Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 378 of 427
Found at i:109955766 original size:49 final size:49
Alignment explanation
Indices: 109955713--109955812 Score: 200
Period size: 49 Copynumber: 2.0 Consensus size: 49
109955703 TTTCCCCGTG
109955713 ATATATTTTATTATATGTTTATAATAAATAAATAAATAACAGATAAACT
1 ATATATTTTATTATATGTTTATAATAAATAAATAAATAACAGATAAACT
109955762 ATATATTTTATTATATGTTTATAATAAATAAATAAATAACAGATAAACT
1 ATATATTTTATTATATGTTTATAATAAATAAATAAATAACAGATAAACT
109955811 AT
1 AT
109955813 GTAATTTTGC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.41
Consensus pattern (49 bp):
ATATATTTTATTATATGTTTATAATAAATAAATAAATAACAGATAAACT
Found at i:109957610 original size:19 final size:18
Alignment explanation
Indices: 109957585--109957633 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 18
109957575 ATACATACAC
*
109957585 AATATTAAAATTGTATTAAA
1 AATATTAAAAAT-TA-TAAA
109957605 AA-ATTAGAAAATTATAAA
1 AATATTA-AAAATTATAAA
109957623 AATATTAAAAA
1 AATATTAAAAA
109957634 CATAAACAGC
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 10 0.38
19 10 0.38
20 6 0.23
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (18 bp):
AATATTAAAAATTATAAA
Found at i:109962024 original size:8 final size:8
Alignment explanation
Indices: 109962011--109962039 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
109962001 TTATGTTTAG
109962011 TATATTAT
1 TATATTAT
109962019 TATATTAT
1 TATATTAT
109962027 TATATTAT
1 TATATTAT
109962035 TATAT
1 TATAT
109962040 AATAAAGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TATATTAT
Found at i:109963383 original size:15 final size:15
Alignment explanation
Indices: 109963363--109963419 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
109963353 CGATGAATTT
109963363 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
109963378 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
109963393 ATTGAATTTATATTG
1 ATTGAATTTATATTG
109963408 ATTGAA-TTATAT
1 ATTGAATTTATAT
109963420 AATATATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:109963812 original size:23 final size:23
Alignment explanation
Indices: 109963782--109963868 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
109963772 ACTTTATCGA
* *
109963782 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTCATGTGTCGTATT
*
109963805 TCAGGCACCTCGTGTGTCGTA--
1 TCAGGCACCTCATGTGTCGTATT
*
109963826 TCAGGCACCTCGTGTGTCGT-TT
1 TCAGGCACCTCATGTGTCGTATT
* *
109963848 T-AGGCACTTTATGTGTCGTAT
1 TCAGGCACCTCATGTGTCGTAT
109963869 ACTGATCAGG
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
21 35 0.64
22 2 0.04
23 18 0.33
ACGTcount: A:0.15, C:0.22, G:0.25, T:0.38
Consensus pattern (23 bp):
TCAGGCACCTCATGTGTCGTATT
Found at i:109968095 original size:2 final size:2
Alignment explanation
Indices: 109968088--109968121 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
109968078 CACGAAATAC
109968088 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
109968122 AAACATGGGT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:109971719 original size:29 final size:29
Alignment explanation
Indices: 109971653--109971734 Score: 71
Period size: 27 Copynumber: 2.9 Consensus size: 29
109971643 GTTTTGTAAA
* *
109971653 TTTTATTTTTATTATGTATATTTTATTAT
1 TTTTATTTTAATTATATATATTTTATTAT
* *
109971682 TTCTA--TTAATTGTATATATATTTATT-T
1 TTTTATTTTAATTATATATAT-TTTATTAT
* *
109971709 TTTTATTTTAATCCATAGATATTTTA
1 TTTTATTTTAAT-TATATATATTTTA
109971735 CATGTATTAT
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
27 16 0.39
28 6 0.15
29 13 0.32
30 6 0.15
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.65
Consensus pattern (29 bp):
TTTTATTTTAATTATATATATTTTATTAT
Found at i:109975002 original size:95 final size:95
Alignment explanation
Indices: 109974839--109975018 Score: 279
Period size: 95 Copynumber: 1.9 Consensus size: 95
109974829 TCCATATTTG
* * * * *
109974839 GTTGCAATCATATTTCATCCCCTATAAGTTATCGTTCTTTCATTTTAGTCCTCCATTATTTGTTA
1 GTTGCAATCACATTTCATCCCATATAAATTATCGTTCTTTCATTTTAATCCTCCATTAGTTGTTA
109974904 TTTAAGTTATTACATATATACCCTCCATTA
66 TTTAAGTTATTACATATATACCCTCCATTA
* *
109974934 GTTGCAATCACATTTCATGCCATATAAATTATCGTTCTTTCATTTTAATCCTCCTTTAGTTGTTA
1 GTTGCAATCACATTTCATCCCATATAAATTATCGTTCTTTCATTTTAATCCTCCATTAGTTGTTA
* *
109974999 TTTAAGTTGTTACATGTATA
66 TTTAAGTTATTACATATATA
109975019 TATATTTGCT
Statistics
Matches: 76, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
95 76 1.00
ACGTcount: A:0.26, C:0.19, G:0.09, T:0.47
Consensus pattern (95 bp):
GTTGCAATCACATTTCATCCCATATAAATTATCGTTCTTTCATTTTAATCCTCCATTAGTTGTTA
TTTAAGTTATTACATATATACCCTCCATTA
Found at i:109980216 original size:3 final size:3
Alignment explanation
Indices: 109980201--109980255 Score: 101
Period size: 3 Copynumber: 18.3 Consensus size: 3
109980191 ATAAAGATGC
*
109980201 TAT TAT GAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
109980249 TAT TAT T
1 TAT TAT T
109980256 TAGAATGAAG
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:109980370 original size:5 final size:5
Alignment explanation
Indices: 109980360--109980389 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
109980350 AGCAGAAGGT
109980360 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG
109980390 CATAATAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:109990765 original size:130 final size:133
Alignment explanation
Indices: 109990434--109990803 Score: 355
Period size: 130 Copynumber: 2.8 Consensus size: 133
109990424 ATGCAAACCT
* ** * *
109990434 AAAGGAATATTCGATTGTTTTAAACAAACGAGAAATCACAACCCAGCACGATAGGGCACGA-TTC
1 AAAGG-ATATTCGATTGTTTTAAACAAACGCGAAATTGCAACCCAACACGTTAGGGCACGATTTC
* * * * * *
109990498 TCAAATTGCCAAACA-CTGAGTATTACTTTCGTTTTAAAGGATTTTTAGAAGACCTGAGTGAAAT
65 ACAAATTGCCAAATATCTGAGTATCACCTTCGTTTTAAAGGATTTTTAAAAGACATGAGTGAAAT
109990562 TTTG
130 TTTG
* * * * * *
109990566 AAGGGATATTTGATTATTTTAAAC-AA-TCAAAATTGCAACCCAACACGTTAGGGCACGATTCCA
1 AAAGGATATTCGATTGTTTTAAACAAACGCGAAATTGCAACCCAACACGTTAGGGCACGATTTCA
* *
109990629 AAAATTGCCAAATATC-GTA-TATCGCCTTCG-TTT-AAGGCA-TTTTAAAAGACATGAGTGAAA
66 CAAATTGCCAAATATCTG-AGTATCACCTTCGTTTTAAAGG-ATTTTTAAAAGACATGAGTGAAA
109990689 TTTTG
129 TTTTG
* * * * *
109990694 AAATGATATTCGATTGTTTTGAGCAAACGCGAAGTTGCAACCCAACACGTTAGGGCACGATTTCG
1 AAAGGATATTCGATTGTTTTAAACAAACGCGAAATTGCAACCCAACACGTTAGGGCACGATTTCA
* ** * * * * *
109990759 CGAATTGTTAAATATC-AAATCTCATCTTCGTTTTAAAGAATTTTT
66 CAAATTGCCAAATATCTGAGTATCACCTTCGTTTTAAAGGATTTTT
109990804 GAATGAATGA
Statistics
Matches: 189, Mismatches: 39, Indels: 20
0.76 0.16 0.08
Matches are distributed among these distances:
128 46 0.24
129 32 0.17
130 77 0.41
131 23 0.12
132 11 0.06
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (133 bp):
AAAGGATATTCGATTGTTTTAAACAAACGCGAAATTGCAACCCAACACGTTAGGGCACGATTTCA
CAAATTGCCAAATATCTGAGTATCACCTTCGTTTTAAAGGATTTTTAAAAGACATGAGTGAAATT
TTG
Found at i:109991693 original size:21 final size:21
Alignment explanation
Indices: 109991679--109991720 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 21
109991669 TAAATTTATA
109991679 ACAAAACAATATAAACAATAT
1 ACAAAACAATATAAACAATAT
109991700 ACAAAACAATATGGAAACAAT
1 ACAAAACAATAT--AAACAAT
109991721 TTGAAAACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 12 0.63
23 7 0.37
ACGTcount: A:0.64, C:0.14, G:0.05, T:0.17
Consensus pattern (21 bp):
ACAAAACAATATAAACAATAT
Found at i:109993991 original size:24 final size:25
Alignment explanation
Indices: 109993963--109994010 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
109993953 TTCAAATAGA
109993963 AAGAAAAAAAAAAGAAAA-AGAAAT
1 AAGAAAAAAAAAAGAAAAGAGAAAT
* *
109993987 AAGAAGAAAAAAGGAAAAGAGAAA
1 AAGAAAAAAAAAAGAAAAGAGAAA
109994011 CATGTCTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (25 bp):
AAGAAAAAAAAAAGAAAAGAGAAAT
Found at i:109997532 original size:39 final size:39
Alignment explanation
Indices: 109997478--109997554 Score: 127
Period size: 39 Copynumber: 2.0 Consensus size: 39
109997468 TGCTTTTTAA
*
109997478 GATTTTGAGTTTTGTATTCAAAATTTTAAATTAATTTTG
1 GATTTTGAATTTTGTATTCAAAATTTTAAATTAATTTTG
* *
109997517 GATTTTGAATTTTGTATTCAGAGTTTTAAATTAATTTT
1 GATTTTGAATTTTGTATTCAAAATTTTAAATTAATTTT
109997555 CTCTATATTA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.30, C:0.03, G:0.13, T:0.55
Consensus pattern (39 bp):
GATTTTGAATTTTGTATTCAAAATTTTAAATTAATTTTG
Found at i:110005670 original size:15 final size:15
Alignment explanation
Indices: 110005650--110005702 Score: 88
Period size: 15 Copynumber: 3.5 Consensus size: 15
110005640 CGATGAATTT
110005650 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
110005665 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
110005680 ATTGAATTTATATTG
1 ATTGAATTTATATTG
110005695 ATTGAATT
1 ATTGAATT
110005703 ATAGAATATA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 34 1.00
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:110006150 original size:21 final size:21
Alignment explanation
Indices: 110006099--110006139 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
110006089 ATGTGTCGTG
110006099 TATCAGGCACCTCGTGTGTCA
1 TATCAGGCACCTCGTGTGTCA
110006120 TATCAGGCACCTCGTGTGTC
1 TATCAGGCACCTCGTGTGTC
110006140 GTTTTAGGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.17, C:0.29, G:0.24, T:0.29
Consensus pattern (21 bp):
TATCAGGCACCTCGTGTGTCA
Found at i:110006158 original size:21 final size:21
Alignment explanation
Indices: 110006078--110006162 Score: 71
Period size: 21 Copynumber: 4.0 Consensus size: 21
110006068 GCTTTATCGA
* *
110006078 TCAGGCACTTTATGTGTCGTGT
1 TCAGGCACCTCATGTGTCGT-T
* * *
110006100 ATCAGGCACCTCGTGTGTCATA
1 -TCAGGCACCTCATGTGTCGTT
*
110006122 TCAGGCACCTCGTGTGTCGTT
1 TCAGGCACCTCATGTGTCGTT
* * *
110006143 TTAGGCACTTTATGTGTCGT
1 TCAGGCACCTCATGTGTCGT
110006163 ATACTGACCA
Statistics
Matches: 51, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
21 35 0.69
23 16 0.31
ACGTcount: A:0.15, C:0.22, G:0.26, T:0.36
Consensus pattern (21 bp):
TCAGGCACCTCATGTGTCGTT
Found at i:110012619 original size:71 final size:71
Alignment explanation
Indices: 110012483--110012619 Score: 193
Period size: 71 Copynumber: 1.9 Consensus size: 71
110012473 TGGTTGGTGG
* * ** * *
110012483 TTATGGCATGGTGAAATTTTTCATCTTATAGTTATAGTAACTAATTTCACTATCATCGCTGTTTT
1 TTATGGCATGGTGAAATTTTTCATCTTACAGCTATAGTAACTAACCTCACCATCATCGCTATTTT
110012548 TAATGT
66 TAATGT
* * *
110012554 TTATGGTATGGTGAAATTTTTTATCTTACAGCTATAGTAACTAACCTCACCATCATCGTTATTTT
1 TTATGGCATGGTGAAATTTTTCATCTTACAGCTATAGTAACTAACCTCACCATCATCGCTATTTT
110012619 T
66 T
110012620 GACCTTATCA
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
71 57 1.00
ACGTcount: A:0.27, C:0.15, G:0.13, T:0.45
Consensus pattern (71 bp):
TTATGGCATGGTGAAATTTTTCATCTTACAGCTATAGTAACTAACCTCACCATCATCGCTATTTT
TAATGT
Found at i:110013745 original size:9 final size:9
Alignment explanation
Indices: 110013731--110013767 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
110013721 TATAGTTTGA
110013731 TATTCGAAT
1 TATTCGAAT
110013740 TATTCGAAT
1 TATTCGAAT
*
110013749 TATTCGAGT
1 TATTCGAAT
110013758 TATTCGAAT
1 TATTCGAAT
110013767 T
1 T
110013768 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:110013838 original size:9 final size:9
Alignment explanation
Indices: 110013819--110013851 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
110013809 ATTTGAGTTG
110013819 ACTCGAATA
1 ACTCGAATA
110013828 ACTC-AATTA
1 ACTCGAA-TA
110013837 ACTCGAATA
1 ACTCGAATA
110013846 ACTCGA
1 ACTCGA
110013852 TTCGTTTAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 2 0.09
9 18 0.82
10 2 0.09
ACGTcount: A:0.42, C:0.24, G:0.09, T:0.24
Consensus pattern (9 bp):
ACTCGAATA
Found at i:110020286 original size:17 final size:17
Alignment explanation
Indices: 110020250--110020285 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
110020240 ATGATAAAAT
110020250 AAATGAATTTTAGAATA
1 AAATGAATTTTAGAATA
110020267 AAAT-AATTTTAGAATA
1 AAATGAATTTTAGAATA
110020283 AAA
1 AAA
110020286 AAAAAGAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.33
Consensus pattern (17 bp):
AAATGAATTTTAGAATA
Found at i:110023011 original size:8 final size:9
Alignment explanation
Indices: 110022997--110023023 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
110022987 TAATAATATT
110022997 ATAAAAAGA
1 ATAAAAAGA
110023006 ATAAAAAGA
1 ATAAAAAGA
110023015 ATAAAAAGA
1 ATAAAAAGA
110023024 TCTATTTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.78, C:0.00, G:0.11, T:0.11
Consensus pattern (9 bp):
ATAAAAAGA
Found at i:110024194 original size:22 final size:21
Alignment explanation
Indices: 110024169--110024245 Score: 59
Period size: 21 Copynumber: 3.6 Consensus size: 21
110024159 AAGATTAAAG
110024169 AAAATGAAAGTTACAGTATACC
1 AAAA-GAAAGTTACAGTATACC
* * **
110024191 AAAAGAGAGTTA-AATCA-AGA
1 AAAAGAAAGTTACAGT-ATACC
110024211 AGAAATGAAAGTTACAGTATACC
1 A-AAA-GAAAGTTACAGTATACC
*
110024234 AAAAGAGAGTTA
1 AAAAGAAAGTTA
110024246 AATCAAGAAG
Statistics
Matches: 41, Mismatches: 9, Indels: 11
0.67 0.15 0.18
Matches are distributed among these distances:
20 4 0.10
21 18 0.44
22 15 0.37
23 4 0.10
ACGTcount: A:0.53, C:0.09, G:0.18, T:0.19
Consensus pattern (21 bp):
AAAAGAAAGTTACAGTATACC
Found at i:110024201 original size:21 final size:21
Alignment explanation
Indices: 110024177--110024245 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
110024167 AGAAAATGAA
110024177 AGTTACAGTATACCAAAAGAG
1 AGTTACAGTATACCAAAAGAG
* ** *
110024198 AGTTA-AATCA-AGAAGAAATGAA
1 AGTTACAGT-ATACCA-AAA-GAG
110024220 AGTTACAGTATACCAAAAGAG
1 AGTTACAGTATACCAAAAGAG
110024241 AGTTA
1 AGTTA
110024246 AATCAAGAAG
Statistics
Matches: 35, Mismatches: 8, Indels: 10
0.66 0.15 0.19
Matches are distributed among these distances:
20 4 0.11
21 16 0.46
22 11 0.31
23 4 0.11
ACGTcount: A:0.51, C:0.10, G:0.19, T:0.20
Consensus pattern (21 bp):
AGTTACAGTATACCAAAAGAG
Found at i:110024225 original size:43 final size:43
Alignment explanation
Indices: 110024170--110024255 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
110024160 AGATTAAAGA
110024170 AAATGAAAGTTACAGTATACCAAAAGAGAGTTAAATCAAGAAG
1 AAATGAAAGTTACAGTATACCAAAAGAGAGTTAAATCAAGAAG
110024213 AAATGAAAGTTACAGTATACCAAAAGAGAGTTAAATCAAGAAG
1 AAATGAAAGTTACAGTATACCAAAAGAGAGTTAAATCAAGAAG
110024256 CATGACATGA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.53, C:0.09, G:0.19, T:0.19
Consensus pattern (43 bp):
AAATGAAAGTTACAGTATACCAAAAGAGAGTTAAATCAAGAAG
Found at i:110024641 original size:13 final size:11
Alignment explanation
Indices: 110024613--110024655 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
110024603 AGTGAAATAT
110024613 TATTTTATTAA
1 TATTTTATTAA
110024624 TATTTTACTTAGA
1 TATTTTA-TTA-A
*
110024637 TA-TTTATTAT
1 TATTTTATTAA
110024647 TATTTTATT
1 TATTTTATT
110024656 TAGAAAATGG
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 2 0.07
11 16 0.57
12 7 0.25
13 3 0.11
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:110024642 original size:23 final size:23
Alignment explanation
Indices: 110024616--110024659 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
110024606 GAAATATTAT
110024616 TTTATTAATATTTTACTTAGATA
1 TTTATTAATATTTTACTTAGATA
* *
110024639 TTTATTATTATTTTATTTAGA
1 TTTATTAATATTTTACTTAGA
110024660 AAATGGTAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (23 bp):
TTTATTAATATTTTACTTAGATA
Found at i:110027113 original size:5 final size:5
Alignment explanation
Indices: 110027103--110027130 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
110027093 ATTTAAGAAA
110027103 ATATT ATATT ATATT ATATT ATATT ATA
1 ATATT ATATT ATATT ATATT ATATT ATA
110027131 ATAGTTTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (5 bp):
ATATT
Found at i:110027235 original size:14 final size:14
Alignment explanation
Indices: 110027200--110027228 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
110027190 AACGAAATAG
110027200 GAAAGAAAAAGAAA
1 GAAAGAAAAAGAAA
110027214 GAAAGAAAAAGAAA
1 GAAAGAAAAAGAAA
110027228 G
1 G
110027229 GGAGAAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (14 bp):
GAAAGAAAAAGAAA
Found at i:110028986 original size:20 final size:19
Alignment explanation
Indices: 110028941--110028978 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
110028931 GAGCGAAAGG
110028941 AACGAG-AAATGGGCCAAA
1 AACGAGAAAATGGGCCAAA
110028959 AACGGAGAAAATGGGCCAAA
1 AAC-GAGAAAATGGGCCAAA
110028979 GTACGAGATC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 3 0.17
19 3 0.17
20 12 0.67
ACGTcount: A:0.50, C:0.16, G:0.29, T:0.05
Consensus pattern (19 bp):
AACGAGAAAATGGGCCAAA
Found at i:110037473 original size:42 final size:42
Alignment explanation
Indices: 110037408--110037571 Score: 168
Period size: 42 Copynumber: 3.7 Consensus size: 42
110037398 TTTCATTTTC
** * *
110037408 TCGATGCCATAGTTCAACTATGGTCATACACATCTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATCTTCACAT-A
* * *
110037451 T-GATTCCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATCTTCACATA
* *
110037492 TCGATGCTAGAGCCCAGCTATGGTCTTACACGTAATCACATATCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC---AT--C-T-TCACATA
110037541 TCGATGCCATAGCCCAGCTATGGTCTTACAC
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC
110037572 GAATCACATA
Statistics
Matches: 99, Mismatches: 14, Indels: 10
0.80 0.11 0.08
Matches are distributed among these distances:
41 2 0.02
42 58 0.59
43 1 0.01
45 2 0.02
48 1 0.01
49 35 0.35
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATCTTCACATA
Found at i:110037610 original size:46 final size:49
Alignment explanation
Indices: 110037478--110037614 Score: 190
Period size: 49 Copynumber: 2.8 Consensus size: 49
110037468 TATGGTCTTA
* * *
110037478 CACATATTCATATATCGATGCTAGAGCCCAGCTATGGTCTTACACGTAAT
1 CACATA-TCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAAT
110037528 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACG-AAT
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAAT
* * *
110037576 CACATATCTCAT-T-GATGCCATATCCCAGATATGGTCTTA
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTA
110037615 TACGGAAATC
Statistics
Matches: 81, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
46 24 0.30
47 1 0.01
48 14 0.17
49 36 0.44
50 6 0.07
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (49 bp):
CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAAT
Found at i:110037671 original size:31 final size:31
Alignment explanation
Indices: 110037636--110037696 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
110037626 CTTGTCACTT
*
110037636 GTAGCCGAAGCTACCACTATTCACTGATCAA
1 GTAGCCGAAGCTACCACTATTCACTAATCAA
* * *
110037667 GTAGCCGGAGCTACCATTTTTCACTAATCA
1 GTAGCCGAAGCTACCACTATTCACTAATCA
110037697 GGTAACTGGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTATTCACTAATCAA
Found at i:110037789 original size:50 final size:50
Alignment explanation
Indices: 110037712--110037874 Score: 281
Period size: 50 Copynumber: 3.2 Consensus size: 50
110037702 CTGGACCTAC
*
110037712 CACTTTTCACTTGTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCACTT-TCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
110037763 CACTTATCACTTTCACTTGTCCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTAT
*
110037813 TACTTATCACTTTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCACTTTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTAT
110037863 CACTTATCACTT
1 CACTTATCACTT
110037875 GTTGCAATGG
Statistics
Matches: 105, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
50 94 0.90
51 11 0.10
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.37
Consensus pattern (50 bp):
CACTTATCACTTTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:110038959 original size:18 final size:18
Alignment explanation
Indices: 110038936--110038988 Score: 92
Period size: 18 Copynumber: 3.1 Consensus size: 18
110038926 TAATTAACCC
110038936 CTCAATTAAGATAATTTT
1 CTCAATTAAGATAATTTT
110038954 CTCAATTAAGATAATTTT
1 CTCAATTAAGATAATTTT
110038972 CTCAATT-A-ATAATTTT
1 CTCAATTAAGATAATTTT
110038988 C
1 C
110038989 CTAGACATTA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
16 9 0.26
17 1 0.03
18 25 0.71
ACGTcount: A:0.38, C:0.13, G:0.04, T:0.45
Consensus pattern (18 bp):
CTCAATTAAGATAATTTT
Found at i:110042033 original size:15 final size:15
Alignment explanation
Indices: 110042001--110042029 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
110041991 ATTTTCTGTG
110042001 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
110042016 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
110042030 ATTTTCGTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:110043199 original size:41 final size:43
Alignment explanation
Indices: 110043096--110043218 Score: 144
Period size: 41 Copynumber: 2.9 Consensus size: 43
110043086 GATATGTGTT
*
110043096 TTCGTGTAAGACCATGTCTGGGAC-TTGGCATCGATATACGTGG
1 TTCGTGTAAGACCATGTCTGGGACATTGGCATCGATATA-GTGA
*
110043139 TTACGTGTAAGACCATGTCTGGGACATTGGCATCG-TAT-TTGA
1 TT-CGTGTAAGACCATGTCTGGGACATTGGCATCGATATAGTGA
* * * * *
110043181 TTCGTGTTAGACCCTGTCTAGGACAGTGACATCGATAT
1 TTCGTGTAAGACCATGTCTGGGACATTGGCATCGATAT
110043219 GAAATAGCAT
Statistics
Matches: 70, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
41 27 0.39
42 7 0.10
43 2 0.03
44 25 0.36
45 9 0.13
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.32
Consensus pattern (43 bp):
TTCGTGTAAGACCATGTCTGGGACATTGGCATCGATATAGTGA
Found at i:110044945 original size:13 final size:13
Alignment explanation
Indices: 110044927--110044953 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
110044917 GCTCGACAGG
110044927 GACACGCCCGTGT
1 GACACGCCCGTGT
110044940 GACACGCCCGTGT
1 GACACGCCCGTGT
110044953 G
1 G
110044954 CGATTACTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:110047022 original size:22 final size:23
Alignment explanation
Indices: 110046997--110047052 Score: 73
Period size: 22 Copynumber: 2.5 Consensus size: 23
110046987 TATAAAACCT
110046997 AATAAAAA-TAAGCTTAAAGA-AA
1 AATAAAAAGTAAGCTTAAA-ATAA
*
110047019 AATAAAAAGTAGGCTTAAAATAA
1 AATAAAAAGTAAGCTTAAAATAA
110047042 AAT-AAAAGTAA
1 AATAAAAAGTAA
110047053 CAATATAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 16 0.53
23 14 0.47
ACGTcount: A:0.66, C:0.04, G:0.11, T:0.20
Consensus pattern (23 bp):
AATAAAAAGTAAGCTTAAAATAA
Found at i:110047034 original size:23 final size:22
Alignment explanation
Indices: 110046997--110047072 Score: 70
Period size: 23 Copynumber: 3.5 Consensus size: 22
110046987 TATAAAACCT
110046997 AATAAAAATAAGCTTAAAGA-AA
1 AATAAAAATAAGCTTAAA-ATAA
*
110047019 AATAAAAAGTAGGCTTAAAATAA
1 AATAAAAA-TAAGCTTAAAATAA
* *
110047042 AATAAAAGTAA-C--AATATAA
1 AATAAAAATAAGCTTAAAATAA
110047061 AATAATAAATAA
1 AATAA-AAATAA
110047073 AAGTTTTTAA
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
19 11 0.24
20 5 0.11
21 1 0.02
22 11 0.24
23 18 0.39
ACGTcount: A:0.67, C:0.04, G:0.08, T:0.21
Consensus pattern (22 bp):
AATAAAAATAAGCTTAAAATAA
Found at i:110056746 original size:46 final size:46
Alignment explanation
Indices: 110056696--110056871 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
110056686 TGGTTGAGCA
110056696 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
110056742 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
110056787 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
110056835 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
110056872 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:110056852 original size:93 final size:93
Alignment explanation
Indices: 110056693--110056864 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
110056683 GGATGGTTGA
* *
110056693 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
110056758 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
110056786 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
110056851 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
110056865 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:110062237 original size:46 final size:46
Alignment explanation
Indices: 110062187--110062362 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
110062177 TGGTTGAGCA
110062187 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
110062233 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
110062278 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
110062326 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
110062363 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:110062343 original size:93 final size:93
Alignment explanation
Indices: 110062184--110062355 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
110062174 GGATGGTTGA
* *
110062184 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
110062249 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
110062277 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
110062342 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
110062356 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:110066315 original size:18 final size:18
Alignment explanation
Indices: 110066292--110066326 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
110066282 CAGGGGAAAG
*
110066292 AAAGAAGGAAGGAAAAAA
1 AAAGAAAGAAGGAAAAAA
110066310 AAAGAAAGAAGGAAAAA
1 AAAGAAAGAAGGAAAAA
110066327 GGGAAAAATT
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:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (18 bp):
AAAGAAAGAAGGAAAAAA
Found at i:110068456 original size:46 final size:46
Alignment explanation
Indices: 110068404--110068537 Score: 214
Period size: 46 Copynumber: 2.9 Consensus size: 46
110068394 AGTGTGTTCT
110068404 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
110068450 CTGATATGAAATATGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * **
110068496 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGG
110068538 AAACATGACA
Statistics
Matches: 81, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 81 1.00
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:110068547 original size:46 final size:47
Alignment explanation
Indices: 110068419--110068594 Score: 207
Period size: 46 Copynumber: 3.7 Consensus size: 47
110068409 ATGAAATGTG
* *
110068419 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATATG--
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAA-ATGAA
*
110068465 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAA-GAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAATGAA
*
110068511 TAAGACCATGGTTGAAAGATACCATGGAAACATGACA-GAAAATGAATGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAATG-A--A
* * * *
110068560 GTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 -TAAGACCATGGTTGAAAGATACCATGGCAACATG
110068595 TCAAAGATAA
Statistics
Matches: 114, Mismatches: 9, Indels: 10
0.86 0.07 0.08
Matches are distributed among these distances:
44 1 0.01
45 6 0.05
46 76 0.67
47 1 0.01
49 1 0.01
50 29 0.25
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.20
Consensus pattern (47 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAATGAA
Found at i:110073527 original size:55 final size:56
Alignment explanation
Indices: 110073462--110073576 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
110073452 AGCATGGCTG
* *
110073462 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
110073518 CCAGA-ACAGATATATGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
110073573 CCAG
1 CCAG
110073577 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.56
56 22 0.42
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:110073539 original size:27 final size:27
Alignment explanation
Indices: 110073487--110073576 Score: 119
Period size: 27 Copynumber: 3.2 Consensus size: 27
110073477 GTGACAGAGT
110073487 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
* *
110073516 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
110073543 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
110073571 CACCAG
1 CACCAG
110073577 GACGCTTCCT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 24 0.44
28 24 0.44
29 7 0.13
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:110073729 original size:28 final size:28
Alignment explanation
Indices: 110073682--110073746 Score: 105
Period size: 28 Copynumber: 2.3 Consensus size: 28
110073672 AAATTAACCC
*
110073682 TAGGGGTATAGAGGTCATTTTGCATACA
1 TAGGGGTATAGAGGTAATTTTGCATACA
110073710 TAGGGGTATA-ATGGTAATTTTGCATACA
1 TAGGGGTATAGA-GGTAATTTTGCATACA
110073738 TAGGGGTAT
1 TAGGGGTAT
110073747 TCTAGTACAT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 1 0.03
28 34 0.97
ACGTcount: A:0.29, C:0.08, G:0.29, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAGAGGTAATTTTGCATACA
Found at i:110074009 original size:8 final size:8
Alignment explanation
Indices: 110073992--110074024 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
110073982 GCCCAAAATA
110073992 TCGGCTTT
1 TCGGCTTT
*
110074000 TCGGCATT
1 TCGGCTTT
110074008 TCGGCTTT
1 TCGGCTTT
110074016 TCGGCTTT
1 TCGGCTTT
110074024 T
1 T
110074025 GCCGATCTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.03, C:0.24, G:0.24, T:0.48
Consensus pattern (8 bp):
TCGGCTTT
Found at i:110080634 original size:68 final size:68
Alignment explanation
Indices: 110080515--110080653 Score: 242
Period size: 68 Copynumber: 2.0 Consensus size: 68
110080505 CTGAGGCGGT
* *
110080515 TTAATGTGGAAAATATCAAAGATTTTATTAATTAAAAAATATATATATTTATTTAATAATTAAGT
1 TTAACGTGGAAAATATCAAAGATTTTATTAATTAAAAAAAATATATATTTATTTAATAATTAAGT
110080580 ATA
66 ATA
* *
110080583 TTAACGTGGAAAATATCAAAGATTTTATTGATTAAAAAAAATATATGTTTATTTAATAATTAAGT
1 TTAACGTGGAAAATATCAAAGATTTTATTAATTAAAAAAAATATATATTTATTTAATAATTAAGT
110080648 ATA
66 ATA
110080651 TTA
1 TTA
110080654 TATTATATTA
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
68 67 1.00
ACGTcount: A:0.47, C:0.02, G:0.09, T:0.42
Consensus pattern (68 bp):
TTAACGTGGAAAATATCAAAGATTTTATTAATTAAAAAAAATATATATTTATTTAATAATTAAGT
ATA
Found at i:110085241 original size:31 final size:31
Alignment explanation
Indices: 110085200--110085261 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
110085190 TTTAAATTAA
*
110085200 TTAATTAGATAAATATTATTTTATTAATATT
1 TTAATGAGATAAATATTATTTTATTAATATT
** *
110085231 TTAATGAGATATTTATTATTTTATTATTATT
1 TTAATGAGATAAATATTATTTTATTAATATT
110085262 ATTTATTTAG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (31 bp):
TTAATGAGATAAATATTATTTTATTAATATT
Found at i:110087386 original size:46 final size:46
Alignment explanation
Indices: 110087274--110087497 Score: 360
Period size: 46 Copynumber: 4.9 Consensus size: 46
110087264 ACTCTCTGAA
* *
110087274 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG-T
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
*
110087319 ATGAAATGTGTAAGACCATGGTTTAAAGATACCATGGCAACGTGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
110087365 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
** *
110087411 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
***
110087457 ATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
110087498 ACGACAGAAA
Statistics
Matches: 170, Mismatches: 8, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
45 42 0.25
46 128 0.75
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
Found at i:110088718 original size:15 final size:15
Alignment explanation
Indices: 110088686--110088714 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
110088676 ATTTTCTATG
110088686 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
110088701 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
110088715 ATTTTTGTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:110089773 original size:45 final size:43
Alignment explanation
Indices: 110089709--110089879 Score: 174
Period size: 45 Copynumber: 4.0 Consensus size: 43
110089699 TAGGATTTTT
*
110089709 TATATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCAA
1 TATATGTG-GTTCGTGTAAGACCACGTCTGGGACGTTGGCATC-A
* * *
110089754 TATATGTGGTTACGTGTAAGACCATGTCTGAGACATTGGCATCA
1 TATATGTGGTT-CGTGTAAGACCACGTCTGGGACGTTGGCATCA
* *
110089798 TAT-T-TGATTCGTGTAAGACCATGTCTGGGACAG-TGGCATCGA
1 TATATGTGGTTCGTGTAAGACCACGTCTGGGAC-GTTGGCATC-A
*
110089840 TATGA-GATGG--CATGTAAGACCACGTCTGGGACGTTGGCAT
1 TAT-ATG-TGGTTCGTGTAAGACCACGTCTGGGACGTTGGCAT
110089880 TGTACGATTT
Statistics
Matches: 108, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
41 28 0.26
42 9 0.08
43 27 0.25
44 6 0.06
45 38 0.35
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (43 bp):
TATATGTGGTTCGTGTAAGACCACGTCTGGGACGTTGGCATCA
Found at i:110096315 original size:41 final size:40
Alignment explanation
Indices: 110096270--110096379 Score: 98
Period size: 41 Copynumber: 2.7 Consensus size: 40
110096260 CTGGTGAACT
110096270 AAATCGGGCTTTATGCCTAGCAGGTTTATTGCCGGTGTATA
1 AAATCGGGCTTTATG-CTAGCAGGTTTATTGCCGGTGTATA
* * ** ** *
110096311 AAATCAGACTTTGA-GTCTAGCAGGCCTCCTGCCGGTGTGTA
1 AAATCGGGCTTT-ATG-CTAGCAGGTTTATTGCCGGTGTATA
*
110096352 ATA-CGGGCTTTATGCTAGCAGGCTTTAT
1 AAATCGGGCTTTATGCTAGCAGG-TTTAT
110096380 GCCAGTGAAT
Statistics
Matches: 51, Mismatches: 15, Indels: 7
0.70 0.21 0.10
Matches are distributed among these distances:
39 9 0.18
40 8 0.16
41 33 0.65
42 1 0.02
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.32
Consensus pattern (40 bp):
AAATCGGGCTTTATGCTAGCAGGTTTATTGCCGGTGTATA
Found at i:110099267 original size:3 final size:3
Alignment explanation
Indices: 110099259--110099309 Score: 93
Period size: 3 Copynumber: 17.0 Consensus size: 3
110099249 TCTTTATTCA
*
110099259 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ACT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
110099307 ATT
1 ATT
110099310 TTCTATTTAT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:110100603 original size:16 final size:17
Alignment explanation
Indices: 110100576--110100607 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
110100566 TTTAAGTCTA
110100576 TTTATATTTTTTTATTT
1 TTTATATTTTTTTATTT
110100593 TTTAT-TTTTTTTATT
1 TTTATATTTTTTTATT
110100608 GATTTTTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (17 bp):
TTTATATTTTTTTATTT
Found at i:110113972 original size:21 final size:21
Alignment explanation
Indices: 110113948--110113992 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
110113938 AGCACGGGCA
*
110113948 TGTCACAAGGTCACACGAGCG
1 TGTCACAAGATCACACGAGCG
* **
110113969 TGTCCCTTGATCACACGAGCG
1 TGTCACAAGATCACACGAGCG
110113990 TGT
1 TGT
110113993 GTGCCCTGTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.22, C:0.29, G:0.27, T:0.22
Consensus pattern (21 bp):
TGTCACAAGATCACACGAGCG
Found at i:110115291 original size:3 final size:3
Alignment explanation
Indices: 110115283--110115337 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
110115273 AATTAATCCC
110115283 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
110115331 ATT ATT A
1 ATT ATT A
110115338 AATTGTTGTA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:110115777 original size:3 final size:3
Alignment explanation
Indices: 110115769--110115803 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
110115759 CTTACTTATG
110115769 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
110115804 GTGGTTCTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:110115797 original size:51 final size:50
Alignment explanation
Indices: 110115740--110115841 Score: 186
Period size: 51 Copynumber: 2.0 Consensus size: 50
110115730 TAGATTTCAA
110115740 TATTATTATTATTGTGGTTCTTACTTATGTTATTATTATTATTATTATTAT
1 TATTATTATTATTGTGGTTCTTACTTATGTTATTA-TATTATTATTATTAT
*
110115791 TATTATTATTATTGTGGTTCTTACTTATGTTATTATATTATTTTTATTAT
1 TATTATTATTATTGTGGTTCTTACTTATGTTATTATATTATTATTATTAT
110115841 T
1 T
110115842 CCCTATATTA
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
50 15 0.30
51 35 0.70
ACGTcount: A:0.25, C:0.04, G:0.08, T:0.64
Consensus pattern (50 bp):
TATTATTATTATTGTGGTTCTTACTTATGTTATTATATTATTATTATTAT
Found at i:110118289 original size:25 final size:25
Alignment explanation
Indices: 110118239--110118289 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
110118229 CGCATTCGTT
* * * *
110118239 GATTATTAGCACGTTAGTGCTCTCC
1 GATTATTACCACATTAGTCCTATCC
110118264 GATTATTACCACATTAGTCCTATCC
1 GATTATTACCACATTAGTCCTATCC
110118289 G
1 G
110118290 TTTAGCACAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.35
Consensus pattern (25 bp):
GATTATTACCACATTAGTCCTATCC
Found at i:110118317 original size:22 final size:22
Alignment explanation
Indices: 110118292--110118334 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
110118282 CCTATCCGTT
110118292 TAGCACATTT-GTGCTCTTTGTA
1 TAGCAC-TTTAGTGCTCTTTGTA
110118314 TAGCACTTTAGTGCTCTTTGT
1 TAGCACTTTAGTGCTCTTTGT
110118335 TTAATAGTGC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 3 0.15
22 17 0.85
ACGTcount: A:0.16, C:0.19, G:0.19, T:0.47
Consensus pattern (22 bp):
TAGCACTTTAGTGCTCTTTGTA
Found at i:110119439 original size:19 final size:19
Alignment explanation
Indices: 110119417--110119453 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
110119407 TTATAAATGC
110119417 AAAATAAAATTAAATAACT
1 AAAATAAAATTAAATAACT
* *
110119436 AAAATTAAATTAGATAAC
1 AAAATAAAATTAAATAAC
110119454 CAAATATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.65, C:0.05, G:0.03, T:0.27
Consensus pattern (19 bp):
AAAATAAAATTAAATAACT
Found at i:110120054 original size:43 final size:43
Alignment explanation
Indices: 110120005--110120092 Score: 167
Period size: 43 Copynumber: 2.0 Consensus size: 43
110119995 ATGATAACCG
110120005 ACCTAAAGCTAAACAAAAATTAGTTGAGTATGAAATTAATCAT
1 ACCTAAAGCTAAACAAAAATTAGTTGAGTATGAAATTAATCAT
*
110120048 ACCTAAAGCTAAACGAAAATTAGTTGAGTATGAAATTAATCAT
1 ACCTAAAGCTAAACAAAAATTAGTTGAGTATGAAATTAATCAT
110120091 AC
1 AC
110120093 TTGATTGGAT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.48, C:0.12, G:0.12, T:0.27
Consensus pattern (43 bp):
ACCTAAAGCTAAACAAAAATTAGTTGAGTATGAAATTAATCAT
Found at i:110130183 original size:127 final size:126
Alignment explanation
Indices: 110129665--110130182 Score: 673
Period size: 125 Copynumber: 4.1 Consensus size: 126
110129655 GCTAAGCAGG
* ** * * *
110129665 AACTACTGTAGAAAAATAGCGTCCGTGTGGGAGTTTTTTTCAGTAATTTTGCTGATAGTGCATCA
1 AACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCC
* * * * * * *
110129730 TGTTTAAAGCGTTTTTGATACCATTTTTTCAAAACTGTCTACTCAAAATTATTTTTTCAAG
66 TGCTTGAAGCGTTTTTGACACTATTTTTTCAAAACCGTCTTCTCAAAATTATTTTTTCAAA
* *
110129791 AACTACTATAGAAAAAGAGCGTCCACGTGGGAGATTTTTTCAGTAATTTTGCTGACAGTGCAT-C
1 AACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCC
* * * * **
110129855 TGTTTGAAGCGTTTTTGACATTATTTTTTCAAAACCGTCTTCTCTAAATTATTTTTTTAGG
66 TGCTTGAAGCGTTTTTGACACTATTTTTTCAAAACCGTCTTCTCAAAATTATTTTTTCAAA
* * * * *
110129916 AACTACTGTATAAAAAGAGCGTTCACGTGGGAGC-TTTTT-AGTACTTTTGCTGATAGTGCATAC
1 AACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCC
* ***
110129979 TGCTTGAAGCGTTTTTGACATTATTTTTTCAAAACCGTCTTCTCAAAATTATTTTTTTTTGA
66 TGCTTGAAGCGTTTTTGACACTATTTTTTCAAAACCGTCTTCTCAAAATTA-TTTTTTCAAA
* * *
110130041 AACTACTGTAGAAAAAGAGCGTCCATGTGGGAGCTTTTTTAAGTACTTTTGCTGACAGTGCATCC
1 AACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCC
* * *
110130106 TGCTTGAAGCGTTTTTGTCACTATTTTTTCAGAACCGTCTTCTCAAAATTAATTTTTCAAA
66 TGCTTGAAGCGTTTTTGACACTATTTTTTCAAAACCGTCTTCTCAAAATTATTTTTTCAAA
*
110130167 AACGACTGTAGAAAAA
1 AACTACTGTAGAAAAA
110130183 AAAATCTTTC
Statistics
Matches: 349, Mismatches: 39, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
123 20 0.06
124 55 0.16
125 121 0.35
126 83 0.24
127 70 0.20
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.39
Consensus pattern (126 bp):
AACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCC
TGCTTGAAGCGTTTTTGACACTATTTTTTCAAAACCGTCTTCTCAAAATTATTTTTTCAAA
Found at i:110131101 original size:29 final size:31
Alignment explanation
Indices: 110131046--110131112 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 31
110131036 TTTAAAATTA
* *
110131046 TATATTAATTTTAATTTATGTATAATT-TAT
1 TATATAAATTTTAATTTAGGTATAATTATAT
*
110131076 TATATAAATTTTAATTT-GGTGTAATTATAT
1 TATATAAATTTTAATTTAGGTATAATTATAT
110131106 T-TATAAA
1 TATATAAA
110131113 ACTTTTATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 13 0.39
30 20 0.61
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (31 bp):
TATATAAATTTTAATTTAGGTATAATTATAT
Found at i:110132682 original size:26 final size:25
Alignment explanation
Indices: 110132652--110132724 Score: 62
Period size: 24 Copynumber: 2.9 Consensus size: 25
110132642 ATATATTGTT
110132652 TATATAATTAATATTTTAATAATAAA
1 TATAT-ATTAATATTTTAATAATAAA
* *
110132678 TATATGGTTCAA-ATTAT-A-AATAAA
1 TATAT-ATT-AATATTTTAATAATAAA
* *
110132702 TAAATATGAATATTTTAATAATA
1 TATATATTAATATTTTAATAATA
110132725 TAAATATTTG
Statistics
Matches: 36, Mismatches: 7, Indels: 9
0.69 0.13 0.17
Matches are distributed among these distances:
22 2 0.06
23 5 0.14
24 11 0.31
25 5 0.14
26 11 0.31
27 2 0.06
ACGTcount: A:0.52, C:0.01, G:0.04, T:0.42
Consensus pattern (25 bp):
TATATATTAATATTTTAATAATAAA
Found at i:110134117 original size:14 final size:15
Alignment explanation
Indices: 110134089--110134118 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
110134079 TTGAACCTAA
110134089 AACATCTTAATCTTT
1 AACATCTTAATCTTT
110134104 AACATCTT-ATCTTT
1 AACATCTTAATCTTT
110134118 A
1 A
110134119 CTTAGAATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.33, C:0.20, G:0.00, T:0.47
Consensus pattern (15 bp):
AACATCTTAATCTTT
Found at i:110134403 original size:2 final size:2
Alignment explanation
Indices: 110134396--110134436 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
110134386 GTATGAACCA
110134396 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
110134437 AATAATGTGG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:110134885 original size:26 final size:26
Alignment explanation
Indices: 110134845--110134905 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
110134835 GGCAAGCTAG
* * * *
110134845 GGGTTCACCAGTTTGTTTGACAAGCT
1 GGGTTCGCCAATTTGTGTGACAAACT
*
110134871 GGGTTCGCCAATTTGTGTGGCAAACT
1 GGGTTCGCCAATTTGTGTGACAAACT
*
110134897 GGATTCGCC
1 GGGTTCGCC
110134906 TATCAAAGAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.18, C:0.21, G:0.30, T:0.31
Consensus pattern (26 bp):
GGGTTCGCCAATTTGTGTGACAAACT
Found at i:110135769 original size:42 final size:41
Alignment explanation
Indices: 110135705--110135788 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 41
110135695 CACCCATAAA
* * * *
110135705 TAAGTCTCACTTTGTGTGCTCCTTTGGGAGCATGAGCTTTTG
1 TAAGCCTCACTCTGTGTGCTCC-TCGAGAGCATGAGCTTTTG
*
110135747 TAAGCCTCACTCTGTGTGCTCCTCGAGAGCATGGGCTTTTG
1 TAAGCCTCACTCTGTGTGCTCCTCGAGAGCATGAGCTTTTG
110135788 T
1 T
110135789 GAGTTTTGTG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
41 17 0.46
42 20 0.54
ACGTcount: A:0.14, C:0.23, G:0.26, T:0.37
Consensus pattern (41 bp):
TAAGCCTCACTCTGTGTGCTCCTCGAGAGCATGAGCTTTTG
Found at i:110138002 original size:44 final size:43
Alignment explanation
Indices: 110137858--110138016 Score: 153
Period size: 42 Copynumber: 3.7 Consensus size: 43
110137848 ATGGAGTACA
* * * *
110137858 ATGCCTACGTCTCAGACGTGGTCTTACATGTAAT-TCAATATCG
1 ATGCCTATGTCCCAGACATGGTCTTACACGTAATATCAA-ATCG
* * * *
110137901 ATGCCTCTGTCCCAGACAAGGTCTTACTCG-AA-ATCAAATACA
1 ATGCCTATGTCCCAGACATGGTCTTACACGTAATATCAAAT-CG
* *
110137943 ATGTCAATGTCCCAGACATGGTCTTACACGTAAATATCAAATCG
1 ATGCCTATGTCCCAGACATGGTCTTACACGT-AATATCAAATCG
* * *
110137987 AGGCCTGTGTCCCAGACACGGTCTTACACG
1 ATGCCTATGTCCCAGACATGGTCTTACACG
110138017 ATATTTTAGA
Statistics
Matches: 92, Mismatches: 19, Indels: 9
0.77 0.16 0.08
Matches are distributed among these distances:
41 2 0.02
42 32 0.35
43 23 0.25
44 28 0.30
45 7 0.08
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.26
Consensus pattern (43 bp):
ATGCCTATGTCCCAGACATGGTCTTACACGTAATATCAAATCG
Found at i:110140398 original size:2 final size:2
Alignment explanation
Indices: 110140391--110140426 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
110140381 CAATCTCCTC
110140391 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
110140427 TATATCTCTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:110159238 original size:22 final size:24
Alignment explanation
Indices: 110159195--110159238 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
110159185 TAACTAAGTT
110159195 TACTTACTTTTCTAACTTAATTCA
1 TACTTACTTTTCTAACTTAATTCA
*
110159219 TACTT-CTTTTCT-TCTTAATT
1 TACTTACTTTTCTAACTTAATT
110159239 TCTTGCCATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 7 0.37
24 5 0.26
ACGTcount: A:0.23, C:0.20, G:0.00, T:0.57
Consensus pattern (24 bp):
TACTTACTTTTCTAACTTAATTCA
Found at i:110171719 original size:20 final size:21
Alignment explanation
Indices: 110171676--110171721 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
110171666 GCTGTTTTGT
110171676 TATGGG-CCAACTGTATTGAA
1 TATGGGCCCAACTGTATTGAA
*
110171696 -ATGGGCCCAACTGTGTT-AA
1 TATGGGCCCAACTGTATTGAA
110171715 TATGGGC
1 TATGGGC
110171722 AAGGCGTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (21 bp):
TATGGGCCCAACTGTATTGAA
Found at i:110181236 original size:30 final size:30
Alignment explanation
Indices: 110181200--110181261 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
110181190 ATTTATTTTA
*
110181200 TTGTTAATTTTGTTATTATTTTAAAAGCAT
1 TTGTTAATTTTATTATTATTTTAAAAGCAT
* *
110181230 TTGTTAATTTTATTATTATTTTAGAGGCAT
1 TTGTTAATTTTATTATTATTTTAAAAGCAT
110181260 TT
1 TT
110181262 ACTTGTTAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.27, C:0.03, G:0.11, T:0.58
Consensus pattern (30 bp):
TTGTTAATTTTATTATTATTTTAAAAGCAT
Found at i:110181410 original size:22 final size:24
Alignment explanation
Indices: 110181367--110181412 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 24
110181357 TTAGTATTTT
* *
110181367 TGATATATTAAATATATTTAAAAA
1 TGATATATAAAATATATATAAAAA
110181391 TGATATA-AAAATA-ATATAAAAA
1 TGATATATAAAATATATATAAAAA
110181413 ATTAATACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 8 0.40
23 5 0.25
24 7 0.35
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (24 bp):
TGATATATAAAATATATATAAAAA
Found at i:110182571 original size:2 final size:2
Alignment explanation
Indices: 110182564--110182595 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
110182554 TTAAATAAGA
110182564 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
110182596 TTCATTGTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:110184887 original size:21 final size:21
Alignment explanation
Indices: 110184863--110184902 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
110184853 TTTCCACATA
*
110184863 TTTATAATTTTAAAATATCTT
1 TTTATAATTTAAAAATATCTT
*
110184884 TTTATTATTTAAAAATATC
1 TTTATAATTTAAAAATATC
110184903 GATAATTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (21 bp):
TTTATAATTTAAAAATATCTT
Found at i:110184980 original size:18 final size:17
Alignment explanation
Indices: 110184959--110184999 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
110184949 TTTTCAAGAT
*
110184959 TTTTTTCATTTTTATGAA
1 TTTTTTCATTTTAATG-A
*
110184977 TTTTTTTATTTTAATGA
1 TTTTTTCATTTTAATGA
110184994 TTTTTT
1 TTTTTT
110185000 AAAACGAGCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.20, C:0.02, G:0.05, T:0.73
Consensus pattern (17 bp):
TTTTTTCATTTTAATGA
Found at i:110184988 original size:17 final size:19
Alignment explanation
Indices: 110184956--110184999 Score: 58
Period size: 17 Copynumber: 2.4 Consensus size: 19
110184946 TTTTTTTCAA
110184956 GATTTTTTTCATTTTT-AT
1 GATTTTTTTCATTTTTAAT
110184974 GAATTTTTTT-A-TTTTAAT
1 G-ATTTTTTTCATTTTTAAT
110184992 GATTTTTT
1 GATTTTTT
110185000 AAAACGAGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 11 0.46
18 5 0.21
19 8 0.33
ACGTcount: A:0.20, C:0.02, G:0.07, T:0.70
Consensus pattern (19 bp):
GATTTTTTTCATTTTTAAT
Found at i:110185224 original size:31 final size:31
Alignment explanation
Indices: 110185188--110185247 Score: 104
Period size: 31 Copynumber: 1.9 Consensus size: 31
110185178 ATTGTTATTG
110185188 AATTAT-TCGAAAGTTTTTATTTAAGTCACTA
1 AATTATCT-GAAAGTTTTTATTTAAGTCACTA
110185219 AATTATCTGAAAGTTTTTATTTAAGTCAC
1 AATTATCTGAAAGTTTTTATTTAAGTCAC
110185248 ATGACTATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
31 27 0.96
32 1 0.04
ACGTcount: A:0.35, C:0.10, G:0.10, T:0.45
Consensus pattern (31 bp):
AATTATCTGAAAGTTTTTATTTAAGTCACTA
Found at i:110185992 original size:22 final size:21
Alignment explanation
Indices: 110185967--110186019 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 21
110185957 AAGCCCTCCC
110185967 AAAAAAAAAACCTTAACCAAAA
1 AAAAAAAAAACC-TAACCAAAA
**
110185989 AAAAAAGAAAACCTAACCCCAA
1 AAAAAA-AAAACCTAACCAAAA
110186011 AAAAAAAAA
1 AAAAAAAAA
110186020 GAAAAACCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 3 0.11
22 19 0.68
23 6 0.21
ACGTcount: A:0.74, C:0.19, G:0.02, T:0.06
Consensus pattern (21 bp):
AAAAAAAAAACCTAACCAAAA
Found at i:110186014 original size:26 final size:26
Alignment explanation
Indices: 110185985--110186045 Score: 97
Period size: 26 Copynumber: 2.4 Consensus size: 26
110185975 AACCTTAACC
110185985 AAAAAAAAAAG-AAAACCTAACCCCA
1 AAAAAAAAAAGAAAAACCTAACCCCA
*
110186010 AAAAAAAAAAGAAAAACCTAACCCCC
1 AAAAAAAAAAGAAAAACCTAACCCCA
*
110186036 CAAAAAAAAA
1 AAAAAAAAAA
110186046 CCAAGAGACC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
25 11 0.33
26 22 0.67
ACGTcount: A:0.70, C:0.23, G:0.03, T:0.03
Consensus pattern (26 bp):
AAAAAAAAAAGAAAAACCTAACCCCA
Found at i:110188600 original size:12 final size:12
Alignment explanation
Indices: 110188580--110188615 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
110188570 AGTCATTTGA
110188580 CATTCATGCATT
1 CATTCATGCATT
*
110188592 CATTTATGCATT
1 CATTCATGCATT
*
110188604 CATTCATTCATT
1 CATTCATGCATT
110188616 GCATATTCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.25, C:0.22, G:0.06, T:0.47
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:110192578 original size:65 final size:65
Alignment explanation
Indices: 110192497--110192633 Score: 247
Period size: 65 Copynumber: 2.1 Consensus size: 65
110192487 ACCCAATAAA
* *
110192497 ATACATGATGGAATCACCGGCACTCTCAGGAAGAATGGCATGATGGCAGATCCTCCTATCAGGAT
1 ATACATGATGGAATCACCGGCACTCTCAGGAAGAATGGCACGATGGCAGATCCTCCTATCAGAAT
110192562 ATACATGATGGAATCACCGGCACTCTCAGGAAGAATGGCACGATGGCAGATCCTCCTATCAGAAT
1 ATACATGATGGAATCACCGGCACTCTCAGGAAGAATGGCACGATGGCAGATCCTCCTATCAGAAT
110192627 ATGACAT
1 AT-ACAT
110192634 TGCCTATGTA
Statistics
Matches: 69, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
65 65 0.94
66 4 0.06
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.21
Consensus pattern (65 bp):
ATACATGATGGAATCACCGGCACTCTCAGGAAGAATGGCACGATGGCAGATCCTCCTATCAGAAT
Found at i:110195695 original size:75 final size:72
Alignment explanation
Indices: 110195511--110195703 Score: 228
Period size: 72 Copynumber: 2.6 Consensus size: 72
110195501 TAAGCCTTTT
* * * *
110195511 AATTTTTGTTTTTCAAA-ATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAG
1 AATTTTTG-TTTTCAAATATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAG
* *
110195575 GTATTTTC
65 GTAATCTC
* * *
110195583 AATTTTTGTGTTT-TAATTTAAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAGCGATGA
1 AATTTTTGT-TTTCAAATATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA-CGATGA
110195647 GGTAATCTC
64 GGTAATCTC
* *
110195656 AATTTCTGTTTGTCAAGATATCAACTCATATTGCGAGAGGTGGGTTGA
1 AATTTTTGTTT-TCAA-ATATCAACTCATATTGCGAGAGGTGAGTTGA
110195704 ACCTTTTAAT
Statistics
Matches: 101, Mismatches: 14, Indels: 9
0.81 0.11 0.07
Matches are distributed among these distances:
71 3 0.03
72 48 0.48
73 21 0.21
74 1 0.01
75 28 0.28
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.35
Consensus pattern (72 bp):
AATTTTTGTTTTCAAATATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGG
TAATCTC
Found at i:110195916 original size:83 final size:84
Alignment explanation
Indices: 110195721--110196798 Score: 694
Period size: 80 Copynumber: 12.9 Consensus size: 84
110195711 AATTTCTACT
* * *
110195721 TTTTCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAA
1 TTTTGAAAATCAACTCATATTGCGAGAGGAGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAA
* * *
110195786 TTTCTGTTTTTATTTAACG
66 TTTCTGTTTTCATTTTATG
* * *
110195805 TTTTGAAAGATCAACTCATATTGCGAGA-G-GTGTTGAGTCTGAGGTCACGCCGA-GTA-TTT-A
1 TTTTGAAA-ATCAACTCATATTGCGAGAGGAGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCA
110195865 ATTTCTGTTTTCATTTTATG
65 ATTTCTGTTTTCATTTTATG
*
110195885 TTTTG-AAATCAGCTCATATTGCGAGAGGAGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAA
1 TTTTGAAAATCAACTCATATTGCGAGAGGAGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAA
*
110195949 TTTCCGTTTTTTCAATTTTATG
66 TTT-C-TGTTTTC-ATTTTATG
*
110195971 TTTTTGAAAGAATCAACTCGTATTGCGAGAGGAGAGTTGAGCCTCAGGTCACACGCCGAGGTATT
1 -TTTTG-AA-AATCAACTCATATTGCGAGAGGAGAGTTGAGCCTCAGGT--CACGCCGAGGTATT
* * *
110196036 TTCAATTTCCGTTTTTCAATTTCTG
61 TTCAATTTCTG-TTTTCATTTTATG
* * * * *
110196061 TCTTTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAAT
1 T-TTT----GAAAATCAACTCATATTGCGAGAGGAGAGTTGAGCCTCAGGTCACGCCGAGGTATT
*
110196126 TTCAATTTCTGTTGTCA----A--
61 TTCAATTTCTGTTTTCATTTTATG
* * * *
110196144 ----AAAAATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTC
1 TTTTGAAAATCAACTCATATTGCGAGAGGAGAGTTGAGCCTCAGGT--CACGCCGAGGTATTTTC
* *
110196205 AATTTCTGTTTTTCAATTTCTGG
64 AATTTCTG-TTTTCATTTTAT-G
** * * * *
110196228 CTTTCAAAAAAATCAACTCATATTG-GAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTT
1 -TTT--TGAAAATCAACTCATATTGCGAGAGGAGAGTTGAGCCTCAGGTCACGCCGAGGTATTTT
*
110196292 CAATTTCTGTTGTCA----A--
63 CAATTTCTGTTTTCATTTTATG
* * * *
110196308 -----AAAGTCAACTCGTATTGCGAGCGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTC
1 TTTTGAAAATCAACTCATATTGCGAGAGGAGAGTTGAGCCTCAGGT--CACGCCGAGGTATTTTC
*
110196368 AATTTCTGCCTTTCA----A--
64 AATTTCTG-TTTTCATTTTATG
**** * * * *
110196384 -AAAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACGCGCTGAGCTATTTT
1 TTTTGAAAATCAACTCATATTGCGAGAGGAGAGTTGAGCCTCAGG-TCACGC-C-GAGGTATTTT
110196447 CAATTTCTG---TC-TTTTA--
63 CAATTTCTGTTTTCATTTTATG
* * *
110196463 ----AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCCGAGGTATTTTC
1 TTTTGAAAATCAACTCATATTGCGAGAGGAGAGTTGAGCCTCAGGT--CACGCCGAGGTATTTTC
* * *
110196524 AATTTCCGTTTTTCAATTTCTG
64 AATTTCTG-TTTTCATTTTATG
* * * * * *
110196546 TCTTTCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTAT
1 T-TTT---GAAAATCAACTCATATTGCGAGAGGAGAGTTGAGCCTCAGGTCACGC-C-GAGGTAT
* * *
110196611 TTT---TTT-T-TACTTCAATTTATAA
60 TTTCAATTTCTGT-TTTCATTTTAT-G
* * * *
110196633 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCCGACGTATTTT
1 TTTT-GAAAATCAACTCATATTGCGAGAGGAGAGTTGAGCCTCAGGT--CACGCCGAGGTATTTT
* ** * *
110196698 TAATTTCCAATTTTCAATTTCTG
63 CAATTT-CTGTTTTCATTTTATG
* * * * **
110196721 TTTTCAAAATTCAACTCATATTGCGAGA-AATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
1 TTTTGAAAA-TCAACTCATATTGCGAGAGGA-GAGTTGAGCCTCAGGTCACGCCGAGGTATTTTC
110196785 AATTTCTGTTTTCA
64 AATTTCTGTTTTCA
110196799 AAAAATCAAC
Statistics
Matches: 814, Mismatches: 95, Indels: 169
0.76 0.09 0.16
Matches are distributed among these distances:
72 15 0.02
73 20 0.02
74 38 0.05
75 23 0.03
76 84 0.10
77 7 0.01
78 28 0.03
79 7 0.01
80 96 0.12
81 9 0.01
82 6 0.01
83 26 0.03
84 58 0.07
85 33 0.04
86 42 0.05
87 18 0.02
88 61 0.07
89 20 0.02
90 90 0.11
91 73 0.09
92 58 0.07
93 2 0.00
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.34
Consensus pattern (84 bp):
TTTTGAAAATCAACTCATATTGCGAGAGGAGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAA
TTTCTGTTTTCATTTTATG
Found at i:110196077 original size:92 final size:86
Alignment explanation
Indices: 110195726--110196298 Score: 553
Period size: 90 Copynumber: 6.7 Consensus size: 86
110195716 CTACTTTTTC
* * *
110195726 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGAGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTCC
* *
110195791 GTTTTT--ATTTAACGTTTTGA
66 GTTTTTCAATTT-ATGTTTTAA
* * * * *
110195811 AAGATCAACTCATATTGCGAGA-G-GTGTTGAGTCTGAGGTCACGCCGA-GTA-TTT-AATTTCT
1 AAAATCAACTCATATTGCGAGAGGAGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTCC
*
110195871 G-TTTTCATTTTATGTTTT--
66 GTTTTTCAATTTATGTTTTAA
* *
110195889 GAAATCAGCTCATATTGCGAGAGGAGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTCC
1 AAAATCAACTCATATTGCGAGAGGAGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTCC
110195954 GTTTTTTCAATTTTATGTTTTTGAA
66 G-TTTTTCAA-TTTATG-TTTT-AA
* *
110195979 AGAATCAACTCGTATTGCGAGAGGAGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGAGAGTTGAGCCTCAGGT--CACGCCGAGGTATTTTCAATTT
*
110196044 CCGTTTTTCAATTTCTGTCTTTAAAAA
64 CCGTTTTTCAATTTATGT-TTT---AA
* * * * *
110196071 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGAGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTCC
*
110196136 G-TTGTC-----A------AA
66 GTTTTTCAATTTATGTTTTAA
* * *
110196145 AAAATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGAGAGTTGAGCCTCAGGT--CACGCCGAGGTATTTTCAATTT
* * *
110196210 CTGTTTTTCAATTTCTGGCTTTCAAA
64 CCGTTTTTCAATTTAT-G-TTT-TAA
* * * *
110196236 AAAATCAACTCATATTG-GAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
1 AAAATCAACTCATATTGCGAGAGGAGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTC
110196299 TGTTGTCAAA
Statistics
Matches: 408, Mismatches: 44, Indels: 69
0.78 0.08 0.13
Matches are distributed among these distances:
74 39 0.10
76 23 0.06
77 4 0.01
78 19 0.05
79 5 0.01
80 35 0.09
81 9 0.02
82 6 0.01
83 28 0.07
84 1 0.00
85 26 0.06
86 6 0.01
87 4 0.01
88 21 0.05
89 5 0.01
90 87 0.21
91 26 0.06
92 64 0.16
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (86 bp):
AAAATCAACTCATATTGCGAGAGGAGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTCC
GTTTTTCAATTTATGTTTTAA
Found at i:110196198 original size:76 final size:75
Alignment explanation
Indices: 110196048--110197026 Score: 470
Period size: 76 Copynumber: 12.2 Consensus size: 75
110196038 CAATTTCCGT
*
110196048 TTTTCAATTTCTGTCTTTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--
1 TTTTCAATTTCTG--TTT-CAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTC
*
110196111 ACACGCTGAGGTA
63 ACACGCCGAGGTA
* * * *
110196124 ATTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCAC
1 TTTTCAATTTCTGTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCAC
110196189 ACGCCGAGGTA
65 ACGCCGAGGTA
* * * *
110196200 TTTTCAATTTCTGTTTTTCAATTTCTGGCTTTCAAAAA--AA-TCA-ACT-C-ATATTGGAGAGG
1 TTTTCAATTTCTG--TTTCAA------------AAAAATCAACTCATATTGCGAGA--GGTGAGT
* * * *
110196259 TGAG-TTGAGCCTCAGGACACGCTGAGGTA
50 TGAGCCTCAG-GTC---ACACGCCGAGGTA
* * * * *
110196288 ATTTCAATTTCTGTTGTC-AAAAAGTCAACTCGTATTGCGAGCGGCGAGTTGAGCCTCAGGTCAC
1 TTTTCAATTTCTGTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCAC
110196352 ACGCCGAGGTA
65 ACGCCGAGGTA
* *
110196363 TTTTCAATTTCTGCCTTTCAAAAAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCT-TGG
1 TTTTCAATTTCTG--TTTC---AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
* * *
110196427 CTCACGCGCTGAGCTA
61 -TCACACGCCGAGGTA
** *
110196443 TTTTCAATTTCTGTCTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCAC
1 TTTTCAATTTCTGT-TTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCAC
110196508 ACGCCGAGGTA
65 ACGCCGAGGTA
* *** *
110196519 TTTTCAATTTCCGTTTTTCAATTTCTGTCTTTCAAAAA--AA-TCAACTCATATTGTGAGAGGTG
1 TTTTCAATTT-C-TGTTTCAA------------AAAAATCAACTC-A-T-ATTGCGAGAG--GTG
* * * *
110196581 AGTTGAGCTTCAGATCACACACTGAGGTA
47 AGTTGAGCCTCAGGTCACACGCCGAGGTA
* *
110196610 TTTTTTTTTACTTCAATTTATAATTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 -------TT--TTCAATTTCT--GTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
* *
110196673 CTCAGATCACACGCCGACGTA
55 CTCAGGTCACACGCCGAGGTA
* * **
110196694 TTTTTAATTTCCAAT-TTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTG
1 TTTTCAATTT-C--TGTTTCAA-----------AAAAATCAACTCATATTGCGAGAGGTGAGTTG
* **
110196758 AGCCTCAAG--ACACGTTGAGGTA
52 AGCCTCAGGTCACACGCCGAGGTA
* *
110196780 TTTTCAATTTCTGTTTTC-AAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCA
1 TTTTCAATTTCTG-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-TCA
* * *
110196843 CGCGCTGAGCTA
64 CACGCCGAGGTA
* *
110196855 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCA
1 TTTTCAATTTCTG--TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCA
* *
110196920 CACACTGAGGTA
64 CACGCCGAGGTA
* * * * *
110196932 TTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGT
1 --TTTTCAA-TT-TCTGTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGT
* *
110196997 CACATGTCGAGGTA
62 CACACGCCGAGGTA
**
110197011 TTTTCAAAATCTGTTT
1 TTTTCAATTTCTGTTT
110197027 TTCAAATTCT
Statistics
Matches: 693, Mismatches: 109, Indels: 203
0.69 0.11 0.20
Matches are distributed among these distances:
72 1 0.00
73 33 0.05
74 46 0.07
75 64 0.09
76 103 0.15
77 70 0.10
78 20 0.03
79 68 0.10
80 61 0.09
81 2 0.00
83 2 0.00
84 33 0.05
85 18 0.03
86 37 0.05
87 8 0.01
88 64 0.09
89 18 0.03
91 29 0.04
98 3 0.00
100 13 0.02
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (75 bp):
TTTTCAATTTCTGTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACA
CGCCGAGGTA
Found at i:110196219 original size:14 final size:14
Alignment explanation
Indices: 110196200--110196226 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
110196190 CGCCGAGGTA
110196200 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
110196214 TTTTCAATTTCTG
1 TTTTCAATTTCTG
110196227 GCTTTCAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.15, G:0.07, T:0.63
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:110196232 original size:14 final size:14
Alignment explanation
Indices: 110196201--110196234 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
110196191 GCCGAGGTAT
**
110196201 TTTCAATTTCTGTT
1 TTTCAATTTCTGGC
110196215 TTTCAATTTCTGGC
1 TTTCAATTTCTGGC
110196229 TTTCAA
1 TTTCAA
110196235 AAAAATCAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.18, C:0.18, G:0.09, T:0.56
Consensus pattern (14 bp):
TTTCAATTTCTGGC
Found at i:110196514 original size:156 final size:155
Alignment explanation
Indices: 110196214--110197159 Score: 695
Period size: 156 Copynumber: 5.9 Consensus size: 155
110196204 CAATTTCTGT
* *
110196214 TTTTCAATTTCTGGCTTTC--AAAAAAATCAACTCATATTG-GAGAGGTGAGTTGAGCCTCAGG-
1 TTTTCAATTTCTGTCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGC
* * * * * * *
110196275 --ACACGCTGAGGTAATTTCAATTTCTG-TTGTCAAAAAGTCAACTCGTATTGCGAGCGGCGAGT
65 TCACACGCTGAGGTATTTTCAATTTCTGTTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGT
*
110196337 TGAGCCTCAGGTCACACGCCGAGGTA
130 TGAGCCTCAGATCACACGCCGAGGTA
* *
110196363 TTTTCAATTTCTGCCTTTCAAAAAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTTGGC
1 TTTTCAATTTCTGTCTTTC-AAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGC
* *
110196428 TCACGCGCTGAGCTATTTTCAATTTCTGTCTTTT-AAAAAATCAACTCATATTGCGAGAGGTGAG
65 TCACACGCTGAGGTATTTTCAATTTCTGT-TTTTAAAAAAATCAACTCATATTGCGAGAGGTGAG
110196492 TTGAGCCTCAGATCACACGCCGAGGTA
129 TTGAGCCTCAGATCACACGCCGAGGTA
* * *
110196519 TTTTCAATTTCCGTTTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGTGAGAGGTGAGT
1 TTTTCAATTTCTGTCTTTCAA------------AAAAAAATCAACTCATATTGCGAGAGGTGAGT
* * * **
110196584 TGAG-CTTCAGATCACACACTGAGGTATTTT-TTTTTACT-TCAATTTATAATTTTCAAAAATCA
54 TGAGCCTT-GGCTCACACGCTGAGGTATTTTCAATTT-CTGT---TTT-TAA-----AAAAATCA
*
110196646 ACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCCGACGTA
108 ACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCCGAGGTA
* * **** * **
110196694 TTTTTAATTTCCAATTTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGA
1 TTTTCAATTT-C---TGTC--TTTC---AAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
** * * *
110196759 GCC-T--CAAGACACGTTGAGGTATTTTCAATTTCTG-TTTTCAAAAAATCAACTTATATTGCGA
57 GCCTTGGC-TCACACGCTGAGGTATTTTCAATTTCTGTTTTTAAAAAAATCAACTCATATTGCGA
** * * * *
110196820 GAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTA
121 GAGGTGAGTTGAGCCTCAGATCACACGCCGAGGTA
* *
110196855 TTTTCAATTTCTGTCTTTC--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTCAGA
1 TTTTCAATTTCTGTCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT-GGC
* * * * *
110196917 TCACACACTGAGGTATTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTG
65 TCACACGCTGAGGTA--TTTTCAATTTCTGTTTTT-AAAAAAATCAACTCATATTGCGAGAGGTG
* * * *
110196982 AGTTGAGCCTCGGGTCACATGTCGAGGTA
127 AGTTGAGCCTCAGATCACACGCCGAGGTA
** * * * *
110197011 TTTTCAAAATCTGTTTTTCAAATTCTGTTTTCAAAAATCAACTCATATTGCAAGAAGTGAGTTGA
1 TTTTCAATTTCTGTCTTTCAAA---------AAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
** * *
110197076 GCCTTGGCTCACGTGCTGAGCTATTTTCAATTTCTATTTTTTTTTCAAAAAAATTCAACTCATAT
57 GCCTTGGCTCACACGCTGAGGTATTTTCAATTTC----TGTTTTT-AAAAAAA-TCAACTCATAT
110197141 TGCGAGAGGTGAGTTGAGC
116 TGCGAGAGGTGAGTTGAGC
110197160 TTTTTAATTT
Statistics
Matches: 632, Mismatches: 95, Indels: 119
0.75 0.11 0.14
Matches are distributed among these distances:
149 19 0.03
150 32 0.05
152 32 0.05
153 18 0.03
154 11 0.02
155 33 0.05
156 131 0.21
157 6 0.01
158 1 0.00
160 1 0.00
161 57 0.09
165 10 0.02
166 9 0.01
167 100 0.16
168 6 0.01
169 15 0.02
170 46 0.07
171 3 0.00
172 31 0.05
173 1 0.00
175 64 0.10
176 1 0.00
179 1 0.00
181 4 0.01
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (155 bp):
TTTTCAATTTCTGTCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCT
CACACGCTGAGGTATTTTCAATTTCTGTTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
GAGCCTCAGATCACACGCCGAGGTA
Found at i:110196538 original size:14 final size:14
Alignment explanation
Indices: 110196519--110196553 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
110196509 CGCCGAGGTA
110196519 TTTTCAATTTCCGT
1 TTTTCAATTTCCGT
*
110196533 TTTTCAATTTCTGT
1 TTTTCAATTTCCGT
*
110196547 CTTTCAA
1 TTTTCAA
110196554 AAAAATCAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.17, C:0.20, G:0.06, T:0.57
Consensus pattern (14 bp):
TTTTCAATTTCCGT
Found at i:110196597 original size:91 final size:88
Alignment explanation
Indices: 110196443--110196796 Score: 418
Period size: 91 Copynumber: 4.0 Consensus size: 88
110196433 CGCTGAGCTA
*
110196443 TTTTCAATTTCTGTCTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCAC
1 TTTTCAATTTCTG--TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCAC
110196508 ACGCCGAGGTATTTTCAATTTCCGT
64 ACGCCGAGGTATTTTCAATTTCCGT
* *
110196533 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCTTCAGATCA
1 TTTTCAATTTCTGT-TTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCA
* *
110196598 CACACTGAGGTATTTT---TTT---T
63 CACGCCGAGGTATTTTCAATTTCCGT
* * *
110196618 TACTTCAATTTATAATTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCAC
1 T-TTTCAATTTCT-GTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCAC
* * **
110196683 ACGCCGACGTATTTTTAATTTCCAA
64 ACGCCGAGGTATTTTCAATTTCCGT
* ** *
110196708 TTTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCA-A-GACAC
1 TTTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACAC
** *
110196771 GTTGAGGTATTTTCAATTTCTGT
66 GCCGAGGTATTTTCAATTTCCGT
110196794 TTT
1 TTT
110196797 CAAAAAATCA
Statistics
Matches: 225, Mismatches: 28, Indels: 26
0.81 0.10 0.09
Matches are distributed among these distances:
84 55 0.24
85 2 0.01
86 36 0.16
87 5 0.02
88 45 0.20
89 12 0.05
90 14 0.06
91 56 0.25
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.38
Consensus pattern (88 bp):
TTTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACAC
GCCGAGGTATTTTCAATTTCCGT
Found at i:110196649 original size:84 final size:83
Alignment explanation
Indices: 110196444--110197159 Score: 470
Period size: 88 Copynumber: 8.6 Consensus size: 83
110196434 GCTGAGCTAT
*
110196444 TTTCAATTTCTGTCTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACA
1 TTTCAATTTCTG--TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACA
110196509 CGCCGAGGTATTTTCAATTTCCGTT-
64 CGCCGAGGTATTTT---TTT---TTA
* *
110196534 TTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCTTCAGATCAC
1 TTTCAATTTCTGT-TTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCAC
* *
110196599 ACACTGAGGTATTTTTTTTTA
63 ACGCCGAGGTATTTTTTTTTA
* * *
110196620 CTTCAATTTATAATTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACAC
1 TTTCAATTTCT-GTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACAC
* *
110196685 GCCGACGTATTTTTAATTTCCAA
65 GCCGAGGTATTTTT--TTT--TA
* ** *
110196708 TTTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCA-A-GACAC
1 -TTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACAC
**
110196771 GTTGAGGTA--------T-
65 GCCGAGGTATTTTTTTTTA
* ** * *
110196781 TTTCAATTTCTGTTTTCAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGC
1 TTTCAATTTCTGTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACAC
* *
110196846 GCTGAGCTA--------T-
65 GCCGAGGTATTTTTTTTTA
*
110196856 TTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCAC
1 TTTCAATTTCTGT-TTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCAC
* * **
110196921 ACACTGAGGTA-TTTTTTCAA
63 ACGCCGAGGTATTTTTTTTTA
* * * * *
110196941 TTT--A--TAT-TTTTCAAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTCACA
1 TTTCAATTTCTGTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACA
* * *
110197001 TGTCGAGGTATTTTCAAAATCTGTT-
64 CGCCGAGGTATTTT-----T-TTTTA
* * * ** * **
110197026 TTTCAAATTCTGTTTTCAAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCTTGGCTCACGTG
1 TTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACG
* * **
110197091 CTGAGCTA---TTTTCAA
66 CCGAGGTATTTTTTTTTA
* *
110197106 TTTCTATTT-TTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGC
1 TTTCAATTTCTGTTTTC--AAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC
110197160 TTTTTAATTT
Statistics
Matches: 511, Mismatches: 76, Indels: 86
0.76 0.11 0.13
Matches are distributed among these distances:
72 17 0.03
73 33 0.06
75 24 0.05
76 4 0.01
77 49 0.10
79 60 0.12
80 12 0.02
81 7 0.01
82 28 0.05
83 1 0.00
84 56 0.11
85 10 0.02
86 27 0.05
87 3 0.01
88 93 0.18
89 14 0.03
90 17 0.03
91 56 0.11
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.36
Consensus pattern (83 bp):
TTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACG
CCGAGGTATTTTTTTTTA
Found at i:110196672 original size:175 final size:166
Alignment explanation
Indices: 110196387--110197159 Score: 696
Period size: 167 Copynumber: 4.7 Consensus size: 166
110196377 CTTTCAAAAA
* * * * * * *
110196387 AAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTT-GGCTCACGCGCTGAGCTA--TTTTCA
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAG-CTTCAGATCACACACTGAGGTATTTTTTCA
* * *
110196449 ATTTCT-GTCTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCC
65 ATTTATAAT-TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCC
*
110196513 GAGGTATTTTCAATTTCCGTTTTTCAATTTCTGTCTTTC
129 GAGGTATTTTCAATTTCCGATTTTCAATTTCTGT-TTTC
* *
110196552 AAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTT
1 --AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCTTCAGATCACACACTGAGGTA-----TT
110196617 TTACTTCAATTTATAATTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATC
59 TT--TTCAATTTATAATTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATC
* * *
110196681 ACACGCCGACGTATTTTTAATTTCCAATTTTCAATTTCTGTTTTC
122 ACACGCCGAGGTATTTTCAATTTCCGATTTTCAATTTCTGTTTTC
* * * * **
110196726 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCA-A-GACACGTTGAGGTA--TTTTCAA
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTCAA
* * * ** * * *
110196787 TTTCT-GTTTTCAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGA
66 TTTATAATTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCCGA
* *
110196851 GCTATTTTCAATTTCTG-TCTTTCAA-----------
131 GGTATTTTCAATTTCCGAT-TTTCAATTTCTGTTTTC
*
110196876 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTCAA
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTCAA
* * * * * * *
110196941 TTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTCACATGTCG
66 TTTATAATTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCCG
** * * *
110197006 AGGTATTTTCAAAATCTGTTTTTCAAATTCTGTTTTC
130 AGGTATTTTCAATTTCCGATTTTCAATTTCTGTTTTC
* * * *** *
110197043 AAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCTT-GGCTCACGTGCTGAGCTA--TTTTCA
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAG-CTTCAGATCACACACTGAGGTATTTTTTCA
**
110197105 ATTTCTATTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGC
65 A-TT-TA--TAATTTTC-AAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC
110197160 TTTTTAATTT
Statistics
Matches: 502, Mismatches: 67, Indels: 71
0.78 0.10 0.11
Matches are distributed among these distances:
150 35 0.07
151 1 0.00
152 11 0.02
154 11 0.02
155 5 0.01
156 64 0.13
157 1 0.00
160 6 0.01
161 73 0.15
163 2 0.00
165 7 0.01
166 5 0.01
167 91 0.18
168 3 0.01
169 14 0.03
170 39 0.08
171 1 0.00
172 34 0.07
174 6 0.01
175 80 0.16
176 12 0.02
177 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (166 bp):
AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTCAA
TTTATAATTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCCGA
GGTATTTTCAATTTCCGATTTTCAATTTCTGTTTTC
Found at i:110196880 original size:492 final size:480
Alignment explanation
Indices: 110195956--110197079 Score: 1413
Period size: 492 Copynumber: 2.3 Consensus size: 480
110195946 CAATTTCCGT
* * * *
110195956 TTTTTCAATTTTATGTTTTTGAAAGAATCAACTCGTATTGCGAGAGGAGAGTTGAGCCTCAGGTC
1 TTTTTCAA-TTTATGTTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTC
*
110196021 ACACGCCGAGGTATTTTCAATTTCCGTTTTTCAATTTCTGTCTTTAAAAAAAAATCAACTCATAT
65 ACACGCCGAGGTATTTTCAATTTCCGTTTTTCAATTTCTGTCTTT-CAAAAAAATCAACTCATAT
* * * * *
110196086 TGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAATC
129 TGCGAGAGGTGAGTTGAGCCTCAGCACACACTGAGGTAACTTCAATTTATATTGTC-AAAAAATC
* * * * ***
110196151 AACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCTGTTT
193 AACTCATATTGCGAGAGGCGAGTTGAGCCTCAGATCACACGCCGACGTATTTTCAATTTCCAATT
** *
110196216 TTCAATTTCTGGCTTTCAAAAAAATCAACTCATATTGGAGAGGTGAGTTGAGCCTCAGGACACGC
258 TTCAATTTCTGGCTTTC-AAAAAATCAACTCATATTGGAGAAATGAGTTGAGCCTCAAGACACGC
* * *
110196281 TGAGGTAATTTCAATTTCTGTTGTCAAAAAGTCAACTCGTATTGCGAGCGGCGAGTTGAGCCTCA
322 TGAGGTAATTTCAATTTCTGTTGTCAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCA
* *
110196346 GGTCACACGCCGAGGTATTTTCAATTTCTGCCTTTCAAAAAAAAAATCGACTCATATTGCGAGAG
387 GGTCACACGCCGAGCTATTTTCAATTTCTGCCTTTC---AAAAAAATCAACTCATATTGCGAGAG
* * * *
110196411 GTGAGTTGAGCCTT-GGCTCACGCGCTGAGCTA
449 GTGAGTTGAG-CTTCAGATCACACACTGAGCTA
* *
110196443 -TTTTCAATTTCTGTCTTTT-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATC
1 TTTTTCAATTTATGT-TTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTC
110196506 ACACGCCGAGGTATTTTCAATTTCCGTTTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATT
65 ACACGCCGAGGTATTTTCAATTTCCGTTTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATT
* * *
110196571 GTGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTTTTACTTCAATTTATAATTT
130 GCGAGAGGTGAGTTGAGCCTCAG--CACACACTGAGGTA---------ACTTCAATTTAT-ATTG
* *
110196636 TC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCCGACGTATTTTTA
183 TCAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGATCACACGCCGACGTATTTTCA
* *
110196700 ATTTCCAATTTTCAATTTCT-GTTTTC-AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCT
248 ATTTCCAATTTTCAATTTCTGGCTTTCAAAAAATCAACTCATATTG-GAGAAATGAGTTGAGCCT
* * * * *
110196763 CAAGACACGTTGAGGTATTTTCAATTTCTGTTTTCAAAAAATCAACTTATATTGCGAGAGGTGAG
312 CAAGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAATCAACTCATATTGCGAGAGGCGAG
* * * *
110196828 TTGAGCCT-TGGCTCACGCGCTGAGCTATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATAT
377 TTGAGCCTCAGG-TCACACGCCGAGCTATTTTCAATTTCTGCCTTTCAAAAAAATCAACTCATAT
*
110196892 TGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTA
441 TGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGCTA
* * * *
110196932 TTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGT
1 -TTTTTCAATTTATGTTTTT-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGT
* * ** * *
110196997 CACATGTCGAGGTATTTTCAAAATCTGTTTTTCAAATTCTGT-TTTC--AAAAATCAACTCATAT
64 CACACGCCGAGGTATTTTCAATTTCCGTTTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATAT
* *
110197059 TGCAAGAAGTGAGTTGAGCCT
129 TGCGAGAGGTGAGTTGAGCCT
110197080 TGGCTCACGT
Statistics
Matches: 554, Mismatches: 63, Indels: 38
0.85 0.10 0.06
Matches are distributed among these distances:
484 40 0.07
485 91 0.16
486 23 0.04
488 3 0.01
489 81 0.15
490 4 0.01
491 35 0.06
492 185 0.33
493 5 0.01
494 73 0.13
495 10 0.02
496 4 0.01
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.34
Consensus pattern (480 bp):
TTTTTCAATTTATGTTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCA
CACGCCGAGGTATTTTCAATTTCCGTTTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTG
CGAGAGGTGAGTTGAGCCTCAGCACACACTGAGGTAACTTCAATTTATATTGTCAAAAAATCAAC
TCATATTGCGAGAGGCGAGTTGAGCCTCAGATCACACGCCGACGTATTTTCAATTTCCAATTTTC
AATTTCTGGCTTTCAAAAAATCAACTCATATTGGAGAAATGAGTTGAGCCTCAAGACACGCTGAG
GTAATTTCAATTTCTGTTGTCAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTC
ACACGCCGAGCTATTTTCAATTTCTGCCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
GAGCTTCAGATCACACACTGAGCTA
Found at i:110196896 original size:77 final size:77
Alignment explanation
Indices: 110196707--110197370 Score: 406
Period size: 88 Copynumber: 8.2 Consensus size: 77
110196697 TTAATTTCCA
* ** *
110196707 ATTTTCAATTTCTG-TTTTC--AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCC-T--CAA
1 ATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGC-T
* *
110196766 GACACGTTGAGGT
65 CACACGCTGAGGT
*
110196779 ATTTTCAATTTCTG-TTTTC-AAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTTGGCTC
1 ATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTC
* *
110196842 ACGCGCTGAGCT
66 ACACGCTGAGGT
* * *
110196854 ATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTCAGAT
1 ATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT-GGCT
*
110196918 CACACACTGAGGT
65 CACACGCTGAGGT
* * * * * *
110196931 ATTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGG
1 A--TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGC
*
110196996 TCACATG-TCGAGGT
64 TCACACGCT-GAGGT
** * *
110197010 ATTTTCAAAATCTGTTTTTCAAATTCTGTTTTCAAAAATCAACTCATATTGCAAGAAGTGAGTTG
1 ATTTTCAATTTCTGTTTTTC-AA----------AAAAATCAACTCATATTGCGAGAGGTGAGTTG
** *
110197075 AGCCTTGGCTCACGTGCTGAGCT
55 AGCCTTGGCTCACACGCTGAGGT
*
110197098 ATTTTCAATTTCTATTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTT
1 ATTTTCAATTTC----TGTTTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC---
* ** * * *
110197163 TTAATTTCTGCGAGA-GTTGAGTT
58 CT--TGGCT-C-ACACGCTGAGGT
* * **
110197186 GAGTCTTTTAATTTCTGTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCCA
1 -A-T-TTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TG
** *
110197249 G-TCACA-TATCAAGGT
62 GCTCACACGCT-GAGGT
* *
110197264 ATTTTCAAAATCTGCTTTTCAAGTTAAGTTTC-AAAAAATCAACTCATATTGTGAGAGGTGAGTT
1 ATTTTC--AA------TTTC-TGTT---TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
* *
110197328 GAGCCTTGGCTCACGCGCTGAGCT
54 GAGCCTTGGCTCACACGCTGAGGT
110197352 ATTTTCAATTTCTGTTTTT
1 ATTTTCAATTTCTGTTTTT
110197371 AATGTCTGTT
Statistics
Matches: 464, Mismatches: 74, Indels: 104
0.72 0.12 0.16
Matches are distributed among these distances:
72 19 0.04
73 32 0.07
74 1 0.00
75 26 0.06
76 12 0.03
77 68 0.15
78 7 0.02
79 66 0.14
80 6 0.01
81 6 0.01
82 28 0.06
83 4 0.01
84 32 0.07
85 6 0.01
86 2 0.00
87 15 0.03
88 111 0.24
89 4 0.01
90 1 0.00
91 11 0.02
92 7 0.02
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (77 bp):
ATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTC
ACACGCTGAGGT
Found at i:110196903 original size:322 final size:320
Alignment explanation
Indices: 110196533--110197159 Score: 861
Period size: 317 Copynumber: 1.9 Consensus size: 320
110196523 CAATTTCCGT
*
110196533 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCTTCAGATCA
1 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCA
*
110196598 CACACTGAGGTATTTTTTTTTACTTCAATTTATAATTTTC-AAAAATCAACTCATATTGCGAGAG
66 CACACTGAGGTA-----TTTT--TTCAATTTATAATTTTCAAAAAATCAACTCACATTGCGAGAG
* ** *
110196662 GTGAGTTGAGCCTCAGATCACACGCCGACGTATTTTTAATTTCCAATTTTCAATTTCTGTTTTCA
124 GTGAGTTGAGCCTCAGATCACACGCCGACGTATTTTCAAAATCCAATTTTCAAATTCTGTTTTCA
* * *
110196727 AAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG-ACACGT-TGAGGTATTTTCAATTT
189 AAAATCAACTCATATTGCAAGAAATGAGTTGAGCCT-AAGCACACGTCTGAGCTATTTTCAATTT
*
110196790 C-TGTTTTC-AAAAAA-TCAACTTATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAG
253 CTTGTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAG
110196852 CTA
318 CTA
110196855 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCA
1 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCA
* *
110196920 CACACTGAGGTATTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTGAGT
66 CACACTGAGGTATTTTTTCAATTTATAATTTTC-AAAAAATCAACTCACATTGCGAGAGGTGAGT
* * * * * ***
110196985 TGAGCCTCGGGTCACATGTCGAGGTATTTTCAAAATCTGTTTTTCAAATTCTGTTTTCAAAAATC
130 TGAGCCTCAGATCACACGCCGACGTATTTTCAAAATCCAATTTTCAAATTCTGTTTTCAAAAATC
* ** *
110197050 AACTCATATTGCAAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAATTTCTATTT
195 AACTCATATTGCAAGAAATGAGTTGAGCCTAAGCACACGT-CTGAGCTATTTTCAATTTC----T
*
110197115 TTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGC
255 TGTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGC
110197160 TTTTTAATTT
Statistics
Matches: 268, Mismatches: 25, Indels: 20
0.86 0.08 0.06
Matches are distributed among these distances:
315 16 0.06
316 1 0.00
317 117 0.44
319 17 0.06
322 76 0.28
324 6 0.02
325 6 0.02
326 29 0.11
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.36
Consensus pattern (320 bp):
TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCA
CACACTGAGGTATTTTTTCAATTTATAATTTTCAAAAAATCAACTCACATTGCGAGAGGTGAGTT
GAGCCTCAGATCACACGCCGACGTATTTTCAAAATCCAATTTTCAAATTCTGTTTTCAAAAATCA
ACTCATATTGCAAGAAATGAGTTGAGCCTAAGCACACGTCTGAGCTATTTTCAATTTCTTGTTTT
CAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTA
Found at i:110196983 original size:79 final size:76
Alignment explanation
Indices: 110196707--110197161 Score: 350
Period size: 79 Copynumber: 5.8 Consensus size: 76
110196697 TTAATTTCCA
* * ** * *
110196707 ATTTTCAATTTCTGTTTTC--AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCA-A-GA
1 ATTTTCAATTTCTTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCA
*
110196768 CACGTTGAGGT
66 CACGCTGAGGT
* * * *
110196779 ATTTTCAATTTCTGTTTTC-AAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTT-GGCTC
1 ATTTTCAATTTCTTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTCAGATC
* *
110196842 ACGCGCTGAGCT
65 ACACGCTGAGGT
*
110196854 ATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATC
1 ATTTTCAATTTCT-TTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATC
*
110196919 ACACACTGAGGT
65 ACACGCTGAGGT
* * * * * *
110196931 ATTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGG
1 A--TTTTCAATTTCT-TTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGA
*
110196996 TCACATG-TCGAGGT
63 TCACACGCT-GAGGT
** * *
110197010 ATTTTCAAAATCTGTTTTTCAAATTCTGTTTTCAAAAATCAACTCATATTGCAAGAAGTGAGTTG
1 ATTTTCAATTTCT-TTTTTC-AA----------AAAAATCAACTCATATTGCGAGAGGTGAGTTG
* * ** *
110197075 AGCCTT-GGCTCACGTGCTGAGCT
54 AG-CTTCAGATCACACGCTGAGGT
110197098 ATTTTCAATTTCTATTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTT
1 ATTTTCAATTTC-----TTTTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCTT
110197162 TTTAATTTCT
Statistics
Matches: 310, Mismatches: 44, Indels: 49
0.77 0.11 0.12
Matches are distributed among these distances:
72 19 0.06
73 30 0.10
74 2 0.01
75 22 0.07
76 7 0.02
77 62 0.20
78 3 0.01
79 65 0.21
81 8 0.03
82 27 0.09
88 53 0.17
89 3 0.01
91 2 0.01
92 6 0.02
93 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (76 bp):
ATTTTCAATTTCTTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCA
CACGCTGAGGT
Found at i:110197030 original size:14 final size:13
Alignment explanation
Indices: 110197011--110197046 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
110197001 TGTCGAGGTA
110197011 TTTTCAAAATCTG
1 TTTTCAAAATCTG
*
110197024 TTTTTCAAATTCTG
1 -TTTTCAAAATCTG
110197038 TTTTCAAAA
1 TTTTCAAAA
110197047 ATCAACTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.31, C:0.14, G:0.06, T:0.50
Consensus pattern (13 bp):
TTTTCAAAATCTG
Found at i:110197177 original size:30 final size:30
Alignment explanation
Indices: 110197141--110197202 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
110197131 CAACTCATAT
110197141 TGCGAGAGGTGAGTTGAG-CTTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTC-TTTTAATTTC
*
110197171 TGCGAGAGTTGAGTTGAGTCTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
110197201 TG
1 TG
110197203 TTTTTCAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.97
31 1 0.03
ACGTcount: A:0.19, C:0.10, G:0.29, T:0.42
Consensus pattern (30 bp):
TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
Found at i:110197285 original size:254 final size:247
Alignment explanation
Indices: 110196780--110197370 Score: 766
Period size: 254 Copynumber: 2.4 Consensus size: 247
110196770 CGTTGAGGTA
* *
110196780 TTTTCAATTTCTGTTTTCAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG
1 TTTTCAAATTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG
*
110196845 CGCTGAGCTATTTTCAATTTC---TGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
66 CGCTGAGCTATTTTCAATTTCTTTTTTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
*
110196907 GAGCTTCAGATCACACACTGAGGTATTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATT
131 GAGCTTCAGATCACACACTGAGGTATCTTTTCAATTTATATTTTTC-AAAAAATCAACTCACATT
* * ** * * *
110196972 GCGAGATGTGAGTTGAGCCTCGGGTCACATGTCGAGGTATTTTCAAAATCTGT
195 GCGAGAGGTGAGTTGAACCTCCAGTCACATATCAAGGTATTTTCAAAATCTGC
* *
110197025 TTTTCAAATTCTGTTTTC-AAAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCTTGGCTCACG
1 TTTTCAAATTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG
* *
110197089 TGCTGAGCTATTTTCAATTTCTATTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAG
66 CGCTGAGCTATTTTCAATTTCT-TTTTTCTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAG
* * * * * * *
110197154 TTGAGCTTTTTA-ATTTCTGCGAGAGTTGAGTTGAGTCTTTT-AATTTCTGTTTTTC-AAAAATC
129 TTGAGC--TTCAGA--TC-AC-ACA-CTGAGGT-A-TCTTTTCAATTTATATTTTTCAAAAAATC
*
110197216 AACTCATATTGCGAGAGGTGAGTTGAACCTCCAGTCACATATCAAGGTATTTTCAAAATCTGC
185 AACTCACATTGCGAGAGGTGAGTTGAACCTCCAGTCACATATCAAGGTATTTTCAAAATCTGC
* ** *
110197279 TTTTCAAGTTAAG-TTTCAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTTGGCTCACG
1 TTTTCAAATTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG
110197343 CGCTGAGCTATTTTCAATTTCTGTTTTT
66 CGCTGAGCTATTTTCAATTTCT-TTTTT
110197371 AATGTCTGTT
Statistics
Matches: 300, Mismatches: 31, Indels: 21
0.85 0.09 0.06
Matches are distributed among these distances:
244 63 0.21
245 17 0.06
248 13 0.04
249 30 0.10
250 1 0.00
251 3 0.01
252 2 0.01
253 5 0.02
254 143 0.48
255 5 0.02
256 13 0.04
257 5 0.02
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (247 bp):
TTTTCAAATTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG
CGCTGAGCTATTTTCAATTTCTTTTTTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
GAGCTTCAGATCACACACTGAGGTATCTTTTCAATTTATATTTTTCAAAAAATCAACTCACATTG
CGAGAGGTGAGTTGAACCTCCAGTCACATATCAAGGTATTTTCAAAATCTGC
Found at i:110198050 original size:22 final size:22
Alignment explanation
Indices: 110198025--110198075 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
110198015 AAGCCCTCCC
110198025 AAAAAAAACCTAACCAAAAAAA
1 AAAAAAAACCTAACCAAAAAAA
**
110198047 AAAAAAAACCTAACCCCAAAAA
1 AAAAAAAACCTAACCAAAAAAA
110198069 AAAAAAA
1 AAAAAAA
110198076 GAAAAACCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.76, C:0.20, G:0.00, T:0.04
Consensus pattern (22 bp):
AAAAAAAACCTAACCAAAAAAA
Found at i:110198090 original size:27 final size:26
Alignment explanation
Indices: 110198025--110198089 Score: 86
Period size: 26 Copynumber: 2.7 Consensus size: 26
110198015 AAGCCCTCCC
110198025 AAAAAAAACCTAA--CC--AAAAAAA
1 AAAAAAAACCTAACCCCAAAAAAAAA
110198047 AAAAAAAACCTAACCCCAAAAAAAAA
1 AAAAAAAACCTAACCCCAAAAAAAAA
110198073 AAAGAAAAACC-AACCCC
1 AAA-AAAAACCTAACCCC
110198090 CCCAAAAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
22 13 0.34
24 2 0.05
26 16 0.42
27 7 0.18
ACGTcount: A:0.71, C:0.25, G:0.02, T:0.03
Consensus pattern (26 bp):
AAAAAAAACCTAACCCCAAAAAAAAA
Found at i:110198096 original size:26 final size:27
Alignment explanation
Indices: 110198037--110198100 Score: 87
Period size: 26 Copynumber: 2.4 Consensus size: 27
110198027 AAAAAACCTA
110198037 ACCAAAAAAAAAAAAAAACCTAACCCC
1 ACCAAAAAAAAAAAAAAACCTAACCCC
*
110198064 A-AAAAAAAAAAAGAAAAACC-AACCCC
1 ACCAAAAAAAAAA-AAAAACCTAACCCC
*
110198090 CCCAAAAAAAA
1 ACCAAAAAAAA
110198101 CCAAGAAACC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
26 16 0.50
27 16 0.50
ACGTcount: A:0.70, C:0.27, G:0.02, T:0.02
Consensus pattern (27 bp):
ACCAAAAAAAAAAAAAAACCTAACCCC
Found at i:110198894 original size:37 final size:36
Alignment explanation
Indices: 110198853--110198953 Score: 89
Period size: 37 Copynumber: 2.6 Consensus size: 36
110198843 CTAATATTTT
110198853 TTTTATTGTAGATATTATTATTATTATTAT-TACATA
1 TTTTATT-TAGATATTATTATTATTATTATGTACATA
*
110198889 CTTTTATTATATGCATATATATATATGTATTTTTATGTACATA
1 -TTTTATT-TA-G-ATAT-TAT-TAT-TATTATTATGTACATA
*
110198932 TTATTATTT-TATATTATTATTA
1 TT-TTATTTAGATATTATTATTA
110198954 CCAAATATAT
Statistics
Matches: 54, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
36 2 0.04
37 12 0.22
38 4 0.07
39 8 0.15
40 3 0.06
41 3 0.06
42 11 0.20
43 11 0.20
ACGTcount: A:0.33, C:0.04, G:0.05, T:0.58
Consensus pattern (36 bp):
TTTTATTTAGATATTATTATTATTATTATGTACATA
Found at i:110203280 original size:27 final size:29
Alignment explanation
Indices: 110203232--110203294 Score: 71
Period size: 27 Copynumber: 2.3 Consensus size: 29
110203222 TATAATTATC
*
110203232 TAAATCAATAAAAACAACT-AAAT-TTAA
1 TAAATAAATAAAAACAACTAAAATATTAA
*
110203259 TAAATAAATAAAAA-ATATTAAAATATTAA
1 TAAATAAATAAAAACA-ACTAAAATATTAA
110203288 T-AATAAA
1 TAAATAAA
110203295 GTTAAGAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
26 1 0.03
27 15 0.48
28 10 0.32
29 5 0.16
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.29
Consensus pattern (29 bp):
TAAATAAATAAAAACAACTAAAATATTAA
Found at i:110204959 original size:6 final size:6
Alignment explanation
Indices: 110204948--110204974 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
110204938 TTTATATATT
110204948 ATATAG ATATAG ATATAG ATATAG ATA
1 ATATAG ATATAG ATATAG ATATAG ATA
110204975 ATGCTGTAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.15, T:0.33
Consensus pattern (6 bp):
ATATAG
Found at i:110205294 original size:48 final size:51
Alignment explanation
Indices: 110205195--110205294 Score: 145
Period size: 48 Copynumber: 2.0 Consensus size: 51
110205185 TTAATTGGGA
**
110205195 TATATTGAATAAAAAATAACAAAGTAAAAAGATAGCTTTGACCCTATTTAC
1 TATATTGAATAAAAAATAACAAAGTAAAAAGATAAATTTGACCCTATTTAC
110205246 TATATTGAATAAAAAA-ATA-AAA-TAAAAA-ATAAATTTGACCCTATTTAC
1 TATATTGAATAAAAAATA-ACAAAGTAAAAAGATAAATTTGACCCTATTTAC
110205294 T
1 T
110205295 TCTCTTATAA
Statistics
Matches: 46, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
48 19 0.41
49 6 0.13
50 4 0.09
51 17 0.37
ACGTcount: A:0.52, C:0.10, G:0.07, T:0.31
Consensus pattern (51 bp):
TATATTGAATAAAAAATAACAAAGTAAAAAGATAAATTTGACCCTATTTAC
Found at i:110210186 original size:2 final size:2
Alignment explanation
Indices: 110210181--110210205 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
110210171 AAAAAATAAA
110210181 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
110210206 ACTAAAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:110212981 original size:22 final size:22
Alignment explanation
Indices: 110212944--110213000 Score: 62
Period size: 24 Copynumber: 2.5 Consensus size: 22
110212934 ACTTTAGCCA
*
110212944 TTTTTTTATTGCAATT-TAATT
1 TTTTTTTATTTCAATTATAATT
*
110212965 TTGTTTTTATTTTAATTACTAATT
1 TT-TTTTTATTTCAATTA-TAATT
110212989 TTTCTTTTATTT
1 TTT-TTTTATTT
110213001 AGTTCTGGCA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
21 2 0.07
22 12 0.40
23 1 0.03
24 15 0.50
ACGTcount: A:0.21, C:0.05, G:0.04, T:0.70
Consensus pattern (22 bp):
TTTTTTTATTTCAATTATAATT
Found at i:110214454 original size:21 final size:23
Alignment explanation
Indices: 110214426--110214487 Score: 83
Period size: 21 Copynumber: 2.8 Consensus size: 23
110214416 CCTGATCAGT
110214426 ATACGACACATAAAGTGCCT-AA
1 ATACGACACATAAAGTGCCTGAA
** *
110214448 A-ACGACACACGAGGTGCCTGAA
1 ATACGACACATAAAGTGCCTGAA
110214470 ATACGACACATAAAGTGC
1 ATACGACACATAAAGTGC
110214488 TTGATCAGTA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
21 15 0.47
22 4 0.12
23 13 0.41
ACGTcount: A:0.42, C:0.24, G:0.19, T:0.15
Consensus pattern (23 bp):
ATACGACACATAAAGTGCCTGAA
Found at i:110223829 original size:75 final size:75
Alignment explanation
Indices: 110223709--110223879 Score: 212
Period size: 75 Copynumber: 2.4 Consensus size: 75
110223699 CATATCAAAG
** *
110223709 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
110223768 CCATACTGAGC
65 CCATACCGAGC
110223779 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
110223844 CATACCGAGT
66 CATACCGAGC
** *
110223854 TGAAAAATGTAGGTATGATATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
110223880 TGAGGAAAAC
Statistics
Matches: 87, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
70 18 0.21
73 4 0.05
74 5 0.06
75 60 0.69
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:110223847 original size:35 final size:35
Alignment explanation
Indices: 110223712--110223875 Score: 170
Period size: 35 Copynumber: 4.5 Consensus size: 35
110223702 ATCAAAGTGT
* **
110223712 GAAATGTAGGTATGGTATCATCCATACTGAGTTGT
1 GAAATGTAGGTATGGTATTATCCATACTGAGTTAA
* **
110223747 GAAATGTAGGTATGGTATTATCCATACTGAGCTGT
1 GAAATGTAGGTATGGTATTATCCATACTGAGTTAA
110223782 GAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAA
1 GAAATGTAGGTATGGTA-T-T---ATCCATACTGAGTTAA
* *
110223822 GAAATGTAGGTATGGCATT-TCCCATACCGAGTTGAA
1 GAAATGTAGGTATGGTATTAT-CCATACTGAGTT-AA
*
110223858 -AAATGTAGGTATGATATT
1 GAAATGTAGGTATGGTATT
110223876 TCAATGAGGA
Statistics
Matches: 113, Mismatches: 9, Indels: 14
0.83 0.07 0.10
Matches are distributed among these distances:
34 1 0.01
35 77 0.68
36 3 0.03
37 1 0.01
38 1 0.01
39 1 0.01
40 29 0.26
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (35 bp):
GAAATGTAGGTATGGTATTATCCATACTGAGTTAA
Found at i:110225093 original size:10 final size:10
Alignment explanation
Indices: 110225078--110225107 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
110225068 TACACCGTCG
110225078 CGACCACCAC
1 CGACCACCAC
*
110225088 CGACCACCGC
1 CGACCACCAC
110225098 CGACCACCAC
1 CGACCACCAC
110225108 TATCAGTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.27, C:0.60, G:0.13, T:0.00
Consensus pattern (10 bp):
CGACCACCAC
Done.