCAACTTCAGGGAGAGAAGGTTTGCTATCTTC
1 AGTCC-GCTCCACTGCAACTTCAGGGAGATAAGATTAG-TAGCTTC
** * * *
74648294 -GATCTACTCCGCTGCAACTTCAGGGAGATAAGATCTACTATCTTC
1 AG-TCCGCTCCACTGCAACTTCAGGGAGATAAGAT-TAGTAGCTTC
* * * * *
74648339 AGTCTGCTCCATTGTAACCTCAGGGAGATAAGACTT-GTAACTTC
1 AGTCCGCTCCACTGCAACTTCAGGGAGATAAGA-TTAGTAGCTTC
** * * * * * *
74648383 AGTCTACTTCACTGTAACTTTAGGGAGATAAGACTAGTGGCTTT
1 AGTCCGCTCCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTC
* * *
74648427 AATCTGCACCACTGCAACTTCAGGGAGATAAGATT
1 AGTCCGCTCCACTGCAACTTCAGGGAGATAAGATT
74648462 CGCCATAATG
Statistics
Matches: 547, Mismatches: 150, Indels: 100
0.69 0.19 0.13
Matches are distributed among these distances:
38 2 0.00
40 18 0.03
41 30 0.05
42 34 0.06
43 11 0.02
44 251 0.46
45 132 0.24
46 9 0.02
47 1 0.00
48 2 0.00
49 2 0.00
50 26 0.05
51 27 0.05
52 2 0.00
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (44 bp):
AGTCCGCTCCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTC
Found at i:74647804 original size:88 final size:87
Alignment explanation
Indices: 74647670--74647922 Score: 246
Period size: 88 Copynumber: 2.9 Consensus size: 87
74647660 TTTATCGTTT
* * * ** * *
74647670 TAGTCCGCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTCAATCTGCTCTGTTGCAACTT
1 TAGTCCGCTCCACTACAACTTCAGGGAGATAAGATT-GCAATTTCAATCTGCTCTGCTACAACTT
* *
74647735 CAGGGAGATAAGATTGGTATCT-
65 CAGGGAGATAAGATTAGTAGCTG
* *
74647757 TCAGTCCGCTCCACTACAACTACAGGGAGATAAGACTTGCAATTTCAA-CTTGCTCTACTACAAC
1 T-AGTCCGCTCCACTACAACTTCAGGGAGATAAGA-TTGCAATTTCAATC-TGCTCTGCTACAAC
* *
74647821 TTCA--GAGATAAGGTTAGTGGCTG
63 TTCAGGGAGATAAGATTAGTAGCTG
* * * *
74647844 TAATCTGCTCCACTACAACTTCAGGGAGATAAGATT-CACCATCTTTATTCTGCTCTGCTACAAC
1 TAGTCCGCTCCACTACAACTTCAGGGAGATAAGATTGCA--AT-TTCAATCTGCTCTGCTACAAC
*
74647908 TTTAGGGAGATAAGA
63 TTCAGGGAGATAAGA
74647923 CTTGTAACTT
Statistics
Matches: 135, Mismatches: 21, Indels: 18
0.78 0.12 0.10
Matches are distributed among these distances:
84 2 0.01
85 2 0.01
86 46 0.34
87 22 0.16
88 53 0.39
89 10 0.07
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (87 bp):
TAGTCCGCTCCACTACAACTTCAGGGAGATAAGATTGCAATTTCAATCTGCTCTGCTACAACTTC
AGGGAGATAAGATTAGTAGCTG
Found at i:74648064 original size:134 final size:136
Alignment explanation
Indices: 74647914--74648164 Score: 344
Period size: 134 Copynumber: 1.9 Consensus size: 136
74647904 CAACTTTAGG
* * * *
74647914 GAGATAAGACTTGTAACTTCAACATGCCCCATTGCAACTTCAGGGGGAGAA-GTTTGCCATGATC
1 GAGATAAGACTAGTAACTTCAACATGCCCCACTGCAACTTCAGAGAGAGAAGGTTTGCCATGATC
*
74647978 CGCTCTACTACAACTTTAGATAAATAAGATCTGTAA-TTATAACTTCAATCTATTCCACAACAAC
66 CGCTCTACTACAACTTTAGAGAAATAAGATCTGTAATTTATAACTTCAATCTATTCCACAACAAC
74648042 TTCAAA
131 TTCAAA
* * * * ***
74648048 GAGATAAGACTAGTAACTTCAACCTGCTCTACTGCAACTTCAGAGAGATAAGGTTTGTTTTGATC
1 GAGATAAGACTAGTAACTTCAACATGCCCCACTGCAACTTCAGAGAGAGAAGGTTTGCCATGATC
* * * *
74648113 TGCTCTACTGCAACTTTAGAGAGATAAGATCTGTAATTTATAGCTTCAATCT
66 CGCTCTACTACAACTTTAGAGAAATAAGATCTGTAATTTATAACTTCAATCT
74648165 GTTCTACTGC
Statistics
Matches: 99, Mismatches: 16, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
134 43 0.43
135 42 0.42
136 14 0.14
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (136 bp):
GAGATAAGACTAGTAACTTCAACATGCCCCACTGCAACTTCAGAGAGAGAAGGTTTGCCATGATC
CGCTCTACTACAACTTTAGAGAAATAAGATCTGTAATTTATAACTTCAATCTATTCCACAACAAC
TTCAAA
Found at i:74648273 original size:89 final size:89
Alignment explanation
Indices: 74648156--74648461 Score: 355
Period size: 89 Copynumber: 3.4 Consensus size: 89
74648146 TAATTTATAG
* * * * *
74648156 CTTCAATCTGTTCTACTGCAACTTCAGGGAAATAAGATTTGCTATCCTCAGTCTGCTCCACTGCA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAGTCTACTCCACTGCA
* *
74648221 ACTTCAAGGAGATAAGACTTGTGT
66 ACTTCAGGGAGATAAGACTAGTGT
* * * *
74648245 CTTCAACCTGCTCCACTGCAACTTCAGGGAGAGAAGGTTTGCTATCTTC-GATCTACTCCGCTGC
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAG-TCTACTCCACTGC
* *
74648309 AACTTCAGGGAGATAAGATCTACTAT
65 AACTTCAGGGAGATAAGA-CTAGTGT
* * * * * * * *
74648335 CTTCAGTCTGCTCCATTGTAACCTCAGGGAGATAAGACTTG-TAACTTCAGTCTACTTCACTGTA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAGTCTACTCCACTGCA
* *
74648399 ACTTTAGGGAGATAAGACTAGTGG
66 ACTTCAGGGAGATAAGACTAGTGT
* *
74648423 CTTTAATCTGCACCACTGCAACTTCAGGGAGATAAGATT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
74648462 CGCCATAATG
Statistics
Matches: 178, Mismatches: 36, Indels: 7
0.81 0.16 0.03
Matches are distributed among these distances:
88 37 0.21
89 103 0.58
90 38 0.21
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.30
Consensus pattern (89 bp):
CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAGTCTACTCCACTGCA
ACTTCAGGGAGATAAGACTAGTGT
Found at i:74654727 original size:6 final size:6
Alignment explanation
Indices: 74654708--74654811 Score: 52
Period size: 6 Copynumber: 16.3 Consensus size: 6
74654698 AAATATATAA
* *
74654708 AAAAAT -AAAA- AAAAAT AAAACAT -TAAAT AAAACATT AAATAAA ACAAAAT
1 AAAAAT AAAAAT AAAAAT AAAA-AT AAAAAT AAAA-A-T AAA-AAT A-AAAAT
* * * *
74654758 AAGAGAT AATAAT AATAAT AAAAAT AAAGAAT AATAACAT AAAAAT AATAAT
1 AA-AAAT AAAAAT AAAAAT AAAAAT AAA-AAT AA-AA-AT AAAAAT AAAAAT
74654810 AA
1 AA
74654812 TAGTAATAAT
Statistics
Matches: 77, Mismatches: 9, Indels: 24
0.70 0.08 0.22
Matches are distributed among these distances:
5 10 0.13
6 34 0.44
7 20 0.26
8 12 0.16
9 1 0.01
ACGTcount: A:0.73, C:0.04, G:0.03, T:0.20
Consensus pattern (6 bp):
AAAAAT
Found at i:74654735 original size:12 final size:12
Alignment explanation
Indices: 74654720--74654753 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
74654710 AAATAAAAAA
74654720 AAATAAAACATT
1 AAATAAAACATT
74654732 AAATAAAACATT
1 AAATAAAACATT
74654744 AAATAAAACA
1 AAATAAAACA
74654754 AAATAAGAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.71, C:0.09, G:0.00, T:0.21
Consensus pattern (12 bp):
AAATAAAACATT
Found at i:74654771 original size:3 final size:3
Alignment explanation
Indices: 74654763--74654907 Score: 121
Period size: 3 Copynumber: 47.3 Consensus size: 3
74654753 AAAATAAGAG
* * * *
74654763 ATA ATA ATA ATA ATA AAA ATAA AGA ATA ATA A-C ATA AAA ATA ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA
* ** * *
74654808 ATA ATA GTA ATA ATA ATA AGC ATG ATA ATA ATA ATA ATA CTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
74654856 AGA ACA ATG ATA ATA ATA ATA ATA ATA ATTA ATTA ATTA ATT ATA CTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA A-TA A-TA ATA ATA ATA
74654904 ATA A
1 ATA A
74654908 AACAACAAAA
Statistics
Matches: 113, Mismatches: 26, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
2 1 0.01
3 99 0.88
4 13 0.12
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:74654791 original size:42 final size:42
Alignment explanation
Indices: 74654745--74654826 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 42
74654735 TAAAACATTA
74654745 AATAA-AACA-AAATAAGAGATAATAATAATAATAAAAATAAAG
1 AATAATAACATAAA-AAGA-ATAATAATAATAATAAAAATAAAG
* * *
74654787 AATAATAACATAAAAATAATAATAATAGTAATAATAATAA
1 AATAATAACATAAAAAGAATAATAATAATAATAAAAATAA
74654827 GCATGATAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
42 25 0.71
43 7 0.20
44 3 0.09
ACGTcount: A:0.70, C:0.02, G:0.05, T:0.23
Consensus pattern (42 bp):
AATAATAACATAAAAAGAATAATAATAATAATAAAAATAAAG
Found at i:74654845 original size:33 final size:32
Alignment explanation
Indices: 74654766--74654884 Score: 148
Period size: 33 Copynumber: 3.6 Consensus size: 32
74654756 ATAAGAGATA
* * *
74654766 ATAATAATAATAAAAATAAAGAATAATAACATA
1 ATAATAATAATAATAAT-AATAATAATAACATG
* *
74654799 AAAATAATAATAATAGTAATAATAATAAGCATG
1 ATAATAATAATAATAATAATAATAATAA-CATG
* *
74654832 ATAATAATAATAATACTAATAATAAGAACAATG
1 ATAATAATAATAATAATAATAATAATAAC-ATG
74654865 ATAATAATAATAATAATAAT
1 ATAATAATAATAATAATAAT
74654885 TAATTAATTA
Statistics
Matches: 75, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
32 11 0.15
33 64 0.85
ACGTcount: A:0.64, C:0.03, G:0.05, T:0.28
Consensus pattern (32 bp):
ATAATAATAATAATAATAATAATAATAACATG
Found at i:74655582 original size:13 final size:13
Alignment explanation
Indices: 74655557--74655589 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
74655547 ACTGTTTCGT
74655557 AAAAAAAAGAAAG
1 AAAAAAAAGAAAG
74655570 AAAAAGAAA-AAAG
1 AAAAA-AAAGAAAG
74655583 AAAAAAA
1 AAAAAAA
74655590 CCTTAGCCCG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 2 0.11
13 14 0.74
14 3 0.16
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAAAAAGAAAG
Found at i:74656532 original size:25 final size:27
Alignment explanation
Indices: 74656481--74656542 Score: 74
Period size: 25 Copynumber: 2.4 Consensus size: 27
74656471 GTTGTTTTAC
*
74656481 AATTTTATATATTTTTATAAATTTATA
1 AATTTTATATATTTTTATAAATGTATA
*
74656508 AATTTTA-AT-TTTTTATTAATGTATA
1 AATTTTATATATTTTTATAAATGTATA
* *
74656533 TATTATATAT
1 AATTTTATAT
74656543 TATGAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
25 19 0.63
26 4 0.13
27 7 0.23
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.60
Consensus pattern (27 bp):
AATTTTATATATTTTTATAAATGTATA
Found at i:74657307 original size:25 final size:25
Alignment explanation
Indices: 74657235--74657299 Score: 121
Period size: 25 Copynumber: 2.6 Consensus size: 25
74657225 ACAAAATTAA
*
74657235 ATAGTTAGGTGACCAAAAAAGAATT
1 ATAGTTAGGTGACCAAAAAATAATT
74657260 ATAGTTAGGTGACCAAAAAATAATT
1 ATAGTTAGGTGACCAAAAAATAATT
74657285 ATAGTTAGGTGACCA
1 ATAGTTAGGTGACCA
74657300 TTTTATAACT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.45, C:0.09, G:0.20, T:0.26
Consensus pattern (25 bp):
ATAGTTAGGTGACCAAAAAATAATT
Found at i:74660648 original size:56 final size:56
Alignment explanation
Indices: 74660587--74660743 Score: 244
Period size: 56 Copynumber: 2.8 Consensus size: 56
74660577 TATAAACTGT
74660587 TAGGATATTATTATGGGATATTATCTTTTAGCAATTTGATTCCTAAT-AGGATATTA
1 TAGGATATTATTATGGGATATTATCTTTTAGCAATTTGATTCCTAATGA-GATATTA
*
74660643 TAGGATATTATTATGGGATATTATCTATTAGCAATTTGATTCCTAATGAGATATTA
1 TAGGATATTATTATGGGATATTATCTTTTAGCAATTTGATTCCTAATGAGATATTA
* * * **
74660699 TAAGATATTATTATGAGATATTATGTTTTAATAATTTGATTCCTA
1 TAGGATATTATTATGGGATATTATCTTTTAGCAATTTGATTCCTA
74660744 CGTAACTACT
Statistics
Matches: 93, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
56 92 0.99
57 1 0.01
ACGTcount: A:0.34, C:0.06, G:0.15, T:0.45
Consensus pattern (56 bp):
TAGGATATTATTATGGGATATTATCTTTTAGCAATTTGATTCCTAATGAGATATTA
Found at i:74662200 original size:28 final size:29
Alignment explanation
Indices: 74662157--74662228 Score: 83
Period size: 29 Copynumber: 2.5 Consensus size: 29
74662147 GGGTTTTTTT
* *
74662157 TACCAAAATAGGACAA-AAAATAATAAAA
1 TACCAAAATAGTACAAGAAAAAAATAAAA
* * **
74662185 TACCAAAATAATACAAGAAAAAAATTATG
1 TACCAAAATAGTACAAGAAAAAAATAAAA
74662214 TACCAAAATAGTACA
1 TACCAAAATAGTACA
74662229 TTCAGGGTGG
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
28 14 0.39
29 22 0.61
ACGTcount: A:0.62, C:0.12, G:0.07, T:0.18
Consensus pattern (29 bp):
TACCAAAATAGTACAAGAAAAAAATAAAA
Found at i:74662623 original size:20 final size:18
Alignment explanation
Indices: 74662561--74662646 Score: 74
Period size: 17 Copynumber: 4.9 Consensus size: 18
74662551 GATTTTTATA
* *
74662561 TTGTTATT-TTGTTTTTG
1 TTGTTATTATTATTGTTG
74662578 TTGTTATTATTATTGTTG
1 TTGTTATTATTATTGTTG
* *
74662596 AT-TT-TTATTGATTCTTG
1 TTGTTATTATT-ATTGTTG
74662613 TTGTTAGTTATTATTG-T-
1 TTGTTA-TTATTATTGTTG
*
74662630 TAGTTATTATTATTGTT
1 TTGTTATTATTATTGTT
74662647 AGTAAAAAAA
Statistics
Matches: 56, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
16 14 0.25
17 23 0.41
18 11 0.20
19 3 0.05
20 5 0.09
ACGTcount: A:0.16, C:0.01, G:0.15, T:0.67
Consensus pattern (18 bp):
TTGTTATTATTATTGTTG
Found at i:74662631 original size:13 final size:13
Alignment explanation
Indices: 74662613--74662640 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
74662603 TTGATTCTTG
74662613 TTGTTAGTTATTA
1 TTGTTAGTTATTA
74662626 TTGTTAGTTATTA
1 TTGTTAGTTATTA
74662639 TT
1 TT
74662641 ATTGTTAGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.00, G:0.14, T:0.64
Consensus pattern (13 bp):
TTGTTAGTTATTA
Found at i:74662639 original size:16 final size:16
Alignment explanation
Indices: 74662575--74662649 Score: 73
Period size: 16 Copynumber: 4.5 Consensus size: 16
74662565 TATTTTGTTT
74662575 TTGTT-GTTATTATTA
1 TTGTTAGTTATTATTA
* *
74662590 TTGTTGATTTTTATTGATTC
1 TTGTT-A--GTTATT-ATTA
74662610 TTGTT-GTTAGTTATTA
1 TTGTTAGTTA-TTATTA
74662626 TTGTTAGTTATTATTA
1 TTGTTAGTTATTATTA
74662642 TTGTTAGT
1 TTGTTAGT
74662650 AAAAAAACTA
Statistics
Matches: 49, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
15 5 0.10
16 25 0.51
17 6 0.12
19 5 0.10
20 8 0.16
ACGTcount: A:0.19, C:0.01, G:0.16, T:0.64
Consensus pattern (16 bp):
TTGTTAGTTATTATTA
Found at i:74662640 original size:36 final size:33
Alignment explanation
Indices: 74662561--74662640 Score: 99
Period size: 36 Copynumber: 2.3 Consensus size: 33
74662551 GATTTTTATA
*
74662561 TTGTTATT-TTGTTTTTGTTGTTATTATTATTG
1 TTGTTATTATTGTTCTTGTTGTTATTATTATTG
*
74662593 TTGATTTTTATTGATTCTTGTTGTTAGTTATTATTG
1 TTG-TTATTATTG-TTCTTGTTGTTA-TTATTATTG
74662629 TTAGTTATTATT
1 TT-GTTATTATT
74662641 ATTGTTAGTA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
32 3 0.08
33 4 0.10
34 3 0.08
35 11 0.28
36 18 0.45
37 1 0.03
ACGTcount: A:0.16, C:0.01, G:0.15, T:0.68
Consensus pattern (33 bp):
TTGTTATTATTGTTCTTGTTGTTATTATTATTG
Found at i:74669182 original size:13 final size:13
Alignment explanation
Indices: 74669132--74669196 Score: 60
Period size: 13 Copynumber: 4.8 Consensus size: 13
74669122 TGTTAGTATT
**
74669132 TTTTATTTTCGAA
1 TTTTATTTTTTAA
74669145 TTTTATTTTTTAAAA
1 TTTTATTTTTT--AA
74669160 TATATTATTTTTTAA
1 T-T-TTATTTTTTAA
74669175 TTTTATTTTTT-A
1 TTTTATTTTTTAA
*
74669187 TATTATTTTT
1 TTTTATTTTT
74669197 GTACATGATG
Statistics
Matches: 45, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
12 10 0.22
13 18 0.40
14 1 0.02
15 6 0.13
16 1 0.02
17 9 0.20
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.71
Consensus pattern (13 bp):
TTTTATTTTTTAA
Found at i:74669192 original size:12 final size:12
Alignment explanation
Indices: 74669160--74669196 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
74669150 TTTTTTAAAA
74669160 TATATTATTTTT
1 TATATTATTTTT
*
74669172 TAATTTTATTTTT
1 T-ATATTATTTTT
74669185 TATATTATTTTT
1 TATATTATTTTT
74669197 GTACATGATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
TATATTATTTTT
Found at i:74669333 original size:12 final size:12
Alignment explanation
Indices: 74669312--74669346 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
74669302 TTTTTTAAAA
74669312 TATATTATTTTT
1 TATATTATTTTT
*
74669324 TATTTTATTTTT
1 TATATTATTTTT
74669336 TATATTATTTT
1 TATATTATTTT
74669347 AGTACATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (12 bp):
TATATTATTTTT
Found at i:74669835 original size:149 final size:147
Alignment explanation
Indices: 74669108--74670205 Score: 1296
Period size: 148 Copynumber: 7.6 Consensus size: 147
74669098 TTTTGTTCGG
* * *
74669108 TGATTTTGGCCCTTTGTT-AGTATTTTTTATTTTCGAATTTTATTTTTTAAAATATATTATTTTT
1 TGATTTTGGCACTTTGTTGA-TATTTTTTATTTTCGAATTTTATTTTTTAAAATATACTATTTTG
* * *
74669172 TAATTTTATTTTTTATATTATTTTTGTACATGATGTTGT--AATGTATTATTTAAGTGTTTTATT
65 T-ATTTTATTTTTTATATTATTTTAGTACATAATGTT-TCAAATGTATTATTTTAGTGTTTT-TT
* * *
74669235 ATATTAATTTAATAAATAGCCCC
127 -TAATAATTTAGTAAATA-ACCC
* *
74669258 TGATTTTGGCACTTTGTTGATATTTTTTTTATTTTCAAATTTTATTTTTTAAAATATATTATTTT
1 TGATTTTGGCACTTTGTTGATA--TTTTTTATTTTCGAATTTTATTTTTTAAAATATACTATTTT
* *
74669323 TTATTTTATTTTTTATATTATTTTAGTACATAATGTTT----TGTATTATTTAAGTGTTTTTTAT
64 GTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTT-T
* *
74669384 ATTAATTTAATAAATAACCC
128 AATAATTTAGTAAATAACCC
* *
74669404 GGATTTTGGCACTTTGTTGGTA---TTT-TTTT---ATTTTATTTTTTAAAATATACTATTTTTG
1 TGATTTTGGCACTTTGTTGATATTTTTTATTTTCGAATTTTATTTTTTAAAATATACTA-TTTTG
*
74669462 AATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTA---TTTTTTTAA
65 TATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTTAA
74669524 TAATTTAGTAAATAACCC
130 TAATTTAGTAAATAACCC
* *
74669542 TGATTTTGGCACTATGTTGGT-TTTTTTATTTTCGAATTTTATTTTTTGAAAATAT--TATTTTT
1 TGATTTTGGCACTTTGTTGATATTTTTTATTTTCGAATTTTATTTTTT-AAAATATACTA-TTTT
* *
74669604 GTATTTTATTTTTTTATATTTTTTTAGTACATAATGTTTCAAATGTATTATTTAAGTGTTTTTTA
64 GTATTTTA-TTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTT-
* *
74669669 TATTAATTTAATAAATAACCC
127 TAATAATTTAGTAAATAACCC
*
74669690 TGATTTTGGCACTTTGTTGATATTTTTTATTTTCAAATTTTATTTTTTAAAATATACTATTTTCG
1 TGATTTTGGCACTTTGTTGATATTTTTTATTTTCGAATTTTATTTTTTAAAATATACTATTTT-G
*
74669755 TATTTTATTTTTTTATATTATTTTAGTACATAATATTTCAAATGTATTATTTTAGTGTTTTTTTA
65 TATTTTA-TTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTTA
74669820 ATAATTTAGTAAATAACCC
129 ATAATTTAGTAAATAACCC
* * * *
74669839 TGATTTTGGCACTTTGTTGGTA-TTTTT-TTTT--AA----A-TATGT----TAT--T--TTCGT
1 TGATTTTGGCACTTTGTTGATATTTTTTATTTTCGAATTTTATTTTTTAAAATATACTATTTTGT
74669887 ATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTTAAT
66 ATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTTAAT
74669952 AATTTAGTAAATAACCC
131 AATTTAGTAAATAACCC
* * * *
74669969 TGATTTTGGTC-CTTTGTTTATATTTTTAAAATTTTTGGATTTTATTTTTTAAAATATACTATTT
1 TGATTTTGG-CACTTTGTTGATATTTTT--TATTTTCGAATTTTATTTTTTAAAATATACTATTT
* *
74670033 TCGTATTTTA-TTTTTATATTATTTTAATACATAATGTTTCAAATGTATCATTTTAGT-TTTTTT
63 T-GTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTT
*
74670096 TAATAATTTAGTAAATAACAC
127 TAATAATTTAGTAAATAACCC
* * * *
74670117 TGGTTTTGGCCCTTTGTTTG-TGTTTTTTAAATTTTCGGATTTTATTTTTTAAAATATACTA-TT
1 TGATTTTGGCACTTTG-TTGATATTTTTT--ATTTTCGAATTTTATTTTTTAAAATATACTATTT
*
74670180 T-TA--GTATTTTTTATATTATTTTAGTA
63 TGTATTTTATTTTTTATATTATTTTAGTA
74670206 AAAAACCCAC
Statistics
Matches: 847, Mismatches: 50, Indels: 108
0.84 0.05 0.11
Matches are distributed among these distances:
130 93 0.11
131 13 0.02
132 2 0.00
134 5 0.01
136 4 0.00
137 22 0.03
138 78 0.09
139 6 0.01
140 11 0.01
141 11 0.01
142 11 0.01
143 16 0.02
144 74 0.09
145 14 0.02
146 23 0.03
147 35 0.04
148 144 0.17
149 118 0.14
150 91 0.11
151 34 0.04
152 42 0.05
ACGTcount: A:0.27, C:0.06, G:0.09, T:0.58
Consensus pattern (147 bp):
TGATTTTGGCACTTTGTTGATATTTTTTATTTTCGAATTTTATTTTTTAAAATATACTATTTTGT
ATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTTAAT
AATTTAGTAAATAACCC
Found at i:74669882 original size:131 final size:130
Alignment explanation
Indices: 74669732--74669995 Score: 449
Period size: 130 Copynumber: 2.0 Consensus size: 130
74669722 TCAAATTTTA
74669732 TTTTTTAAAATATACTATTTTCGTATTTTATTTTTTTATATTATTTTAGTACATAATATTTCAAA
1 TTTTTTAAAATATACTATTTTCGTATTTTA-TTTTTTATATTATTTTAGTACATAATATTTCAAA
*
74669797 TGTATTATTTTAGTGTTTTTTTAATAATTTAGTAAATAACCCTGATTTTGG-CACTTTGTTGGTA
65 TGTATTATTTTAGTGTTTTTTTAATAATTTAGTAAATAACCCTGATTTTGGTC-CTTTGTTGATA
74669861 TT
129 TT
* ** *
74669863 TTTTTTTAAATATGTTATTTTCGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAAT
1 TTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTATTTTAGTACATAATATTTCAAAT
*
74669928 GTATTATTTTAGTGTTTTTTTAATAATTTAGTAAATAACCCTGATTTTGGTCCTTTGTTTATATT
66 GTATTATTTTAGTGTTTTTTTAATAATTTAGTAAATAACCCTGATTTTGGTCCTTTGTTGATATT
74669993 TTT
1 TTT
74669996 AAAATTTTTG
Statistics
Matches: 126, Mismatches: 6, Indels: 3
0.93 0.04 0.02
Matches are distributed among these distances:
130 98 0.78
131 28 0.22
ACGTcount: A:0.27, C:0.06, G:0.09, T:0.58
Consensus pattern (130 bp):
TTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTATTTTAGTACATAATATTTCAAAT
GTATTATTTTAGTGTTTTTTTAATAATTTAGTAAATAACCCTGATTTTGGTCCTTTGTTGATATT
Found at i:74670340 original size:7 final size:7
Alignment explanation
Indices: 74670328--74670352 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
74670318 CCCACCACAT
74670328 AAAAATA
1 AAAAATA
74670335 AAAAATA
1 AAAAATA
74670342 AAAAATA
1 AAAAATA
74670349 AAAA
1 AAAA
74670353 TAATTAGAAT
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:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAATA
Found at i:74670805 original size:3 final size:3
Alignment explanation
Indices: 74670797--74670859 Score: 62
Period size: 3 Copynumber: 22.0 Consensus size: 3
74670787 CTCCTTCTCT
* *
74670797 TTC TTC TTC TTCC AT- TTC TT- TTC TTC TTC TTC TCC TTC TT- TTC
1 TTC TTC TTC TT-C TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
*
74670840 TTC TTC TCC TTC TT- TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC
74670860 CCGAAATGAA
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
2 7 0.14
3 40 0.82
4 2 0.04
ACGTcount: A:0.02, C:0.33, G:0.00, T:0.65
Consensus pattern (3 bp):
TTC
Found at i:74670821 original size:20 final size:18
Alignment explanation
Indices: 74670788--74670859 Score: 92
Period size: 20 Copynumber: 3.8 Consensus size: 18
74670778 CTCACCAGCC
74670788 TCCTTCTCTTTCTTCTTCT
1 TCCTTCT-TTTCTTCTTCT
74670807 TCCATTTCTTTTCTTCTTCTT
1 TCC--TTCTTTTCTTCTTC-T
74670828 CTCCTTCTTTTCTTCTTC-
1 -TCCTTCTTTTCTTCTTCT
74670846 TCCTTCTTTTCTTC
1 TCCTTCTTTTCTTC
74670860 CCGAAATGAA
Statistics
Matches: 49, Mismatches: 0, Indels: 10
0.83 0.00 0.17
Matches are distributed among these distances:
17 14 0.29
19 3 0.06
20 24 0.49
21 5 0.10
22 3 0.06
ACGTcount: A:0.01, C:0.35, G:0.00, T:0.64
Consensus pattern (18 bp):
TCCTTCTTTTCTTCTTCT
Found at i:74670840 original size:17 final size:17
Alignment explanation
Indices: 74670787--74670859 Score: 83
Period size: 17 Copynumber: 3.9 Consensus size: 17
74670777 TCTCACCAGC
74670787 CTCCTTCTCTTTCTTCTT
1 CTCCTTCT-TTTCTTCTT
74670805 CTTCCATTTCTTTTCTTCTTCTT
1 C-TCC--TTC--TT-TTCTTCTT
74670828 CTCCTTCTTTTCTTCTT
1 CTCCTTCTTTTCTTCTT
74670845 CTCCTTCTTTTCTTC
1 CTCCTTCTTTTCTTC
74670860 CCGAAATGAA
Statistics
Matches: 49, Mismatches: 0, Indels: 13
0.79 0.00 0.21
Matches are distributed among these distances:
17 23 0.47
18 3 0.06
19 3 0.06
20 3 0.06
21 3 0.06
22 4 0.08
23 10 0.20
ACGTcount: A:0.01, C:0.36, G:0.00, T:0.63
Consensus pattern (17 bp):
CTCCTTCTTTTCTTCTT
Found at i:74680260 original size:27 final size:28
Alignment explanation
Indices: 74680176--74680273 Score: 144
Period size: 27 Copynumber: 3.5 Consensus size: 28
74680166 CATGAGATTG
* * *
74680176 GCACTAAGTGTGCGAGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
74680205 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
74680233 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
74680260 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
74680274 GACTTAATAT
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
27 24 0.37
28 22 0.34
29 19 0.29
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:74680284 original size:27 final size:27
Alignment explanation
Indices: 74680176--74680286 Score: 98
Period size: 27 Copynumber: 4.0 Consensus size: 27
74680166 CATGAGATTG
* * * *
74680176 GCACTAAGTGTGCGAGTTTAAATTGTACA
1 GCACTAAGTGTGCGA-CTTGAA-TATATA
* *
74680205 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTGAATATATA
* *
74680233 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTGAATATATA
*
74680260 GCACTGAGTGTGCGGACTT-AATATATA
1 GCACTAAGTGTGC-GACTTGAATATATA
74680287 TTTTTGAATC
Statistics
Matches: 73, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
27 30 0.41
28 23 0.32
29 20 0.27
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.32
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTGAATATATA
Found at i:74680287 original size:29 final size:27
Alignment explanation
Indices: 74680176--74680287 Score: 107
Period size: 28 Copynumber: 4.0 Consensus size: 27
74680166 CATGAGATTG
* * *
74680176 GCACTAAGTGTGCGAGTTTAAATTGTACA
1 GCACTAAGTGTGCGA-CTT-AATTATATA
* *
74680205 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
74680233 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
74680260 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
74680288 TTTTGAATCA
Statistics
Matches: 74, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
27 23 0.31
28 27 0.36
29 24 0.32
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:74687110 original size:14 final size:14
Alignment explanation
Indices: 74687093--74687122 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
74687083 TTAAAACAAG
*
74687093 AATTAAGAACACAT
1 AATTAAGAACAAAT
74687107 AATTAAGAACAAAT
1 AATTAAGAACAAAT
74687121 AA
1 AA
74687123 AATATTTATC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.63, C:0.10, G:0.07, T:0.20
Consensus pattern (14 bp):
AATTAAGAACAAAT
Found at i:74688017 original size:46 final size:46
Alignment explanation
Indices: 74687930--74688146 Score: 219
Period size: 46 Copynumber: 4.7 Consensus size: 46
74687920 AGGGTATAAT
* * *
74687930 GCCGATGTCATGTCCCAGACATGGTCTTACACT-G-ACACATCTCGTA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATCTCGAA
* *
74687976 GCCGATGCATGTCCCAAACATGTTTTACACTGGCT-TACATCTCGAA
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCT-CATCTCGAA
* * * *
74688022 GTCGATGCATGTCCCAGACATATCTTACACTAGCTCTCGTCTC-AA
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCGAA
* * **
74688067 TGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAAT-GTG
1 -GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCAT-CTCGAA
74688116 GCCGATGCATGTCCCAGACATGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
74688147 AGCACACAAA
Statistics
Matches: 142, Mismatches: 20, Indels: 18
0.79 0.11 0.10
Matches are distributed among these distances:
44 9 0.06
45 16 0.11
46 66 0.46
47 27 0.19
48 23 0.16
49 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCGAA
Found at i:74688122 original size:94 final size:92
Alignment explanation
Indices: 74687976--74688149 Score: 244
Period size: 94 Copynumber: 1.9 Consensus size: 92
74687966 ACATCTCGTA
* * *
74687976 GCCGATGCATGTCCCAAACATGTTTTACACTGGCTTACATCTCGAAGTCGATGCATGTCCCAGAC
1 GCCGATGCATGTCCCAAACATGTCTTACACTGGCTTACATATCGAAGCCGATGCATGTCCCAGAC
74688041 ATATCTTACACTAGCTCTCGTCTCAAT
66 ATATCTTACACTAGCTCTCGTCTCAAT
**
74688068 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCT-CATAAT-GTGGCCGATGCATGTCCC
1 GCCGATG-CATGTCCCAAACAT-GTCTTACACTGGCT-TACAT-ATCGAAGCCGATGCATGTCCC
*
74688131 AGACATGTCTTACACTAGC
62 AGACATATCTTACACTAGC
74688150 ACACAAATAA
Statistics
Matches: 72, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
92 7 0.10
93 14 0.19
94 49 0.68
95 2 0.03
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (92 bp):
GCCGATGCATGTCCCAAACATGTCTTACACTGGCTTACATATCGAAGCCGATGCATGTCCCAGAC
ATATCTTACACTAGCTCTCGTCTCAAT
Found at i:74689915 original size:46 final size:46
Alignment explanation
Indices: 74689817--74689907 Score: 164
Period size: 46 Copynumber: 2.0 Consensus size: 46
74689807 GTGGGGTGTT
* *
74689817 AGGATATTATTATGGGATATTATCTTTTAGCAATTTGATTCCTAAC
1 AGGATATAATTATGGGATATTATCTCTTAGCAATTTGATTCCTAAC
74689863 AGGATATAATTATGGGATATTATCTCTTAGCAATTTGATTCCTAA
1 AGGATATAATTATGGGATATTATCTCTTAGCAATTTGATTCCTAA
74689908 TGGGATATTA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.32, C:0.11, G:0.15, T:0.42
Consensus pattern (46 bp):
AGGATATAATTATGGGATATTATCTCTTAGCAATTTGATTCCTAAC
Found at i:74690207 original size:49 final size:49
Alignment explanation
Indices: 74690150--74690276 Score: 209
Period size: 49 Copynumber: 2.6 Consensus size: 49
74690140 AGGCGTGACC
* * **
74690150 TTGTAACATTCTCTCAAGAACAAGTAGATTCCTTGTGTCAGAGTTTTGA
1 TTGTAACATTCTCTCAAGTACAAGTAGATTCCTTGTGTCAGAATTTCAA
74690199 TTGTAACATTCTCTCAAGTACAAGTAGATTCCTTGTGTCAGAATTTCAA
1 TTGTAACATTCTCTCAAGTACAAGTAGATTCCTTGTGTCAGAATTTCAA
*
74690248 TTGTAACATTCTCTCAAGTACAAATAGAT
1 TTGTAACATTCTCTCAAGTACAAGTAGAT
74690277 ACTGTAGAGG
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 73 1.00
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.36
Consensus pattern (49 bp):
TTGTAACATTCTCTCAAGTACAAGTAGATTCCTTGTGTCAGAATTTCAA
Found at i:74690829 original size:2 final size:2
Alignment explanation
Indices: 74690824--74690850 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
74690814 TTTCTTTTAA
74690824 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
74690851 TATATAGACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:74691634 original size:25 final size:26
Alignment explanation
Indices: 74691585--74691635 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
74691575 GTGTATATAT
74691585 ATGAATATATTTATATATTACTATTA
1 ATGAATATATTTATATATTACTATTA
* * *
74691611 ATGATTATTTTTA-ATATTATTATTA
1 ATGAATATATTTATATATTACTATTA
74691636 TCATTTTGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 11 0.50
26 11 0.50
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (26 bp):
ATGAATATATTTATATATTACTATTA
Found at i:74691733 original size:13 final size:11
Alignment explanation
Indices: 74691705--74691739 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
74691695 ATATTATGAA
74691705 TTATATATATT
1 TTATATATATT
74691716 TTATATATATT
1 TTATATATATT
* *
74691727 ATGTATATATT
1 TTATATATATT
74691738 TT
1 TT
74691740 TTAAATATCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (11 bp):
TTATATATATT
Found at i:74691733 original size:20 final size:21
Alignment explanation
Indices: 74691649--74691734 Score: 59
Period size: 20 Copynumber: 3.8 Consensus size: 21
74691639 TTTTGAATAT
* *
74691649 ATATATATTGTATGTGT-TTTTC
1 ATATATA-T-TATGTATATTTTA
74691671 ATATATATTATGTATGTATTTTTA
1 ATATATATTATGTA--TA-TTTTA
*
74691695 ATATTATGAATTATATATATTTT-
1 ATA-TAT--ATTATGTATATTTTA
74691718 ATATATATTATGTATAT
1 ATATATATTATGTATAT
74691735 ATTTTTTAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 16
0.73 0.05 0.22
Matches are distributed among these distances:
20 15 0.28
21 1 0.02
22 11 0.21
23 3 0.06
24 11 0.21
25 5 0.09
27 7 0.13
ACGTcount: A:0.34, C:0.01, G:0.08, T:0.57
Consensus pattern (21 bp):
ATATATATTATGTATATTTTA
Found at i:74691741 original size:24 final size:24
Alignment explanation
Indices: 74691578--74692038 Score: 135
Period size: 24 Copynumber: 19.8 Consensus size: 24
74691568 TTTATATGTG
* *
74691578 TATATA-TATGAATATA-TTTATA
1 TATATATTATGTATATATTTTTTA
*
74691600 TATTACTATTAATG-AT-TATTTTTAA
1 TA-TA-TATT-ATGTATATATTTTTTA
* **
74691625 TAT-TATTAT-TAT-CATTTTGAA
1 TATATATTATGTATATATTTTTTA
* * *
74691646 TATATATATATTGTATGTGTTTTTCA
1 TATATAT-TA-TGTATATATTTTTTA
* *
74691672 TATATATTATGTATGTATTTTTAA
1 TATATATTATGTATATATTTTTTA
* *
74691696 TAT-TATGAAT-TATATATATTTTA
1 TATATAT-TATGTATATATTTTTTA
74691719 TATATATTATGTATATATTTTTTAAA
1 TATATATTATGTATATATTTTTT--A
* *
74691745 TATCATACTAT-TCATAT-CTTTTTA
1 TAT-ATATTATGT-ATATATTTTTTA
* *
74691769 TGT-TATCTCATGTATATATTTTTAA
1 TATATAT-T-ATGTATATATTTTTTA
*
74691794 AAT-TATTA-GTTATATATATTTTTA
1 TATATATTATG-TATATAT-TTTTTA
74691818 TACTAT-TTCATGTATATA-TTTTTA
1 TA-TATATT-ATGTATATATTTTTTA
** *
74691842 TAT-TATCCT-TAT-TA-TTATTA
1 TATATATTATGTATATATTTTTTA
*
74691862 T-TGATATTA-G--TATATGTTTTA
1 TAT-ATATTATGTATATATTTTTTA
* *
74691883 T-TATA-TATGTATATATCTTTAA
1 TATATATTATGTATATATTTTTTA
* * *
74691905 TATATATATAGGTATATA-TTTATG
1 TATATAT-TATGTATATATTTTTTA
*
74691929 TA-ATATTAT-TA-ATAGGTGTTTT-
1 TATATATTATGTATATA--TTTTTTA
* * * ** * *
74691951 TA-ACATTAT-TATTTCTAATATG
1 TATATATTATGTATATATTTTTTA
* *
74691973 TATATATTATGTAAATA-TTTTAA
1 TATATATTATGTATATATTTTTTA
* **
74691996 TATTATATTATATATGCATTTTTTA
1 TA-TATATTATGTATATATTTTTTA
74692021 TATATATTATGTATATAT
1 TATATATTATGTATATAT
74692039 ACCTTTTTAA
Statistics
Matches: 324, Mismatches: 66, Indels: 96
0.67 0.14 0.20
Matches are distributed among these distances:
19 4 0.01
20 17 0.05
21 31 0.10
22 38 0.12
23 54 0.17
24 93 0.29
25 43 0.13
26 33 0.10
27 11 0.03
ACGTcount: A:0.34, C:0.04, G:0.06, T:0.56
Consensus pattern (24 bp):
TATATATTATGTATATATTTTTTA
Found at i:74691799 original size:25 final size:24
Alignment explanation
Indices: 74691676--74691841 Score: 69
Period size: 23 Copynumber: 6.8 Consensus size: 24
74691666 TTTTCATATA
* *
74691676 TATT-ATGTATGTATTTTTAATAT
1 TATTCATGTATATATTTTTAAAAT
** *
74691699 TATGAAT-TATATATATTTT-ATAT
1 TATTCATGTATATAT-TTTTAAAAT
*
74691722 ATATT-ATGTATATATTTTTTAAA-
1 -TATTCATGTATATATTTTTAAAAT
* * **
74691745 TA-TCATACTATTCATATCTTTTTATGT
1 TATTCAT-GTA-T-ATAT-TTTTAAAAT
74691772 TATCTCATGTATATATTTTTAAAAT
1 TAT-TCATGTATATATTTTTAAAAT
* * *
74691797 TATT-A-GTTATATATATTTTTATAC
1 TATTCATG-TATATAT-TTTTAAAAT
74691821 TATTTCATGTATATATTTTTA
1 TA-TTCATGTATATATTTTTA
74691842 TATTATCCTT
Statistics
Matches: 110, Mismatches: 15, Indels: 34
0.69 0.09 0.21
Matches are distributed among these distances:
21 1 0.01
22 5 0.05
23 29 0.26
24 28 0.25
25 19 0.17
26 18 0.16
27 4 0.04
28 2 0.02
29 4 0.04
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.57
Consensus pattern (24 bp):
TATTCATGTATATATTTTTAAAAT
Found at i:74691829 original size:49 final size:47
Alignment explanation
Indices: 74691665--74691841 Score: 155
Period size: 49 Copynumber: 3.6 Consensus size: 47
74691655 ATTGTATGTG
* * *
74691665 TTTTTCATATATATT-ATGTATGTATTTTTAATATTATGAATTATATATA
1 TTTTT-ATATAT-TTCATGTATATATTTTTAAAATTAT-TATTATATATA
* * *
74691714 -TTTTATATATATT-ATGTATATATTTTTTAAATATCATACTATT-CATATC
1 TTTTTATATAT-TTCATGTATATA-TTTTTAAA-AT--TATTATTATATATA
* *
74691763 TTTTTATGTTATCTCATGTATATATTTTTAAAATTATTAGTTATATATA
1 TTTTTAT-ATATTTCATGTATATATTTTTAAAATTATTA-TTATATATA
74691812 TTTTTATACTATTTCATGTATATATTTTTA
1 TTTTTATA-TATTTCATGTATATATTTTTA
74691842 TATTATCCTT
Statistics
Matches: 105, Mismatches: 13, Indels: 20
0.76 0.09 0.14
Matches are distributed among these distances:
47 21 0.20
48 13 0.12
49 39 0.37
50 18 0.17
51 14 0.13
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.58
Consensus pattern (47 bp):
TTTTTATATATTTCATGTATATATTTTTAAAATTATTATTATATATA
Found at i:74691903 original size:21 final size:20
Alignment explanation
Indices: 74691871--74691911 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
74691861 ATTGATATTA
* *
74691871 GTATATGTTTTATTATATAT
1 GTATATATTTTAATATATAT
74691891 GTATATATCTTTAATATATAT
1 GTATATAT-TTTAATATATAT
74691912 ATAGGTATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.34, C:0.02, G:0.07, T:0.56
Consensus pattern (20 bp):
GTATATATTTTAATATATAT
Found at i:74692019 original size:26 final size:25
Alignment explanation
Indices: 74691990--74692057 Score: 73
Period size: 28 Copynumber: 2.6 Consensus size: 25
74691980 TATGTAAATA
* *
74691990 TTTTAATATTATATTATATATGCAT
1 TTTTAATATTATATTATATATACCT
*
74692015 TTTTTATATATATTATGTATATATACCT
1 TTTTAATAT-TA-TAT-TATATATACCT
*
74692043 TTTTAATATTGTATT
1 TTTTAATATTATATT
74692058 TTTATCTATA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
25 9 0.26
26 5 0.14
27 4 0.11
28 17 0.49
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.59
Consensus pattern (25 bp):
TTTTAATATTATATTATATATACCT
Found at i:74692146 original size:28 final size:27
Alignment explanation
Indices: 74692094--74692191 Score: 105
Period size: 25 Copynumber: 3.7 Consensus size: 27
74692084 AATACTATAT
* *
74692094 TATATTTTTTTACATA-T-TATCTTATG
1 TATATATTTTTA-ATACTATATATTATG
74692120 TATATATTTTTAATAACTATATATTATG
1 TATATATTTTTAAT-ACTATATATTATG
* *
74692148 TATGTATTTTTAACA-T-TATATTATG
1 TATATATTTTTAATACTATATATTATG
*
74692173 TACATATTTTTAATACTAT
1 TATATATTTTTAATACTAT
74692192 GTATATACTT
Statistics
Matches: 60, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
25 23 0.38
26 14 0.23
27 3 0.05
28 20 0.33
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.56
Consensus pattern (27 bp):
TATATATTTTTAATACTATATATTATG
Found at i:74692194 original size:20 final size:21
Alignment explanation
Indices: 74692169--74692212 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
74692159 AACATTATAT
*
74692169 TATGTACATA-TTTTTAATAC
1 TATGTACATACTTTGTAATAC
*
74692189 TATGTATATACTTTGTAATAC
1 TATGTACATACTTTGTAATAC
74692210 TAT
1 TAT
74692213 TATTATGTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.34, C:0.09, G:0.07, T:0.50
Consensus pattern (21 bp):
TATGTACATACTTTGTAATAC
Found at i:74694064 original size:14 final size:13
Alignment explanation
Indices: 74694045--74694074 Score: 51
Period size: 13 Copynumber: 2.2 Consensus size: 13
74694035 CAAACTGTGA
74694045 AAAAAAATAAAAAT
1 AAAAAAAT-AAAAT
74694059 AAAAAAATAAAAT
1 AAAAAAATAAAAT
74694072 AAA
1 AAA
74694075 GAACACACAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (13 bp):
AAAAAAATAAAAT
Found at i:74696261 original size:21 final size:21
Alignment explanation
Indices: 74696237--74696277 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
74696227 TAATCTGATA
74696237 CTCCACCTACTTTTGATTTTG
1 CTCCACCTACTTTTGATTTTG
* *
74696258 CTCCACCTATTTTTTATTTT
1 CTCCACCTACTTTTGATTTT
74696278 CTTTATTGGA
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:0.15, C:0.27, G:0.05, T:0.54
Consensus pattern (21 bp):
CTCCACCTACTTTTGATTTTG
Found at i:74712594 original size:2 final size:2
Alignment explanation
Indices: 74712582--74712637 Score: 94
Period size: 2 Copynumber: 27.5 Consensus size: 2
74712572 TTTTCTGAAT
*
74712582 GA GA AA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
74712624 GA GA GA GA TGA GA G
1 GA GA GA GA -GA GA G
74712638 GAATAAGGAA
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
2 49 0.96
3 2 0.04
ACGTcount: A:0.50, C:0.00, G:0.48, T:0.02
Consensus pattern (2 bp):
GA
Found at i:74712907 original size:37 final size:37
Alignment explanation
Indices: 74712866--74712985 Score: 95
Period size: 33 Copynumber: 3.2 Consensus size: 37
74712856 TGAGTTGTAT
74712866 ATAATTTTATCTTTTAAAATTTATAATAATTACACCA
1 ATAATTTTATCTTTTAAAATTTATAATAATTACACCA
* * * * * *
74712903 ATAA--TT-T-TTTTAAATTTTATCGGATTATCAAGAGTTCTA
1 ATAATTTTATCTTTTAAAATTTAT--AATAAT-TACA---CCA
74712942 TATAATTTTATCTTTTAAAATTTATAATAATTACACCA
1 -ATAATTTTATCTTTTAAAATTTATAATAATTACACCA
74712980 ATAATT
1 ATAATT
74712986 CTAATTTTAT
Statistics
Matches: 60, Mismatches: 12, Indels: 22
0.64 0.13 0.23
Matches are distributed among these distances:
33 12 0.20
34 1 0.02
35 6 0.10
36 2 0.03
37 10 0.17
38 2 0.03
39 2 0.03
40 4 0.07
41 2 0.03
42 6 0.10
43 1 0.02
44 12 0.20
ACGTcount: A:0.40, C:0.09, G:0.03, T:0.47
Consensus pattern (37 bp):
ATAATTTTATCTTTTAAAATTTATAATAATTACACCA
Found at i:74712950 original size:77 final size:73
Alignment explanation
Indices: 74712857--74713006 Score: 246
Period size: 77 Copynumber: 2.0 Consensus size: 73
74712847 TAAAGAATTT
* *
74712857 GAGTTGTATATAATTTTATCTTTTAAAATTTATAATAATTACACCAATAATTTTTTTAAATTTTA
1 GAGTTCTATATAATTTTATCTTTTAAAATTTATAATAATTACACCAATAA---TTCT-AATTTTA
74712922 TCGGATTATCAA
62 TCGGATTATCAA
74712934 GAGTTCTATATAATTTTATCTTTTAAAATTTATAATAATTACACCAATAATTCTAATTTTATCGG
1 GAGTTCTATATAATTTTATCTTTTAAAATTTATAATAATTACACCAATAATTCTAATTTTATCGG
74712999 ATTATCAA
66 ATTATCAA
74713007 AATTTTTAAG
Statistics
Matches: 71, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
73 19 0.27
74 3 0.04
77 49 0.69
ACGTcount: A:0.38, C:0.09, G:0.06, T:0.47
Consensus pattern (73 bp):
GAGTTCTATATAATTTTATCTTTTAAAATTTATAATAATTACACCAATAATTCTAATTTTATCGG
ATTATCAA
Found at i:74715499 original size:14 final size:15
Alignment explanation
Indices: 74715467--74715499 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
74715457 TTTATTTTAA
74715467 AAAATTAAATTAATT
1 AAAATTAAATTAATT
74715482 -AAATTAAATT-ATT
1 AAAATTAAATTAATT
74715495 AAAAT
1 AAAAT
74715500 ATTAACTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 3 0.18
14 14 0.82
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
AAAATTAAATTAATT
Found at i:74717392 original size:46 final size:45
Alignment explanation
Indices: 74717260--74717478 Score: 178
Period size: 46 Copynumber: 4.7 Consensus size: 45
74717250 GGGTTAGATA
* *
74717260 CCGATGTCATGTCCCAGACATGGTCTTACACTAACA-T-ATCTTATAG
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTAGCACTCATC-TATGG
* *
74717306 CCGATGCACGTCCCAGACATGTCTTACACTAGCTTACGTC-TCGA-GG
1 CCGATGCATGTCCCAGACATGTCTTACACTAGC--AC-TCATCTATGG
* *
74717352 CCGAAGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAAT-G
1 CCGATGCATGTCCCAGACATGTCTTACACTAGCACTCATCT--ATGG
** * * * *
74717398 TAGATGCCCTGTCCCAGACATGGTCTTACACTGGCTCTCATAATATGG
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTAGCACTCAT-CTATGG
* *
74717446 TCGATGCATGTCCCAGATATGTCTTACACTAGC
1 CCGATGCATGTCCCAGACATGTCTTACACTAGC
74717479 TCACACAAGT
Statistics
Matches: 141, Mismatches: 19, Indels: 26
0.76 0.10 0.14
Matches are distributed among these distances:
43 2 0.01
44 16 0.11
45 13 0.09
46 56 0.40
47 28 0.20
48 25 0.18
49 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (45 bp):
CCGATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTATGG
Found at i:74725017 original size:48 final size:47
Alignment explanation
Indices: 74724947--74725068 Score: 128
Period size: 47 Copynumber: 2.6 Consensus size: 47
74724937 CGAGGCAGAA
* *
74724947 GCATGTCCTAGATATGTCTTACACTAGCACTCGTC-TCAA-T-GCTGAT
1 GCATGTCCCAGACATGTCTTACACTAGCACTC-TCAT-AAGTGGCTGAT
*
74724993 GCCATGTCCCAGACATGGTCTTACACT-G-GCTCTCATAATGTGGCTGAT
1 G-CATGTCCCAGACAT-GTCTTACACTAGCACTCTCATAA-GTGGCTGAT
*
74725041 GCATGTCCCAAACATGTCTTACACTAGC
1 GCATGTCCCAGACATGTCTTACACTAGC
74725069 TCACACAAGT
Statistics
Matches: 64, Mismatches: 4, Indels: 14
0.78 0.05 0.17
Matches are distributed among these distances:
45 4 0.06
46 15 0.23
47 28 0.44
48 17 0.27
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.30
Consensus pattern (47 bp):
GCATGTCCCAGACATGTCTTACACTAGCACTCTCATAAGTGGCTGAT
Found at i:74728876 original size:40 final size:40
Alignment explanation
Indices: 74728821--74729044 Score: 281
Period size: 40 Copynumber: 5.5 Consensus size: 40
74728811 TATTCGGATG
74728821 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* *
74728861 ATATCCGGGCTAAGTCCCGAAGACATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* **
74728904 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGC-TCTTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTT-ACT
** * *
74728944 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
74728984 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
74729024 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
74729045 ATACTTGGGT
Statistics
Matches: 158, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 15 0.09
40 105 0.66
41 2 0.01
43 36 0.23
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:74728964 original size:83 final size:81
Alignment explanation
Indices: 74728825--74729045 Score: 290
Period size: 83 Copynumber: 2.7 Consensus size: 81
74728815 CGGATGATAT
*
74728825 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTT-ACTATATCCGGGCTAAGTCCCGAAGACATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTGACTATATCCGGGCTAAGTCCCGAAGACATTC
*
74728889 GTGCGAGTAGTTG-CTATAC
66 ATGC---TAG-TGACTATAC
** *
74728908 CCGGGCTAAGTCCCGAAGGCATTTGTGC-TCTTGACTATATCCGGGCTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTGACTATATCCGGGCTAAGTCCCGAAGACATTC
*
74728972 ATGCTAGTGACTATAT
66 ATGCTAGTGACTATAC
* * *
74728988 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATCCCGAAGA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTGACTATATCCGGGCTAAGTCCCGAAGA
74729046 TACTTGGGTT
Statistics
Matches: 124, Mismatches: 11, Indels: 10
0.86 0.08 0.07
Matches are distributed among these distances:
79 16 0.13
80 43 0.35
81 3 0.02
82 2 0.02
83 60 0.48
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.25
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTGACTATATCCGGGCTAAGTCCCGAAGACATTC
ATGCTAGTGACTATAC
Found at i:74736768 original size:40 final size:40
Alignment explanation
Indices: 74736713--74736936 Score: 290
Period size: 40 Copynumber: 5.5 Consensus size: 40
74736703 TATTCGGATG
74736713 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
74736753 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* **
74736796 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGC-TCTTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTT-ACT
** * *
74736836 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTCACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
74736876 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
74736916 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
74736937 ATACTTGGGT
Statistics
Matches: 160, Mismatches: 19, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
39 15 0.09
40 106 0.66
41 2 0.01
43 37 0.23
ACGTcount: A:0.24, C:0.25, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:74736856 original size:83 final size:81
Alignment explanation
Indices: 74736717--74736936 Score: 295
Period size: 83 Copynumber: 2.7 Consensus size: 81
74736707 CGGATGATAT
*
74736717 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTT-ACTATATCCGGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTGACTATATCCGGGCTAAGTCCCGAAGGCATTC
* **
74736781 GTGCGAGTAGTTGCTATAC
66 ATGC---TAGTCACTATAC
**
74736800 CCGGGCTAAGTCCCGAAGGCATTTGTGC-TCTTGACTATATCCGGGCTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTGACTATATCCGGGCTAAGTCCCGAAGGCATTC
*
74736864 ATGCTAGTCACTATAT
66 ATGCTAGTCACTATAC
* * *
74736880 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATCCCGAAG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTGACTATATCCGGGCTAAGTCCCGAAG
74736937 ATACTTGGGT
Statistics
Matches: 124, Mismatches: 11, Indels: 8
0.87 0.08 0.06
Matches are distributed among these distances:
79 14 0.11
80 44 0.35
81 3 0.02
82 2 0.02
83 61 0.49
ACGTcount: A:0.23, C:0.25, G:0.26, T:0.25
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTGACTATATCCGGGCTAAGTCCCGAAGGCATTC
ATGCTAGTCACTATAC
Found at i:74738574 original size:78 final size:78
Alignment explanation
Indices: 74738445--74738601 Score: 296
Period size: 78 Copynumber: 2.0 Consensus size: 78
74738435 TACAATCATA
*
74738445 TGTTTATCTAAATGATATGGGGGAAGAAATTCCTACTATAAAATTCAGATTAGATCATGAAACAT
1 TGTTTATCTAAATGATATAGGGGAAGAAATTCCTACTATAAAATTCAGATTAGATCATGAAACAT
74738510 TTGATATAAACAG
66 TTGATATAAACAG
*
74738523 TGTTTATCTAAATGATATAGGGGAAGAAATTCCTACTATAAAATTCAGATTAGATCATGAACCAT
1 TGTTTATCTAAATGATATAGGGGAAGAAATTCCTACTATAAAATTCAGATTAGATCATGAAACAT
74738588 TTGATATAAACAG
66 TTGATATAAACAG
74738601 T
1 T
74738602 ATTGAATGGG
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
78 77 1.00
ACGTcount: A:0.41, C:0.11, G:0.16, T:0.32
Consensus pattern (78 bp):
TGTTTATCTAAATGATATAGGGGAAGAAATTCCTACTATAAAATTCAGATTAGATCATGAAACAT
TTGATATAAACAG
Found at i:74739679 original size:16 final size:17
Alignment explanation
Indices: 74739648--74739681 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
74739638 GTATCCTCTC
74739648 TGTAAACAACCTTTCCT
1 TGTAAACAACCTTTCCT
*
74739665 TGTAAA-AATCTTTCCT
1 TGTAAACAACCTTTCCT
74739681 T
1 T
74739682 TAATAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.29, C:0.24, G:0.06, T:0.41
Consensus pattern (17 bp):
TGTAAACAACCTTTCCT
Found at i:74744681 original size:18 final size:18
Alignment explanation
Indices: 74744658--74744692 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
74744648 TGTTAATATA
74744658 GGAGTAAATCCCTGATTG
1 GGAGTAAATCCCTGATTG
*
74744676 GGAGTAAATCCTTGATT
1 GGAGTAAATCCCTGATT
74744693 AGGATTTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (18 bp):
GGAGTAAATCCCTGATTG
Found at i:74752567 original size:16 final size:15
Alignment explanation
Indices: 74752528--74752579 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
74752518 TCAAATTATC
*
74752528 AAAATAATAATAATTA
1 AAAATAACAA-AATTA
**
74752544 AATTTAACATAAATTA
1 AAAATAACA-AAATTA
*
74752560 AAAATAACAAAATTT
1 AAAATAACAAAATTA
74752575 AAAAT
1 AAAAT
74752580 TTCATCTTAC
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
15 10 0.34
16 18 0.62
17 1 0.03
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (15 bp):
AAAATAACAAAATTA
Found at i:74757757 original size:16 final size:16
Alignment explanation
Indices: 74757736--74757769 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
74757726 AATTTTCGAG
*
74757736 TAGGTGGTTTTGCGAT
1 TAGGTGGTTCTGCGAT
74757752 TAGGTGGTTCTGCGAT
1 TAGGTGGTTCTGCGAT
74757768 TA
1 TA
74757770 CTTAAACATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.15, C:0.09, G:0.35, T:0.41
Consensus pattern (16 bp):
TAGGTGGTTCTGCGAT
Found at i:74763334 original size:49 final size:49
Alignment explanation
Indices: 74763278--74763509 Score: 302
Period size: 49 Copynumber: 4.7 Consensus size: 49
74763268 ATAGTACGCA
*
74763278 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
* ** * *
74763327 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC-AATTATCCGGTACACG
** * * * *
74763377 TAGTAGCCTGCACTTAGTACTACACACATGATCAAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCCGGTACACG
* *
74763428 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
*
74763477 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC
74763510 TCACAATAGA
Statistics
Matches: 156, Mismatches: 24, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
49 72 0.46
50 47 0.30
51 37 0.24
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
Found at i:74763451 original size:101 final size:98
Alignment explanation
Indices: 74763278--74763503 Score: 299
Period size: 101 Copynumber: 2.3 Consensus size: 98
74763268 ATAGTACGCA
** * *
74763278 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACACGACAAATTATCCGGTACACATAGTAGCCTGCACTTA
* *
74763343 GTACTACACACGTGACCTAACCATCTGATACACG
66 GTACTACACACGCGACC-AACCATCCGATACACG
* * *
74763377 TAGTAGCCTGCACTTAGTACTACACACATGATCAAAGTTATCGGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACACGA-CAAA-TTATCCGGTACACATAGTAGCCTGCACT
* ** * *
74763442 TAGTACTACACATGCGACCAATTATCCGGTACATG
64 TAGTACTACACACGCGACCAACCATCCGATACACG
74763477 TAGTAGCCTGCACTTAGTACTACACAC
1 TAGTAGCCTGCACTTAGTACTACACAC
74763504 GTGACCTCAC
Statistics
Matches: 111, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
99 28 0.25
100 41 0.37
101 42 0.38
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (98 bp):
TAGTAGCCTGCACTTAGTACTACACACACGACAAATTATCCGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCAACCATCCGATACACG
Found at i:74766289 original size:15 final size:15
Alignment explanation
Indices: 74766271--74766303 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
74766261 GAAGCCCAGA
74766271 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
*
74766286 ATAAAGAAATCCATG
1 ATAAAGAAATCCAAG
74766301 ATA
1 ATA
74766304 CGAGAATCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.58, C:0.12, G:0.12, T:0.18
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:74769499 original size:22 final size:22
Alignment explanation
Indices: 74769472--74769549 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
74769462 TTAGTACTAC
74769472 ACACGTGACCTAACCATCTGAT
1 ACACGTGACCTAACCATCTGAT
* * *
74769494 ACACGTAGTAGCCTGCACTTAGTACT-AC
1 ACACGT-G-A-CCT-AAC-CA-T-CTGAT
74769522 ACACGTGACCTAACCATCTGAT
1 ACACGTGACCTAACCATCTGAT
74769544 ACACGT
1 ACACGT
74769550 AGTAGCCTGC
Statistics
Matches: 42, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
21 2 0.05
22 14 0.33
23 2 0.05
24 3 0.07
25 6 0.14
26 3 0.07
27 2 0.05
28 8 0.19
29 2 0.05
ACGTcount: A:0.31, C:0.31, G:0.15, T:0.23
Consensus pattern (22 bp):
ACACGTGACCTAACCATCTGAT
Found at i:74769511 original size:50 final size:50
Alignment explanation
Indices: 74769400--74769633 Score: 326
Period size: 50 Copynumber: 4.7 Consensus size: 50
74769390 ATAGTATGCA
* * * ** *
74769400 TAGTAGCCTGCACTTAGTACTACATATGCGACC-AATTATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
74769449 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
74769499 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
* * ** * * * *
74769549 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-CCATCTGATACACG
74769600 TAGTAGCCTGCACTTAGTACTACACACGTGACCT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCT
74769634 CACAATAGAT
Statistics
Matches: 167, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
49 30 0.18
50 97 0.58
51 40 0.24
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
Found at i:74771150 original size:14 final size:14
Alignment explanation
Indices: 74771131--74771160 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
74771121 AAATTTTTTA
74771131 TTCCTAATCATGTT
1 TTCCTAATCATGTT
74771145 TTCCTAATCATGTT
1 TTCCTAATCATGTT
74771159 TT
1 TT
74771161 TAGTTGATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.20, G:0.07, T:0.53
Consensus pattern (14 bp):
TTCCTAATCATGTT
Found at i:74781847 original size:28 final size:28
Alignment explanation
Indices: 74781806--74781861 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
74781796 AGATTGTGTG
*
74781806 ACTTCATGGAGTACTAGTTTTGATCATA
1 ACTTCATGGAGTACCAGTTTTGATCATA
*
74781834 ACTTCATGGGGTACCAGTTTTGATCATA
1 ACTTCATGGAGTACCAGTTTTGATCATA
74781862 TTTGATAGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.38
Consensus pattern (28 bp):
ACTTCATGGAGTACCAGTTTTGATCATA
Found at i:74783928 original size:21 final size:21
Alignment explanation
Indices: 74783859--74783991 Score: 140
Period size: 21 Copynumber: 6.3 Consensus size: 21
74783849 TGAATACGCC
* * * *
74783859 AACAGAAGCTCGTAAAAGTTC
1 AACAGAAGCTCATAAGAGCTG
*
74783880 AACAGAAGCTCGTAAGAGCTG
1 AACAGAAGCTCATAAGAGCTG
*
74783901 AACAGAAGCTCATAAGAGCTA
1 AACAGAAGCTCATAAGAGCTG
* * * * *
74783922 AATAGAAACTTATAAGAGTTT
1 AACAGAAGCTCATAAGAGCTG
74783943 AACAGAAGCTCATAAGAGCTG
1 AACAGAAGCTCATAAGAGCTG
* *
74783964 AACAAAAGCTTATAAGAGCTG
1 AACAGAAGCTCATAAGAGCTG
*
74783985 AATAGAA
1 AACAGAA
74783992 AGTAAAACAC
Statistics
Matches: 93, Mismatches: 19, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 93 1.00
ACGTcount: A:0.46, C:0.15, G:0.20, T:0.19
Consensus pattern (21 bp):
AACAGAAGCTCATAAGAGCTG
Found at i:74790802 original size:37 final size:37
Alignment explanation
Indices: 74790747--74790817 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
74790737 TTAATGAAGC
*
74790747 TTAGTAAGTTCGATGGTTTAGAA-AAAAATCTTATTTG
1 TTAGTAAGTTCGACGGTTTA-AACAAAAATCTTATTTG
74790784 TTAGTAAGTTCGACGGTTTAAACAAAAATCTTAT
1 TTAGTAAGTTCGACGGTTTAAACAAAAATCTTAT
74790818 CCAACATATT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
36 2 0.06
37 30 0.94
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.38
Consensus pattern (37 bp):
TTAGTAAGTTCGACGGTTTAAACAAAAATCTTATTTG
Found at i:74791131 original size:19 final size:21
Alignment explanation
Indices: 74791070--74791192 Score: 133
Period size: 21 Copynumber: 6.0 Consensus size: 21
74791060 TGAATACACC
* * *
74791070 AACAGAAGCTTGTAAGAGTTG
1 AACAGAAGCTCGTAAGAGCTA
* *
74791091 AATAGAAGCTCATAAGAGCTA
1 AACAGAAGCTCGTAAGAGCTA
74791112 AACAGAAGCTCG-AA-AGCTA
1 AACAGAAGCTCGTAAGAGCTA
74791131 AACAGAAGCTCGTAAGAGCTA
1 AACAGAAGCTCGTAAGAGCTA
* * * * *
74791152 AACAAAAACTCATAAGAGTTG
1 AACAGAAGCTCGTAAGAGCTA
*
74791173 AACAGAAGCTCATAAGAGCT
1 AACAGAAGCTCGTAAGAGCT
74791193 GACCAATAAG
Statistics
Matches: 85, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
19 17 0.20
20 4 0.05
21 64 0.75
ACGTcount: A:0.46, C:0.16, G:0.21, T:0.17
Consensus pattern (21 bp):
AACAGAAGCTCGTAAGAGCTA
Found at i:74791147 original size:40 final size:42
Alignment explanation
Indices: 74791094--74791192 Score: 130
Period size: 40 Copynumber: 2.4 Consensus size: 42
74791084 AGAGTTGAAT
* *
74791094 AGAAGCTCATAAGAGCTAAACAGAAGCTC-GAA-AGCTAAAC
1 AGAAGCTCATAAGAGCTAAACAAAAACTCAGAAGAGCTAAAC
* * * *
74791134 AGAAGCTCGTAAGAGCTAAACAAAAACTCATAAGAGTTGAAC
1 AGAAGCTCATAAGAGCTAAACAAAAACTCAGAAGAGCTAAAC
74791176 AGAAGCTCATAAGAGCT
1 AGAAGCTCATAAGAGCT
74791193 GACCAATAAG
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
40 26 0.52
41 2 0.04
42 22 0.44
ACGTcount: A:0.46, C:0.18, G:0.20, T:0.15
Consensus pattern (42 bp):
AGAAGCTCATAAGAGCTAAACAAAAACTCAGAAGAGCTAAAC
Found at i:74791370 original size:17 final size:18
Alignment explanation
Indices: 74791343--74791377 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
74791333 CCAATTCTAT
74791343 ATTATAATTCCAACAATA
1 ATTATAATTCCAACAATA
*
74791361 ATTA-AATTCCAATAATA
1 ATTATAATTCCAACAATA
74791378 GAATAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.34
Consensus pattern (18 bp):
ATTATAATTCCAACAATA
Found at i:74795618 original size:2 final size:2
Alignment explanation
Indices: 74795611--74795639 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
74795601 TCTTGCTTCT
74795611 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
74795640 ATAAGGAATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:74798598 original size:20 final size:18
Alignment explanation
Indices: 74798573--74798609 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
74798563 ATTGCTAAGT
74798573 TGTAAAATGAGTTGTAAATG
1 TGTAAAAT-AGTTG-AAATG
74798593 TGTAAAATAGTTGAAAT
1 TGTAAAATAGTTGAAAT
74798610 TATGAGTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.43, C:0.00, G:0.22, T:0.35
Consensus pattern (18 bp):
TGTAAAATAGTTGAAATG
Found at i:74799221 original size:46 final size:46
Alignment explanation
Indices: 74799168--74799340 Score: 185
Period size: 46 Copynumber: 3.7 Consensus size: 46
74799158 TTGAGCATCT
*
74799168 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
* * * *
74799214 GAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATG-TAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCC
* *
74799261 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
*
74799306 CAAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
74799341 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 13, Indels: 20
0.76 0.09 0.15
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 6 0.06
46 56 0.54
47 26 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.30
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
Found at i:74799321 original size:93 final size:93
Alignment explanation
Indices: 74799162--74799332 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
74799152 GCATGGTTGA
* * * *
74799162 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAACTCGTTGAGT
*
74799227 TGAGTCTGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
74799255 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCCAAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAA-CTCGTTGAG
74799319 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
74799333 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 3 0.04
93 68 0.96
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:74801914 original size:28 final size:28
Alignment explanation
Indices: 74801882--74801945 Score: 101
Period size: 28 Copynumber: 2.3 Consensus size: 28
74801872 CGTGTCAATG
*
74801882 GCCCGTGTCCCTCACACAGCCACGACAT
1 GCCCGTGTCCCTCACACAGCCACGACAC
*
74801910 GCCCGTGTCCCTCACACTGCCACGACAC
1 GCCCGTGTCCCTCACACAGCCACGACAC
*
74801938 GACCGTGT
1 GCCCGTGT
74801946 GCAAAAACAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.19, C:0.45, G:0.20, T:0.16
Consensus pattern (28 bp):
GCCCGTGTCCCTCACACAGCCACGACAC
Found at i:74803018 original size:46 final size:45
Alignment explanation
Indices: 74802943--74803146 Score: 180
Period size: 46 Copynumber: 4.4 Consensus size: 45
74802933 GCCATGTTCT
* * *
74802943 AAACATGGTCTTACACTGAC-TATCATCTCGTAGCCAATGCATGTCTC
1 AAACAT-GTCTTACACTGGCTTAT--TCTCGTAGCCGATGCATGTCCC
74802990 AAACATGTCTTACACTGGCTTATGTCTCGTAGCCGATGCATGTCCC
1 AAACATGTCTTACACTGGCTTAT-TCTCGTAGCCGATGCATGTCCC
* * * *** *
74803036 AGACATGTCTCATACTGGCTCTCA-TAAAGTGGCCGATGCATGTCCC
1 AAACATGTCTTACACTGGCT-T-ATTCTCGTAGCCGATGCATGTCCC
** * *
74803082 AAACATGTCTTACACTGGCTCTCATAAT-GTGGCCGATGCATGTCCT
1 AAACATGTCTTACACTGGCT-T-ATTCTCGTAGCCGATGCATGTCCC
*
74803128 AGACATGTCTTACACTGGC
1 AAACATGTCTTACACTGGC
74803147 CCACACACAA
Statistics
Matches: 135, Mismatches: 18, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
46 123 0.91
47 11 0.08
48 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (45 bp):
AAACATGTCTTACACTGGCTTATTCTCGTAGCCGATGCATGTCCC
Found at i:74803094 original size:92 final size:92
Alignment explanation
Indices: 74802979--74803146 Score: 241
Period size: 92 Copynumber: 1.8 Consensus size: 92
74802969 CTCGTAGCCA
* **
74802979 ATGCATGTCTCAAACATGTCTTACACTGGCT-T-ATGTCTCGTAGCCGATGCATGTCCCAGACAT
1 ATGCATGTCCCAAACATGTCTTACACTGGCTCTCAT-AAT-GTAGCCGATGCATGTCCCAGACAT
*
74803042 GTCTCATACTGGCTCTCATAAAGTGGCCG
64 GTCTCACACTGGCTCTCATAAAGTGGCCG
* *
74803071 ATGCATGTCCCAAACATGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCTAGACATGT
1 ATGCATGTCCCAAACATGTCTTACACTGGCTCTCATAATGTAGCCGATGCATGTCCCAGACATGT
*
74803136 CTTACACTGGC
66 CTCACACTGGC
74803147 CCACACACAA
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
92 63 0.94
93 2 0.03
94 2 0.03
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.29
Consensus pattern (92 bp):
ATGCATGTCCCAAACATGTCTTACACTGGCTCTCATAATGTAGCCGATGCATGTCCCAGACATGT
CTCACACTGGCTCTCATAAAGTGGCCG
Found at i:74803171 original size:92 final size:92
Alignment explanation
Indices: 74802983--74803171 Score: 195
Period size: 92 Copynumber: 2.1 Consensus size: 92
74802973 TAGCCAATGC
* **
74802983 ATGTCTCAAACATGTCTTACACTGGCTTATGTCTCGTAGCCGATGCATGTCCCAGACATGTCTCA
1 ATGTCCCAAACATGTCTTACACTGGCTTATGAATCGTAGCCGATGCATGTCCCAGACATGTCTCA
* * * * * * **
74803048 TACTGGCTCTCATAAAGTGGCCGATGC
66 CACTGGCCCACACAAAATGACCGATAA
* *
74803075 ATGTCCCAAACATGTCTTACACTGGCTCTCAT-AAT-GTGGCCGATGCATGTCCTAGACATGTCT
1 ATGTCCCAAACATGTCTTACACTGGCT-T-ATGAATCGTAGCCGATGCATGTCCCAGACATGTCT
* *
74803138 TACACTGGCCCACACACAAATGACC-CTAA
64 CACACTGGCCCACACA-AAATGACCGATAA
74803167 ATGTC
1 ATGTC
74803172 ATGGCATTAA
Statistics
Matches: 79, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
92 69 0.87
93 8 0.10
94 2 0.03
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.28
Consensus pattern (92 bp):
ATGTCCCAAACATGTCTTACACTGGCTTATGAATCGTAGCCGATGCATGTCCCAGACATGTCTCA
CACTGGCCCACACAAAATGACCGATAA
Found at i:74803520 original size:30 final size:30
Alignment explanation
Indices: 74803479--74803536 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
74803469 AAATTCACAT
* *
74803479 CTTTGGTAAAATGACCATTTTGCCCCTAGA
1 CTTTGGCAAAATGACCATTTTACCCCTAGA
74803509 CTTTGGCAAAATGACCATTTTACCCCTA
1 CTTTGGCAAAATGACCATTTTACCCCTA
74803537 TACTCGAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (30 bp):
CTTTGGCAAAATGACCATTTTACCCCTAGA
Found at i:74806260 original size:29 final size:28
Alignment explanation
Indices: 74806205--74806267 Score: 85
Period size: 29 Copynumber: 2.3 Consensus size: 28
74806195 CAATTTAACG
74806205 TTCCTTTTTCTTTTTCCCTTTTTTCCTCT
1 TTCCTTTTTCTTTTT-CCTTTTTTCCTCT
* *
74806234 TTCCTTTTTCTTTTT-CTTTCTT-CTCC
1 TTCCTTTTTCTTTTTCCTTTTTTCCTCT
74806260 TTCCTTTT
1 TTCCTTTT
74806268 GCTTGTCGTG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
26 11 0.34
27 6 0.19
29 15 0.47
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (28 bp):
TTCCTTTTTCTTTTTCCTTTTTTCCTCT
Found at i:74823588 original size:18 final size:17
Alignment explanation
Indices: 74823565--74823679 Score: 61
Period size: 18 Copynumber: 6.4 Consensus size: 17
74823555 TTTATCAGTT
74823565 TCATTCAGTAACATTCAA
1 TCATTCAGTAACA-TCAA
* * *
74823583 TCATTCAATAACAACTAG
1 TCATTCAGTAACATC-AA
* *
74823601 TCATTCAATAATATTCAA
1 TCATTCAGTAACA-TCAA
**
74823619 TCACTT-TTTAACAGTCAA
1 TCA-TTCAGTAACA-TCAA
* *
74823637 TTATTCAGTAACGATAAA
1 TCATTCAGTAAC-ATCAA
*
74823655 TTATTCAGTAACAATCAA
1 TCATTCAGTAAC-ATCAA
*
74823673 TTATTCA
1 TCATTCA
74823680 ATAGCAGTTA
Statistics
Matches: 76, Mismatches: 16, Indels: 10
0.75 0.16 0.10
Matches are distributed among these distances:
17 3 0.04
18 69 0.91
19 4 0.05
ACGTcount: A:0.41, C:0.18, G:0.05, T:0.36
Consensus pattern (17 bp):
TCATTCAGTAACATCAA
Found at i:74823667 original size:36 final size:36
Alignment explanation
Indices: 74823627--74823718 Score: 98
Period size: 36 Copynumber: 2.6 Consensus size: 36
74823617 AATCACTTTT
74823627 TAACAGTCAATTATTCAGTAAC-GATAAATTATTC-AG
1 TAACAGTCAATTATTCAGTAACAG-TAAATTA-TCGAG
* * * * *
74823663 TAACAATCAATTATTCAATAGCAGTTAGTTATCGAG
1 TAACAGTCAATTATTCAGTAACAGTAAATTATCGAG
*
74823699 TAACAGTCAGTTATTCAGTA
1 TAACAGTCAATTATTCAGTA
74823719 GTAGTCAGTT
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
35 2 0.04
36 43 0.93
37 1 0.02
ACGTcount: A:0.39, C:0.14, G:0.13, T:0.34
Consensus pattern (36 bp):
TAACAGTCAATTATTCAGTAACAGTAAATTATCGAG
Found at i:74823694 original size:18 final size:18
Alignment explanation
Indices: 74823655--74823736 Score: 85
Period size: 18 Copynumber: 4.6 Consensus size: 18
74823645 TAACGATAAA
* * *
74823655 TTATTCAGTAACAATCAA
1 TTATTCAGTAGCAGTCAG
* *
74823673 TTATTCAATAGCAGTTAG
1 TTATTCAGTAGCAGTCAG
*
74823691 TTA-TCGAGTAACAGTCAG
1 TTATTC-AGTAGCAGTCAG
*
74823709 TTATTCAGTAGTAGTCAG
1 TTATTCAGTAGCAGTCAG
74823727 TTATTCAGTA
1 TTATTCAGTA
74823737 CCTTTATTTA
Statistics
Matches: 52, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
17 2 0.04
18 48 0.92
19 2 0.04
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (18 bp):
TTATTCAGTAGCAGTCAG
Found at i:74823729 original size:36 final size:36
Alignment explanation
Indices: 74823661--74823730 Score: 95
Period size: 36 Copynumber: 1.9 Consensus size: 36
74823651 TAAATTATTC
*
74823661 AGTAACAATCAATTATTCAATAGCAGTTAGTTATCG
1 AGTAACAATCAATTATTCAATAGCAGTCAGTTATCG
* * * *
74823697 AGTAACAGTCAGTTATTCAGTAGTAGTCAGTTAT
1 AGTAACAATCAATTATTCAATAGCAGTCAGTTAT
74823731 TCAGTACCTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.36, C:0.13, G:0.17, T:0.34
Consensus pattern (36 bp):
AGTAACAATCAATTATTCAATAGCAGTCAGTTATCG
Found at i:74823858 original size:6 final size:6
Alignment explanation
Indices: 74823843--74823872 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
74823833 GAAATACATC
*
74823843 GTAACG GTAACA GTAACA GTAACA GTAACA
1 GTAACA GTAACA GTAACA GTAACA GTAACA
74823873 ATAGTGGTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.47, C:0.17, G:0.20, T:0.17
Consensus pattern (6 bp):
GTAACA
Found at i:74823961 original size:51 final size:53
Alignment explanation
Indices: 74823857--74823975 Score: 143
Period size: 51 Copynumber: 2.3 Consensus size: 53
74823847 CGGTAACAGT
* * *
74823857 AACAGTAACAGTAACAATAGTGGTACGCAGAGTACCTCATCGGAATAAATCCGG
1 AACAGTAACAGTAACAATAGAGGTACG-AGAGTACCTCATCGAAACAAATCCGG
* * *
74823911 AACAGTAACAGTAACAGTA-AGGTACG-GAGTACCTCTTCGAAACGAATCCGG
1 AACAGTAACAGTAACAATAGAGGTACGAGAGTACCTCATCGAAACAAATCCGG
* *
74823962 AATAGTAGCAGTAA
1 AACAGTAACAGTAA
74823976 GGCAACACTT
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
51 33 0.58
53 6 0.11
54 18 0.32
ACGTcount: A:0.39, C:0.19, G:0.23, T:0.18
Consensus pattern (53 bp):
AACAGTAACAGTAACAATAGAGGTACGAGAGTACCTCATCGAAACAAATCCGG
Found at i:74824615 original size:17 final size:15
Alignment explanation
Indices: 74824587--74824620 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 15
74824577 TTCCTATTTC
74824587 TCCCTTTTCTTTCTT
1 TCCCTTTTCTTTCTT
74824602 TCCCTTTTTACTTTCTT
1 TCCC-TTTT-CTTTCTT
74824619 TC
1 TC
74824621 TTTCTCCCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 4 0.24
17 9 0.53
ACGTcount: A:0.03, C:0.32, G:0.00, T:0.65
Consensus pattern (15 bp):
TCCCTTTTCTTTCTT
Found at i:74826771 original size:27 final size:27
Alignment explanation
Indices: 74826729--74826889 Score: 200
Period size: 27 Copynumber: 6.0 Consensus size: 27
74826719 GGGTATCTTG
* *
74826729 GTAATTCTATCATACA-GGGTAATTTCA
1 GTAATTCTACCCTACAGGGGT-ATTTCA
* * *
74826756 GTATTTCTACCCTACAAGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
74826783 GTAATTCTACCCTATAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
74826810 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
*
74826837 GTAATTCTAACCTACAGGGGTATTTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
*
74826863 GATAATTCTAACCTACAGGGGTATTTC
1 G-TAATTCTACCCTACAGGGGTATTTC
74826890 GATATTTTAC
Statistics
Matches: 121, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
26 1 0.01
27 116 0.96
28 4 0.03
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:74826957 original size:27 final size:26
Alignment explanation
Indices: 74826883--74826957 Score: 123
Period size: 26 Copynumber: 2.8 Consensus size: 26
74826873 ACCTACAGGG
74826883 GTATTTCGATATTTTACAAATCGAGA
1 GTATTTCGATATTTTACAAATCGAGA
*
74826909 GTAATTCGATATTTTACAAATCGAGA
1 GTATTTCGATATTTTACAAATCGAGA
*
74826935 GTATTTCGATAATTTCACAAATC
1 GTATTTCGAT-ATTTTACAAATC
74826958 AGGGGTATTT
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
26 34 0.76
27 11 0.24
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.37
Consensus pattern (26 bp):
GTATTTCGATATTTTACAAATCGAGA
Found at i:74826965 original size:27 final size:27
Alignment explanation
Indices: 74826824--74827075 Score: 196
Period size: 27 Copynumber: 9.4 Consensus size: 27
74826814 TTCTACCCTA
* * **
74826824 CAGGGGTATTTCGGTAATTCTAACCTA-
1 CAGGGGTATTTCGATAATT-TTACAAAC
* **
74826851 CAGGGGTATTTCGATAATTCTAACCTA-
1 CAGGGGTATTTCGATAATT-TTACAAAC
*
74826878 CAGGGGTATTTCGAT-ATTTTACAAAT
1 CAGGGGTATTTCGATAATTTTACAAAC
* * *
74826904 C-GAGAGTAATTCGAT-ATTTTACAAAT
1 CAG-GGGTATTTCGATAATTTTACAAAC
* * *
74826930 C-GAGAGTATTTCGATAATTTCACAAAT
1 CAG-GGGTATTTCGATAATTTTACAAAC
* * *
74826957 CAGGGGTATTTTGGTAATTTTACAAGC
1 CAGGGGTATTTCGATAATTTTACAAAC
*
74826984 CAGGGGTATTT-TAGTAATTTTACAAAC
1 CAGGGGTATTTCGA-TAATTTTACAAAC
* * *
74827011 CAGGGGTATTTTGGTAATTTTACAAGC
1 CAGGGGTATTTCGATAATTTTACAAAC
*
74827038 CAGGGGTATTT-TAGTAATTTTACAAAC
1 CAGGGGTATTTCGA-TAATTTTACAAAC
74827065 CAGGGGTATTT
1 CAGGGGTATTT
74827076 TTGGTAATTT
Statistics
Matches: 195, Mismatches: 23, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
25 5 0.03
26 39 0.20
27 150 0.77
28 1 0.01
ACGTcount: A:0.31, C:0.13, G:0.21, T:0.36
Consensus pattern (27 bp):
CAGGGGTATTTCGATAATTTTACAAAC
Found at i:74826993 original size:54 final size:54
Alignment explanation
Indices: 74826944--74827141 Score: 263
Period size: 54 Copynumber: 3.6 Consensus size: 54
74826934 AGTATTTCGA
* *
74826944 TAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAGCCAGGGGTATTTTAG
1 TAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAGCCAGGGGTATTTTAG
74826998 TAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAGCCAGGGGTATTTTAG
1 TAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAGCCAGGGGTATTTTAG
* * * * *
74827052 TAATTTTACAAACCAGGGGTATTTTTGGTAATTTTACTGATCGA-AGGTATTTTGG
1 TAATTTTACAAACCAGGGGTA-TTTTGGTAATTTTAC-AAGCCAGGGGTATTTTAG
** ** *
74827107 TAATTTTGTAAACCAAAGGTATTTTAGTAATTTTA
1 TAATTTTACAAACCAGGGGTATTTTGGTAATTTTA
74827142 TAAATCGAGG
Statistics
Matches: 130, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
54 86 0.66
55 41 0.32
56 3 0.02
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (54 bp):
TAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAGCCAGGGGTATTTTAG
Found at i:74827145 original size:27 final size:27
Alignment explanation
Indices: 74826935--74827141 Score: 236
Period size: 27 Copynumber: 7.6 Consensus size: 27
74826925 CAAATCGAGA
* * * *
74826935 GTATTTCGATAATTTCACAAATCAGGG
1 GTATTTTGGTAATTTTACAAACCAGGG
*
74826962 GTATTTTGGTAATTTTACAAGCCAGGG
1 GTATTTTGGTAATTTTACAAACCAGGG
*
74826989 GTATTTTAGTAATTTTACAAACCAGGG
1 GTATTTTGGTAATTTTACAAACCAGGG
*
74827016 GTATTTTGGTAATTTTACAAGCCAGGG
1 GTATTTTGGTAATTTTACAAACCAGGG
*
74827043 GTATTTTAGTAATTTTACAAACCAGGG
1 GTATTTTGGTAATTTTACAAACCAGGG
** * *
74827070 GTATTTTTGGTAATTTTACTGATC-GAAG
1 GTA-TTTTGGTAATTTTACAAACCAG-GG
** **
74827098 GTATTTTGGTAATTTTGTAAACCAAAG
1 GTATTTTGGTAATTTTACAAACCAGGG
*
74827125 GTATTTTAGTAATTTTA
1 GTATTTTGGTAATTTTA
74827142 TAAATCGAGG
Statistics
Matches: 153, Mismatches: 24, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
27 133 0.87
28 20 0.13
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (27 bp):
GTATTTTGGTAATTTTACAAACCAGGG
Found at i:74827164 original size:27 final size:27
Alignment explanation
Indices: 74827132--74827262 Score: 181
Period size: 27 Copynumber: 4.9 Consensus size: 27
74827122 AAGGTATTTT
* *
74827132 AGTAATTTTATAAATCGAGGGTGAAAC
1 AGTAATTCTATAAATCGAGGGTAAAAC
* *
74827159 AATAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTATAAATCGAGGGTAAAAC
* *
74827186 GGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTATAAATCGAGGGTAAAAC
* *
74827213 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTATAAATCGAGGGTAAAAC
*
74827240 AGTAATTCTGTAAATCGAGGGTA
1 AGTAATTCTATAAATCGAGGGTA
74827263 CTTTGGTAAT
Statistics
Matches: 95, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 95 1.00
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.29
Consensus pattern (27 bp):
AGTAATTCTATAAATCGAGGGTAAAAC
Found at i:74827270 original size:81 final size:81
Alignment explanation
Indices: 74827133--74827287 Score: 211
Period size: 81 Copynumber: 1.9 Consensus size: 81
74827123 AGGTATTTTA
* * *
74827133 GTAATTTTATAAATCGAGGGTGAAACAATAATTCTATAAATCGAGGGTAAAATGGTAATTCTATA
1 GTAATTCTATAAATCGAGGGTAAAACAATAATTCTATAAATCGAGGGTAAAATGGTAATTCTACA
74827198 AATCGAGGGTAAAATG
66 AATCGAGGGTAAAATG
* * * *** *
74827214 GTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTACTTTGGTAATTTTACA
1 GTAATTCTATAAATCGAGGGTAAAACAATAATTCTATAAATCGAGGGTAAAATGGTAATTCTACA
*
74827279 AATTGAGGG
66 AATCGAGGG
74827288 CATTTCAGTA
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
81 63 1.00
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (81 bp):
GTAATTCTATAAATCGAGGGTAAAACAATAATTCTATAAATCGAGGGTAAAATGGTAATTCTACA
AATCGAGGGTAAAATG
Found at i:74827299 original size:81 final size:81
Alignment explanation
Indices: 74827124--74827300 Score: 194
Period size: 81 Copynumber: 2.2 Consensus size: 81
74827114 GTAAACCAAA
* * *
74827124 GGTATTTTAGTAATTTTATAAATCGAGGGTGAAACAATAATTCTATAAATCGAGGGTAAAATGGT
1 GGTAATTTAGTAATTCTATAAATCGAGGGTAAAACAATAATTCTATAAATCGAGGGTAAAATGGT
*
74827189 AATTCTATAAATCGAG
66 AATTCTACAAATCGAG
** * * * * ***
74827205 GGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTACTTTGGT
1 GGTAATTTAGTAATTCTATAAATCGAGGGTAAAACAATAATTCTATAAATCGAGGGTAAAATGGT
* *
74827270 AATTTTACAAATTGAG
66 AATTCTACAAATCGAG
*
74827286 GG-CATTTCAGTAATT
1 GGTAATTT-AGTAATT
74827301 TGGTAAACTA
Statistics
Matches: 76, Mismatches: 19, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
80 2 0.03
81 74 0.97
ACGTcount: A:0.37, C:0.08, G:0.21, T:0.33
Consensus pattern (81 bp):
GGTAATTTAGTAATTCTATAAATCGAGGGTAAAACAATAATTCTATAAATCGAGGGTAAAATGGT
AATTCTACAAATCGAG
Found at i:74829715 original size:25 final size:25
Alignment explanation
Indices: 74829687--74829756 Score: 131
Period size: 25 Copynumber: 2.8 Consensus size: 25
74829677 CTCTTTTAAT
*
74829687 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
74829712 AACTGGGGCAAAGCCCTTTTCGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
74829737 AACTGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
74829757 AGCACTTCCT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:74830199 original size:27 final size:27
Alignment explanation
Indices: 74829959--74830199 Score: 274
Period size: 27 Copynumber: 9.0 Consensus size: 27
74829949 CGGGCAAAAT
* *
74829959 GGTAATTTTACCC-A-A-GGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
74829983 GGTAATTCTATCATACA-GGGTAATTTC
1 GGTAATTCTACCCTACAGGGGT-ATTTC
* * * *
74830010 AGTATTTCTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
74830037 AGTAATTCTACCCTAAAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
74830064 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
74830091 GGTAATTCTACCCTACAGGGTTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
74830118 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
74830145 GATAATTCTACCCTACAGAGGTGTTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
74830172 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
74830199 G
1 G
74830200 ATATTTTACA
Statistics
Matches: 185, Mismatches: 28, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
24 10 0.05
25 1 0.01
26 5 0.03
27 165 0.89
28 4 0.02
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:74830271 original size:27 final size:27
Alignment explanation
Indices: 74830188--74830367 Score: 166
Period size: 27 Copynumber: 6.7 Consensus size: 27
74830178 TCTACCCTAT
* * *
74830188 AGGGGTATTTCGAT-ATTTTACAAATC
1 AGGGGTATTTTGGTAATTTTACAAACC
* * * * * *
74830214 AAGAGTATTTCGATAATTTCACAAATC
1 AGGGGTATTTTGGTAATTTTACAAACC
* *
74830241 AGGGGTATTTTGGTAATTTTACAAGCT
1 AGGGGTATTTTGGTAATTTTACAAACC
*
74830268 AGGGGTATTTTAGTAATTTTACAAACC
1 AGGGGTATTTTGGTAATTTTACAAACC
** *
74830295 AGGGGTATTTTGGTAATTTTACTGATC
1 AGGGGTATTTTGGTAATTTTACAAACC
* **
74830322 -GAGGTATTTTGGTAATTTTTTAAACC
1 AGGGGTATTTTGGTAATTTTACAAACC
* *
74830348 AAGGGTATTTTAGTAATTTT
1 AGGGGTATTTTGGTAATTTT
74830368 GTAAATCGAG
Statistics
Matches: 125, Mismatches: 27, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
26 32 0.26
27 93 0.74
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTTTACAAACC
Found at i:74830354 original size:53 final size:54
Alignment explanation
Indices: 74830227--74830367 Score: 167
Period size: 53 Copynumber: 2.6 Consensus size: 54
74830217 AGTATTTCGA
* * * * *
74830227 TAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAGCTAGGGGTATTTTAG
1 TAATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAGATAGAGGTATTTTAG
* * * *
74830281 TAATTTTACAAACCAGGGGTATTTTGGTAATTTTAC-TGATCGAGGTATTTTGG
1 TAATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAGATAGAGGTATTTTAG
** *
74830334 TAATTTTTTAAACCAAGGGTATTTTAGTAATTTT
1 TAATTTTACAAACCAAGGGTATTTTGGTAATTTT
74830368 GTAAATCGAG
Statistics
Matches: 76, Mismatches: 11, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
53 42 0.55
54 34 0.45
ACGTcount: A:0.29, C:0.09, G:0.20, T:0.43
Consensus pattern (54 bp):
TAATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAGATAGAGGTATTTTAG
Found at i:74830379 original size:27 final size:27
Alignment explanation
Indices: 74830270--74830534 Score: 119
Period size: 27 Copynumber: 9.9 Consensus size: 27
74830260 TACAAGCTAG
** *
74830270 GGGTATTTTAGTAATTTTACAAA-CCA
1 GGGTATTTTAGTAATTTTGTAAATCGA
* * *
74830296 GGGGTATTTTGGTAATTTTACT-GATCGA
1 -GGGTATTTTAGTAATTTT-GTAAATCGA
* * * *
74830324 -GGTATTTTGGTAATTTTTTAAACCAA
1 GGGTATTTTAGTAATTTTGTAAATCGA
74830350 GGGTATTTTAGTAATTTTGTAAATCGA
1 GGGTATTTTAGTAATTTTGTAAATCGA
**** *
74830377 GGGTGAAACGA-TAATTCTT-TAAACCGA
1 GGGT-ATTTTAGTAATT-TTGTAAATCGA
*** * * *
74830404 GGGTAAAATGGTAATTCTATAAATCGA
1 GGGTATTTTAGTAATTTTGTAAATCGA
*** * *
74830431 GGGTAAAATGGTAATTCTGTAAATCGA
1 GGGTATTTTAGTAATTTTGTAAATCGA
*** *
74830458 GGGTAAAATAGTAATTCTGTAAATCGA
1 GGGTATTTTAGTAATTTTGTAAATCGA
** *
74830485 GGGTACTTTT-GTAATTTTACAAATTGA
1 GGGTA-TTTTAGTAATTTTGTAAATCGA
* * *
74830512 GGGCATTTCAGTAATTTGGTAAA
1 GGGTATTTTAGTAATTTTGTAAA
74830535 GTAAAGTATT
Statistics
Matches: 191, Mismatches: 37, Indels: 20
0.77 0.15 0.08
Matches are distributed among these distances:
25 1 0.01
26 27 0.14
27 156 0.82
28 7 0.04
ACGTcount: A:0.33, C:0.08, G:0.22, T:0.37
Consensus pattern (27 bp):
GGGTATTTTAGTAATTTTGTAAATCGA
Found at i:74830418 original size:54 final size:54
Alignment explanation
Indices: 74830358--74830489 Score: 192
Period size: 54 Copynumber: 2.4 Consensus size: 54
74830348 AAGGGTATTT
* * *
74830358 TAGTAATTTTGTAAATCGAGGGTGAAACGATAATTCTTTAAACCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAACCGAGGGTAAAA
* * * * *
74830412 TGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAACCGAGGGTAAAA
74830466 TAGTAATTCTGTAAATCGAGGGTA
1 TAGTAATTCTGTAAATCGAGGGTA
74830490 CTTTTGTAAT
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 68 1.00
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.30
Consensus pattern (54 bp):
TAGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAACCGAGGGTAAAA
Found at i:74830500 original size:54 final size:54
Alignment explanation
Indices: 74830331--74830489 Score: 183
Period size: 54 Copynumber: 2.9 Consensus size: 54
74830321 CGAGGTATTT
* * * *** * * *
74830331 TGGTAATTTTTTAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTGAAA
1 TGGTAATTCTGTAAACCGAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAA
* * * *
74830385 CGATAATTCTTTAAACCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAA
1 TGGTAATTCTGTAAACCGAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAA
* *
74830439 TGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTA
1 TGGTAATTCTGTAAACCGAGGGTAAAATAGTAATTCTATAAATCGAGGGTA
74830490 CTTTTGTAAT
Statistics
Matches: 88, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 88 1.00
ACGTcount: A:0.36, C:0.08, G:0.23, T:0.33
Consensus pattern (54 bp):
TGGTAATTCTGTAAACCGAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAA
Found at i:74833340 original size:39 final size:39
Alignment explanation
Indices: 74833260--74833340 Score: 135
Period size: 39 Copynumber: 2.1 Consensus size: 39
74833250 GTTGTTTAAG
*
74833260 AGTATAATTAGGTCATGTTAAATACCATTGAAGTATTTA
1 AGTATAATTAGGTCATGTTAAATACCATTGAAGTATCTA
* *
74833299 AGTATAATTAGGTCATGTTAAATACCATTGGAGTCTCTA
1 AGTATAATTAGGTCATGTTAAATACCATTGAAGTATCTA
74833338 AGT
1 AGT
74833341 GAGTATAGAG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.37
Consensus pattern (39 bp):
AGTATAATTAGGTCATGTTAAATACCATTGAAGTATCTA
Found at i:74836176 original size:50 final size:50
Alignment explanation
Indices: 74836056--74836320 Score: 234
Period size: 50 Copynumber: 5.5 Consensus size: 50
74836046 AGATGCTGAC
* * * * * *
74836056 GCCATGTCCC-GAACATGGTCTTACACTG--GCTCACACATCAAAGTCGAT
1 GCCATGTCCCAG-ACATGGTCTTACACTGACTCTCATATATCGAGGCCGAT
74836104 GCCATGT-CCAGACATGGTCTTACACTGACTCTCATATATCGAGGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGACTCTCATATATCGAGGCCGAT
* * * * *
74836153 GCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTGTTG-GTGCCAAT
1 GCCATGTCCCAGACATGGTCTTACACTGACTCTCATATATCGAG-GCCGAT
* * * * * *
74836203 GCCATGTCCCAAATATGGTCTTACACTGA----CACATCTC-AAGTCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGACTCTCATATATCGAGGCCGAT
* * *
74836248 GCCATGTCTCAGACATGGTCTTACACTGGCTCTCATA-AT-GTGGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGACTCTCATATATCGAGGCCGAT
74836296 G-CATGTCCCAGACAT-GTCTTACACT
1 GCCATGTCCCAGACATGGTCTTACACT
74836321 AGCACACATA
Statistics
Matches: 175, Mismatches: 31, Indels: 24
0.76 0.13 0.10
Matches are distributed among these distances:
45 29 0.17
46 14 0.08
47 31 0.18
48 15 0.09
49 25 0.14
50 61 0.35
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACACTGACTCTCATATATCGAGGCCGAT
Found at i:74841775 original size:30 final size:30
Alignment explanation
Indices: 74841741--74841824 Score: 159
Period size: 30 Copynumber: 2.8 Consensus size: 30
74841731 TATATTAGGG
*
74841741 TTGCTCAGACAAGCTGACATTATAGCAGAA
1 TTGCTCACACAAGCTGACATTATAGCAGAA
74841771 TTGCTCACACAAGCTGACATTATAGCAGAA
1 TTGCTCACACAAGCTGACATTATAGCAGAA
74841801 TTGCTCACACAAGCTGACATTATA
1 TTGCTCACACAAGCTGACATTATA
74841825 TTGAAGTTAC
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 53 1.00
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.25
Consensus pattern (30 bp):
TTGCTCACACAAGCTGACATTATAGCAGAA
Found at i:74842214 original size:21 final size:20
Alignment explanation
Indices: 74842183--74842222 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
74842173 CCTTAGAAAC
*
74842183 AGGGCACACGCTTGTGTGGA
1 AGGGCACACGCTCGTGTGGA
74842203 AGGGCAACACGCTCGTGTGG
1 AGGGC-ACACGCTCGTGTGG
74842223 CCATAAGGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.20, C:0.23, G:0.40, T:0.17
Consensus pattern (20 bp):
AGGGCACACGCTCGTGTGGA
Done.