Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold29
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: 5511024
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 57772 characters in sequence are not A, C, G, or T
File 5 of 34
Found at i:731295 original size:20 final size:20
Alignment explanation
Indices: 731245--731299 Score: 51
Period size: 20 Copynumber: 2.8 Consensus size: 20
731235 TCTGCAATTA
731245 GTATCAATACA-ACATGTCAAT
1 GTATCAATACATA-A-GTCAAT
** *
731266 GTATTGATACATAAGTGAAT
1 GTATCAATACATAAGTCAAT
731286 GTATCAATAC-TAAG
1 GTATCAATACATAAG
731300 GCTTATTTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
19 4 0.14
20 13 0.46
21 10 0.36
22 1 0.04
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.31
Consensus pattern (20 bp):
GTATCAATACATAAGTCAAT
Found at i:733764 original size:26 final size:26
Alignment explanation
Indices: 733728--733788 Score: 113
Period size: 26 Copynumber: 2.3 Consensus size: 26
733718 AGGGATGCTA
733728 CAACCCCATCTTCCGAGTGGACACTC
1 CAACCCCATCTTCCGAGTGGACACTC
733754 CAACCCCATCTTCCGAGTGGACACTC
1 CAACCCCATCTTCCGAGTGGACACTC
*
733780 CAACTCCAT
1 CAACCCCAT
733789 TTTTAAACTC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.25, C:0.43, G:0.13, T:0.20
Consensus pattern (26 bp):
CAACCCCATCTTCCGAGTGGACACTC
Found at i:733949 original size:95 final size:96
Alignment explanation
Indices: 733746--733949 Score: 241
Period size: 95 Copynumber: 2.1 Consensus size: 96
733736 TCTTCCGAGT
* * * * *
733746 GGACACTCCAACCCCATCTTCCGAGTGGACACTCCAACTCCATTTTTAAACTCGTCAAGATTTAA
1 GGACACTACAACCCCAACTTCCGAGAGGACACTCCAACCCCATGTTTAAACTCGTCAAGATTTAA
* * *
733811 GTATTATTTTTGCTTAAATTGTCATCATCAA
66 ATATCATTTTTGCTTAAATTATCATCATCAA
* * * * *
733842 GGATACTTCAACCCTAACTTCCGA-AGGATACTCCAACCCCATGTTTAAACTCGTCGAGATTTAA
1 GGACACTACAACCCCAACTTCCGAGAGGACACTCCAACCCCATGTTTAAACTCGTCAAGATTTAA
* * *
733906 ATCTCATTTTTGCTTAACTTATCATCATC-G
66 ATATCATTTTTGCTTAAATTATCATCATCAA
733936 GGAACACTACAACC
1 GG-ACACTACAACC
733950 TCATTCCTCC
Statistics
Matches: 90, Mismatches: 17, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
94 2 0.02
95 68 0.76
96 20 0.22
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.31
Consensus pattern (96 bp):
GGACACTACAACCCCAACTTCCGAGAGGACACTCCAACCCCATGTTTAAACTCGTCAAGATTTAA
ATATCATTTTTGCTTAAATTATCATCATCAA
Found at i:734942 original size:4 final size:4
Alignment explanation
Indices: 734923--734991 Score: 69
Period size: 4 Copynumber: 18.2 Consensus size: 4
734913 AAGGAACAAA
734923 AAAG AAAAG AAAAG AAAG AAA- AAAG AAAG AAAG -AA- AAAG AAAG AAAG
1 AAAG -AAAG -AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG
*
734970 AAAA AAAG -AA- AAAG AAA- AAAG A
1 AAAG AAAG AAAG AAAG AAAG AAAG A
734992 GTAAATGAGG
Statistics
Matches: 56, Mismatches: 2, Indels: 13
0.79 0.03 0.18
Matches are distributed among these distances:
3 14 0.25
4 33 0.59
5 9 0.16
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:734942 original size:14 final size:14
Alignment explanation
Indices: 734923--734988 Score: 82
Period size: 14 Copynumber: 4.6 Consensus size: 14
734913 AAGGAACAAA
734923 AAAG-AAAAGAAAAG
1 AAAGAAAAAG-AAAG
734937 AAAGAAAAAAGAAAG
1 AAAG-AAAAAGAAAG
734952 AAAGAAAAAGAAAG
1 AAAGAAAAAGAAAG
*
734966 AAAGAAAAA-AAGAA
1 AAAGAAAAAGAA-AG
734980 AAAGAAAAA
1 AAAGAAAAA
734989 AGAGTAAATG
Statistics
Matches: 48, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
13 2 0.04
14 33 0.69
15 8 0.17
16 5 0.10
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (14 bp):
AAAGAAAAAGAAAG
Found at i:734958 original size:29 final size:28
Alignment explanation
Indices: 734921--734988 Score: 95
Period size: 29 Copynumber: 2.4 Consensus size: 28
734911 AAAAGGAACA
734921 AAAAAG-AAAAGAAAAGAAAG-AAAAAAG
1 AAAAAGAAAAAG-AAAGAAAGAAAAAAAG
734948 AAAGAAAGAAAAAGAAAGAAAGAAAAAAAG
1 -AA-AAAGAAAAAGAAAGAAAGAAAAAAAG
734978 AAAAAGAAAAA
1 AAAAAGAAAAA
734989 AGAGTAAATG
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
28 11 0.30
29 14 0.38
30 12 0.32
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (28 bp):
AAAAAGAAAAAGAAAGAAAGAAAAAAAG
Found at i:738492 original size:19 final size:19
Alignment explanation
Indices: 738446--738492 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
738436 AACCTAGAGT
* * *
738446 ACCTCAACATGCCCACCAT
1 ACCTCAACCTACCCACCAC
738465 ACCTCAACCTACCCACCAC
1 ACCTCAACCTACCCACCAC
738484 ACCTCAACC
1 ACCTCAACC
738493 AAACCAAATC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.32, C:0.53, G:0.02, T:0.13
Consensus pattern (19 bp):
ACCTCAACCTACCCACCAC
Found at i:740610 original size:28 final size:28
Alignment explanation
Indices: 740534--740610 Score: 109
Period size: 28 Copynumber: 2.8 Consensus size: 28
740524 GAAATAAAGC
***
740534 CAGGGTTGGAGTATCCCCTCGGAAATAA
1 CAGGGTTGGAGTATCCCCGATGAAATAA
*
740562 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CAGGGTTGGAGTATCCCCGATGAAATAA
*
740590 CAGGGCTGGAGTATCCCCGAT
1 CAGGGTTGGAGTATCCCCGAT
740611 TGTGAAAAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.26, C:0.22, G:0.31, T:0.21
Consensus pattern (28 bp):
CAGGGTTGGAGTATCCCCGATGAAATAA
Found at i:740637 original size:107 final size:107
Alignment explanation
Indices: 740451--740658 Score: 292
Period size: 107 Copynumber: 1.9 Consensus size: 107
740441 TTTGGAGATC
* * * *
740451 ATAACGGGGTTGGAGTATCCCCTTGAAAATAACGGGGTTGGAGTATCCTCGATTGTCAAAAATCA
1 ATAACGGGGTTGGAGTATCCCCATGAAAATAACAGGGCTGGAGTATCCCCGATTGTCAAAAATCA
* *
740516 GTATTTCAGAAATAAAGCCAGGGTTGGAGTATCCCCTCGGAA
66 GTATTTCAGAAATAAAACCAGAGTTGGAGTATCCCCTCGGAA
* *
740558 ATAACGGGGTTGGAGTATCCCCGATG-AAATAACAGGGCTGGAGTATCCCCGATTGTGAAAAATT
1 ATAACGGGGTTGGAGTATCCCC-ATGAAAATAACAGGGCTGGAGTATCCCCGATTGTCAAAAATC
* ** *
740622 AGTGTTTTGGAAATAAAATCAGAGTTGGAGTATCCCC
65 AGTATTTCAGAAATAAAACCAGAGTTGGAGTATCCCC
740659 AATTGTGGAG
Statistics
Matches: 88, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
107 86 0.98
108 2 0.02
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.25
Consensus pattern (107 bp):
ATAACGGGGTTGGAGTATCCCCATGAAAATAACAGGGCTGGAGTATCCCCGATTGTCAAAAATCA
GTATTTCAGAAATAAAACCAGAGTTGGAGTATCCCCTCGGAA
Found at i:740658 original size:51 final size:51
Alignment explanation
Indices: 740596--740709 Score: 149
Period size: 51 Copynumber: 2.2 Consensus size: 51
740586 ATAACAGGGC
* *
740596 TGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTGGAAATAAAA-TCAGAGT
1 TGGAGTATCCCCAATTGTGAAAAATTAGTGTTTTAGAAATAAAACT-AGAGT
* * * * *
740647 TGGAGTATCCCCAATTGTGGAGAATTGGTGTTTTAGAAATAAAACTGGGGT
1 TGGAGTATCCCCAATTGTGAAAAATTAGTGTTTTAGAAATAAAACTAGAGT
740698 TGGAGTATCCCC
1 TGGAGTATCCCC
740710 TCAGAAATAA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
51 54 0.98
52 1 0.02
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.31
Consensus pattern (51 bp):
TGGAGTATCCCCAATTGTGAAAAATTAGTGTTTTAGAAATAAAACTAGAGT
Found at i:740731 original size:79 final size:79
Alignment explanation
Indices: 740646--740816 Score: 211
Period size: 79 Copynumber: 2.2 Consensus size: 79
740636 AAAATCAGAG
* * * ** * *
740646 TTGGAGTATCCCCAATTGTGGAGAATTGGTGTTTTAGAAATAAAACT-GGGGTTGGAGTATCCCC
1 TTGGAGTATCCCCAATTATGAAAAATTAATATTTTAGAAAT-AAACTCGGAGTTGGAGTATCCCC
740710 TC-AGAAATAACGGGA
65 TCGA-AAATAACGGGA
* *
740725 TTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAGTCGGAGTTGGAGTATCCCCT
1 TTGGAGTATCCCCAATTATGAAAAATTAATATTTTAGAAATAAACTCGGAGTTGGAGTATCCCCT
*
740790 CGAAAATAACGGGG
66 CGAAAATAACGGGA
*
740804 TAGGAGTATCCCC
1 TTGGAGTATCCCC
740817 GATGAAATAA
Statistics
Matches: 79, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
78 4 0.05
79 74 0.94
80 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.27
Consensus pattern (79 bp):
TTGGAGTATCCCCAATTATGAAAAATTAATATTTTAGAAATAAACTCGGAGTTGGAGTATCCCCT
CGAAAATAACGGGA
Found at i:740811 original size:28 final size:28
Alignment explanation
Indices: 740778--740844 Score: 93
Period size: 28 Copynumber: 2.4 Consensus size: 28
740768 AGTCGGAGTT
740778 GGAGTATCCCCTCGA-AAATAACGGGGTA
1 GGAGTATCCCC-CGAGAAATAACGGGGTA
*
740806 GGAGTAT-CCCCGATGAAATAACGGGGTT
1 GGAGTATCCCCCGA-GAAATAACGGGGTA
740834 GGAGTATCCCC
1 GGAGTATCCCC
740845 AATTATGAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
26 3 0.09
27 3 0.09
28 26 0.74
29 3 0.09
ACGTcount: A:0.28, C:0.22, G:0.30, T:0.19
Consensus pattern (28 bp):
GGAGTATCCCCCGAGAAATAACGGGGTA
Found at i:740829 original size:107 final size:107
Alignment explanation
Indices: 740693--740895 Score: 327
Period size: 107 Copynumber: 1.9 Consensus size: 107
740683 AAATAAAACT
* *
740693 GGGGTTGGAGTATCCCCTCAGAAATAACGGGATTGGAGTATCCCCGATTATGAAAAATTAATATT
1 GGGGTAGGAGTATCCCCTCAGAAATAACGGGATTGGAGTATCCCCAATTATGAAAAATTAATATT
*
740758 TTAGAAATAAAGTCGGAGTTGGAGTATCCCCTCGAAAATAAC
66 TTAGAAATAAAATCGGAGTTGGAGTATCCCCTCGAAAATAAC
* * * *
740800 GGGGTAGGAGTATCCCC-GATGAAATAACGGGGTTGGAGTATCCCCAATTATGAAAAATTAGTGT
1 GGGGTAGGAGTATCCCCTCA-GAAATAACGGGATTGGAGTATCCCCAATTATGAAAAATTAATAT
740864 TTTAGAAATAAAATCGGAGTTGGAGTATCCCC
65 TTTAGAAATAAAATCGGAGTTGGAGTATCCCC
740896 GATTCCAGGG
Statistics
Matches: 88, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
106 1 0.01
107 87 0.99
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.26
Consensus pattern (107 bp):
GGGGTAGGAGTATCCCCTCAGAAATAACGGGATTGGAGTATCCCCAATTATGAAAAATTAATATT
TTAGAAATAAAATCGGAGTTGGAGTATCCCCTCGAAAATAAC
Found at i:740874 original size:237 final size:236
Alignment explanation
Indices: 740455--740947 Score: 697
Period size: 237 Copynumber: 2.1 Consensus size: 236
740445 GAGATCATAA
* * * * *
740455 CGGGGTTGGAGTATCCCCTTGAAAATAACGGGGTTGGAGTATCCTCGATTGTCAAAAATCAGTAT
1 CGGGGTTGGAGTATCCCCTAGAAAATAACGGGATTGGAGTATCCCCGATTATCAAAAATCAATAT
* *
740520 TTCAGAAATAAAGCCAGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGA
66 TTCAGAAATAAAGCCAGGGTTGGAGTATCCCCTCGAAAATAACGGGGTAGGAGTATCCCCGATGA
* * *
740585 AATAACAGGGCTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTGGAAATAAAATCAGAGTTGG
131 AATAACAGGGCTGGAGTATCCCCAATTATGAAAAATTAGTGTTTTAGAAATAAAATCAGAGTTGG
*
740650 AGTATCCCCAATT-GTGGAGAATTGGTGTTTTAGAAATAAAA-
196 AGTATCCCCAATTCG-GGA-AATGGGTGTTTTAGAAATAAAAT
* *
740691 CTGGGGTTGGAGTATCCCCTCAG-AAATAACGGGATTGGAGTATCCCCGATTATGAAAAATTAAT
1 C-GGGGTTGGAGTATCCCCT-AGAAAATAACGGGATTGGAGTATCCCCGATTATCAAAAATCAAT
* *
740755 ATTTTAGAAATAAAGTC-GGAGTTGGAGTATCCCCTCGAAAATAACGGGGTAGGAGTATCCCCGA
64 ATTTCAGAAATAAAGCCAGG-GTTGGAGTATCCCCTCGAAAATAACGGGGTAGGAGTATCCCCGA
* * *
740819 TGAAATAACGGGGTTGGAGTATCCCCAATTATGAAAAATTAGTGTTTTAGAAATAAAATCGGAGT
128 TGAAATAACAGGGCTGGAGTATCCCCAATTATGAAAAATTAGTGTTTTAGAAATAAAATCAGAGT
* *
740884 TGGAGTATCCCCGATTCCAGGGAAATGGGTGTTTTTGAAATAAAAT
193 TGGAGTATCCCCAATT-C-GGGAAATGGGTGTTTTAGAAATAAAAT
* *
740930 CGGAGTTGCAGTATCCCC
1 CGGGGTTGGAGTATCCCC
740948 GATTGAGAAA
Statistics
Matches: 228, Mismatches: 22, Indels: 12
0.87 0.08 0.05
Matches are distributed among these distances:
236 3 0.01
237 184 0.81
238 36 0.16
239 4 0.02
240 1 0.00
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (236 bp):
CGGGGTTGGAGTATCCCCTAGAAAATAACGGGATTGGAGTATCCCCGATTATCAAAAATCAATAT
TTCAGAAATAAAGCCAGGGTTGGAGTATCCCCTCGAAAATAACGGGGTAGGAGTATCCCCGATGA
AATAACAGGGCTGGAGTATCCCCAATTATGAAAAATTAGTGTTTTAGAAATAAAATCAGAGTTGG
AGTATCCCCAATTCGGGAAATGGGTGTTTTAGAAATAAAAT
Found at i:740895 original size:51 final size:50
Alignment explanation
Indices: 740831--740997 Score: 176
Period size: 51 Copynumber: 3.3 Consensus size: 50
740821 AAATAACGGG
*
740831 GTTGGAGTATCCCCAATT-ATGAAAAATTAGTGTTTTAGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTCA-GAAAAATT-GTGTTTTAGAAATAAAATCGGA
** * *
740882 GTTGGAGTATCCCCGATTCCAGGGAAATGGGTGTTTTTGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATT-CAGAAAAAT-TGTGTTTTAGAAATAAAATCGGA
* * * * *
740934 GTTGCAGTATCCCCGATTGAGAAAAATTGATGTTTTGGAAATGAAACCGG-
1 GTTGGAGTATCCCCGATTCAGAAAAATTG-TGTTTTAGAAATAAAATCGGA
740984 GATTGGAGTATCCC
1 G-TTGGAGTATCCC
740998 TGAGATGAAA
Statistics
Matches: 97, Mismatches: 14, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
50 2 0.02
51 51 0.53
52 43 0.44
53 1 0.01
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.29
Consensus pattern (50 bp):
GTTGGAGTATCCCCGATTCAGAAAAATTGTGTTTTAGAAATAAAATCGGA
Found at i:744482 original size:61 final size:59
Alignment explanation
Indices: 744344--744571 Score: 244
Period size: 61 Copynumber: 3.8 Consensus size: 59
744334 CCGCTTTTTA
* * *
744344 AGGACTGAAAAGTGCCACCAACTCGTGTGGGC-TTGAAGAA-AAGGCGTCCTACCCTTTG
1 AGGACTG-AAAGTGCCACCAACTTGTGTGGGCTTTGAAAAAGAAGGCGTCCTACTCTTTG
* * * *
744402 AGGATTGGAAGATGCCACCAACTTGTGTGGGCTTTGCAAAAAGAAAGCATCCTACTCTTTG
1 AGGACTGAAAG-TGCCACCAACTTGTGTGGGCTTTG-AAAAAGAAGGCGTCCTACTCTTTG
* * * *
744463 AGGATTGAAAAGTGCCACCAACTTGTGTAGGCTTTGAAAGGAGAAGGCGTCCTGCTCTTTG
1 AGGACTG-AAAGTGCCACCAACTTGTGTGGGCTTTGAAA-AAGAAGGCGTCCTACTCTTTG
* * * * *
744524 AGGACTGAAGGTGCCACCAGCTTATGTGGGCTTTAAAAGAAAAAGGCG
1 AGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTGAAA-AAGAAGGCG
744572 AAAGGAGAGA
Statistics
Matches: 143, Mismatches: 21, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
57 3 0.02
58 25 0.17
59 3 0.02
60 41 0.29
61 68 0.48
62 3 0.02
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (59 bp):
AGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAAGAAGGCGTCCTACTCTTTG
Found at i:744617 original size:26 final size:26
Alignment explanation
Indices: 744588--744639 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
744578 GAGAGCGTCC
744588 TGCTCTTTGAGGACTAGGAAGTGCCA
1 TGCTCTTTGAGGACTAGGAAGTGCCA
744614 TGCTCTTTGAGGACTAGGAAGTGCCA
1 TGCTCTTTGAGGACTAGGAAGTGCCA
744640 CCAACTTGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (26 bp):
TGCTCTTTGAGGACTAGGAAGTGCCA
Found at i:744697 original size:61 final size:58
Alignment explanation
Indices: 744612--744863 Score: 221
Period size: 55 Copynumber: 4.3 Consensus size: 58
744602 TAGGAAGTGC
** *
744612 CATGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTGCAAAAAGAAAGCAT
1 CATGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT--AAAAAG-AAGCGT
* *
744673 CTTGCTTTTTGAGGACTAAAAAGTGCCCACCAACTTGTGTGGGCTTTAAAAGCAGAAGGCGT
1 CATGCTCTTTGAGGACTAAAAAGTG-CCACCAACTTGTGTGGGCTTTAAAA--AGAA-GCGT
* * * * * * *
744735 CCTGCTCTTTAAAGAC-AGAAGGTGCCACCAGCTTATGTGGGCTTT-AAAAG--GCGT
1 CATGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAGCGT
* * * *
744789 CATGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTATGGGATTT-GAAAG--GCGT
1 CATGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAGCGT
* **
744844 CCTATTCTTTGAGGACTAAA
1 CATGCTCTTTGAGGACTAAA
744864 GGGTGAAAAG
Statistics
Matches: 161, Mismatches: 25, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
54 17 0.11
55 49 0.30
57 2 0.01
59 3 0.02
60 23 0.14
61 29 0.18
62 38 0.24
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (58 bp):
CATGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAGCGT
Found at i:745940 original size:1 final size:1
Alignment explanation
Indices: 745934--746016 Score: 58
Period size: 1 Copynumber: 83.0 Consensus size: 1
745924 GCAGATTCTC
* * * * ** * * *
745934 TTTTTTTTTTCTCTTTTTTCTTTTTGTTTTTTTTTTTGGTTTTTTTGTTTTTTTGTTTTTTTGTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * *
745999 TTTGTTGTTTTTGTTTTT
1 TTTTTTTTTTTTTTTTTT
746017 AAAAAAAAAA
Statistics
Matches: 60, Mismatches: 22, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 60 1.00
ACGTcount: A:0.00, C:0.04, G:0.11, T:0.86
Consensus pattern (1 bp):
T
Found at i:745947 original size:13 final size:13
Alignment explanation
Indices: 745929--745969 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
745919 CTTAAGCAGA
745929 TTCTCTTTTTTTT
1 TTCTCTTTTTTTT
745942 TTCTCTTTTTTCTT
1 TTCTCTTTTTT-TT
*
745956 TT-TGTTTTTTTT
1 TTCTCTTTTTTTT
745968 TT
1 TT
745970 TGGTTTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 4 0.15
13 18 0.69
14 4 0.15
ACGTcount: A:0.00, C:0.12, G:0.02, T:0.85
Consensus pattern (13 bp):
TTCTCTTTTTTTT
Found at i:745958 original size:8 final size:8
Alignment explanation
Indices: 745934--746010 Score: 77
Period size: 8 Copynumber: 9.4 Consensus size: 8
745924 GCAGATTCTC
745934 TTTTT-TT
1 TTTTTGTT
* *
745941 TTTCTCTT
1 TTTTTGTT
745949 TTTTCT-TT
1 TTTT-TGTT
*
745957 TTGTTTTTT
1 TT-TTTGTT
745966 TTTTTGGTT
1 TTTTT-GTT
745975 TTTTTGTT
1 TTTTTGTT
745983 TTTTTGTT
1 TTTTTGTT
745991 TTTTTGTT
1 TTTTTGTT
745999 TTTGTTGTT
1 TTT-TTGTT
746008 TTT
1 TTT
746011 GTTTTTAAAA
Statistics
Matches: 61, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
7 4 0.07
8 35 0.57
9 22 0.36
ACGTcount: A:0.00, C:0.04, G:0.10, T:0.86
Consensus pattern (8 bp):
TTTTTGTT
Found at i:752408 original size:13 final size:13
Alignment explanation
Indices: 752390--752414 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
752380 ATAATGCACA
752390 GTATCGATACATT
1 GTATCGATACATT
752403 GTATCGATACAT
1 GTATCGATACAT
752415 GACCACTGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:752411 original size:33 final size:32
Alignment explanation
Indices: 752369--752431 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
752359 CACCTTCAAA
*
752369 TGTATCGATACATAATGCACAGTATCGATACAT
1 TGTATCGATACATAA-CCACAGTATCGATACAT
* *
752402 TGTATCGATACATGACCACTGTATCGATAC
1 TGTATCGATACATAACCACAGTATCGATAC
752432 TTGCAAAGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 13 0.48
33 14 0.52
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (32 bp):
TGTATCGATACATAACCACAGTATCGATACAT
Found at i:752532 original size:13 final size:13
Alignment explanation
Indices: 752514--752562 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 13
752504 ACATACAAGA
752514 TGTATCGATACAT
1 TGTATCGATACAT
752527 TGTATCGATACA-
1 TGTATCGATACAT
752539 TG-ATC-A-A-AT
1 TGTATCGATACAT
*
752548 TGTATCCATACAT
1 TGTATCGATACAT
752561 TG
1 TG
752563 GCTTGTAATG
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
8 1 0.03
9 3 0.10
10 4 0.13
11 4 0.13
12 3 0.10
13 16 0.52
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:752559 original size:34 final size:32
Alignment explanation
Indices: 752494--752562 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
752484 CCCTAACTGT
*
752494 TTGTATCGATACATACAAGATGTATCGATACA
1 TTGTATCGATACATACAAGATGTATCCATACA
752526 TTGTATCGATACATGATCAA-ATTGTATCCATACA
1 TTGTATCGATACAT-A-CAAGA-TGTATCCATACA
752560 TTG
1 TTG
752563 GCTTGTAATG
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
32 14 0.42
33 2 0.06
34 17 0.52
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (32 bp):
TTGTATCGATACATACAAGATGTATCCATACA
Found at i:754148 original size:3 final size:3
Alignment explanation
Indices: 754142--754169 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
754132 GGACGACGAA
754142 GAT GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT G
754170 GTGACTCAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:759172 original size:21 final size:21
Alignment explanation
Indices: 759128--759169 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
759118 TCTCTAGGCA
*
759128 GCACTCACCAGGTCGCGACCG
1 GCACTCACCAGGTCGCAACCG
759149 GCACTC-CCAGGTCGCAACCG
1 GCACTCACCAGGTCGCAACCG
759169 G
1 G
759170 GCAGCCCCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.19, C:0.43, G:0.29, T:0.10
Consensus pattern (21 bp):
GCACTCACCAGGTCGCAACCG
Found at i:759270 original size:16 final size:16
Alignment explanation
Indices: 759249--759283 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
759239 TTCTGATGGC
759249 CCCTCTCATGAAAC-TA
1 CCCTCTCAT-AAACGTA
759265 CCCTCTCATAAACGTA
1 CCCTCTCATAAACGTA
759281 CCC
1 CCC
759284 GAGGTGCATC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.29, C:0.43, G:0.06, T:0.23
Consensus pattern (16 bp):
CCCTCTCATAAACGTA
Found at i:760561 original size:21 final size:23
Alignment explanation
Indices: 760528--760573 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
760518 GTGATTAAAG
760528 GAAATTGTTTTA-TTAAGGGAGA
1 GAAATTGTTTTATTTAAGGGAGA
*
760550 GAAATT-TTTTATTTAAGGGGGA
1 GAAATTGTTTTATTTAAGGGAGA
760572 GA
1 GA
760574 GAAAAGGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.35, C:0.00, G:0.28, T:0.37
Consensus pattern (23 bp):
GAAATTGTTTTATTTAAGGGAGA
Found at i:761125 original size:13 final size:13
Alignment explanation
Indices: 761107--761132 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
761097 CACCTTCAGA
761107 TGTATCGATACAT
1 TGTATCGATACAT
761120 TGTATCGATACAT
1 TGTATCGATACAT
761133 GACCACTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:761250 original size:13 final size:13
Alignment explanation
Indices: 761232--761280 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 13
761222 ACATACAAGA
761232 TGTATCGATACAT
1 TGTATCGATACAT
761245 TGTATCGATACA-
1 TGTATCGATACAT
*
761257 TG-A-CCA-A-AT
1 TGTATCGATACAT
761266 TGTATCGATACAT
1 TGTATCGATACAT
761279 TG
1 TG
761281 GCTTGTAACG
Statistics
Matches: 29, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
8 1 0.03
9 3 0.10
10 3 0.10
11 3 0.10
12 3 0.10
13 16 0.55
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:761275 original size:34 final size:32
Alignment explanation
Indices: 761215--761280 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 32
761205 TAACTGTTTT
761215 TATCGATACATACAAGATGTATCGATACATTG
1 TATCGATACATACAAGATGTATCGATACATTG
761247 TATCGATACATGACCAA-ATTGTATCGATACATTG
1 TATCGATACAT-A-CAAGA-TGTATCGATACATTG
761281 GCTTGTAACG
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
32 11 0.35
33 2 0.06
34 18 0.58
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (32 bp):
TATCGATACATACAAGATGTATCGATACATTG
Found at i:764857 original size:28 final size:28
Alignment explanation
Indices: 764826--764897 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 28
764816 AATAAAGCCG
764826 GGGTTGGAGTATCCCCTCA-AAAATAACA
1 GGGTTGGAGTATCCCC-CATAAAATAACA
* *
764854 GGGTTGGAGTATCCCCGATGAAATAACA
1 GGGTTGGAGTATCCCCCATAAAATAACA
* *
764882 AGGCTGGAGTATCCCC
1 GGGTTGGAGTATCCCC
764898 GATTGTGAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
27 1 0.03
28 38 0.97
ACGTcount: A:0.31, C:0.22, G:0.26, T:0.21
Consensus pattern (28 bp):
GGGTTGGAGTATCCCCCATAAAATAACA
Found at i:764939 original size:107 final size:107
Alignment explanation
Indices: 764745--764948 Score: 293
Period size: 107 Copynumber: 1.9 Consensus size: 107
764735 GAGATCATAG
* * *
764745 CAGGGTTGGAGTATCCCCTTGAAAATAACGAGGTTGGAGTATCCCCGATTGTGAAAAATTAGTAT
1 CAGGGTTGGAGTATCCCCATGAAAATAACAAGGCTGGAGTATCCCCGATTGTGAAAAATTAGTAT
* * *
764810 TTCAAAAATAAAGCCGGGGTTGGAGTATCCCCTCAAAAATAA
66 TTCAAAAATAAAACCAGAGTTGGAGTATCCCCTCAAAAATAA
*
764852 CAGGGTTGGAGTATCCCCGATG-AAATAACAAGGCTGGAGTATCCCCGATTGTGAAAAATTAGTG
1 CAGGGTTGGAGTATCCCC-ATGAAAATAACAAGGCTGGAGTATCCCCGATTGTGAAAAATTAGTA
*** *
764916 TTTTGGAAATAAAATCAGAGTTGGAGTATCCCC
65 TTTCAAAAATAAAACCAGAGTTGGAGTATCCCC
764949 GATTGTGGAG
Statistics
Matches: 85, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
107 83 0.98
108 2 0.02
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (107 bp):
CAGGGTTGGAGTATCCCCATGAAAATAACAAGGCTGGAGTATCCCCGATTGTGAAAAATTAGTAT
TTCAAAAATAAAACCAGAGTTGGAGTATCCCCTCAAAAATAA
Found at i:764948 original size:51 final size:51
Alignment explanation
Indices: 764886--764999 Score: 158
Period size: 51 Copynumber: 2.2 Consensus size: 51
764876 ATAACAAGGC
*
764886 TGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTGGAAATAAAA-TCAGAGT
1 TGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAACT-AGAGT
* * * * *
764937 TGGAGTATCCCCGATTGTGGAGAATTGGTGTTTTAGAAATAAAACTGGGGT
1 TGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAACTAGAGT
764988 TGGAGTATCCCC
1 TGGAGTATCCCC
765000 TCGGAAATAA
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
51 55 0.98
52 1 0.02
ACGTcount: A:0.30, C:0.12, G:0.27, T:0.31
Consensus pattern (51 bp):
TGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAACTAGAGT
Found at i:765019 original size:79 final size:79
Alignment explanation
Indices: 764936--765109 Score: 240
Period size: 79 Copynumber: 2.2 Consensus size: 79
764926 AAAATCAGAG
* * * ** * *
764936 TTGGAGTATCCCCGATTGTGGAGAATTGGTGTTTTAGAAATAAAACTGGGGTTGGAGTATCCCCT
1 TTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCT
**
765001 CGGAAATAACGGGA
66 CAAAAATAACGGGA
765015 TTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCT
1 TTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCT
*
765080 CAAAAATAACGGGG
66 CAAAAATAACGGGA
* *
765094 TAGGAGTATCCTCGAT
1 TTGGAGTATCCCCGAT
765110 GAAATAATGG
Statistics
Matches: 83, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
79 83 1.00
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.28
Consensus pattern (79 bp):
TTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCT
CAAAAATAACGGGA
Found at i:765137 original size:28 final size:28
Alignment explanation
Indices: 765061--765137 Score: 93
Period size: 28 Copynumber: 2.8 Consensus size: 28
765051 GAAATAAAAC
*
765061 CGGGGTTGGAGTATCCCCTCA-AAAATAA
1 CGGGGTTGGAGTATCCCC-GATAAAATAA
* * *
765089 CGGGGTAGGAGTATCCTCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGATAAAATAA
*
765117 TGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
765138 TGTGAAAAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
27 1 0.02
28 40 0.98
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.23
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATAAAATAA
Found at i:765162 original size:237 final size:236
Alignment explanation
Indices: 764747--765237 Score: 754
Period size: 237 Copynumber: 2.1 Consensus size: 236
764737 GATCATAGCA
* * *
764747 GGGTTGGAGTATCCCCTTGAAAATAACGAGGTTGGAGTATCCCCGATTGTGAAAAATTAGTATTT
1 GGGTTGGAGTATCCCCTCGAAAATAACGAGGTTGGAGTATCCCCGATTATGAAAAATTAATATTT
* *
764812 CAAAAATAAAGCCGGGGTTGGAGTATCCCCTCAAAAATAACAGGGTTGGAGTATCCCCGATGAAA
66 CAAAAATAAAACCGGGGTTGGAGTATCCCCTCAAAAATAACAGGGTAGGAGTATCCCCGATGAAA
764877 TAACAAGGCTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTGGAAATAAAATCAGAGTTGGAG
131 TAACAAGGCTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTGGAAATAAAATCAGAGTTGGAG
*
764942 TATCCCCGATT-GTGGAGAATTGGTGTTTTAGAAATAAAA-CTG
196 TATCCCCGATTAG-GGA-AATGGGTGTTTTAGAAATAAAATC-G
*
764984 GGGTTGGAGTATCCCCTCGGAAATAACG-GGATTGGAGTATCCCCGATTATGAAAAATTAATATT
1 GGGTTGGAGTATCCCCTCGAAAATAACGAGG-TTGGAGTATCCCCGATTATGAAAAATTAATATT
* * * *
765048 TTAGAAATAAAACCGGGGTTGGAGTATCCCCTCAAAAATAACGGGGTAGGAGTATCCTCGATGAA
65 TCAAAAATAAAACCGGGGTTGGAGTATCCCCTCAAAAATAACAGGGTAGGAGTATCCCCGATGAA
*** * *
765113 ATAATGGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTGGAAATAAAATCGGAGTTGGA
130 ATAACAAGGCTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTGGAAATAAAATCAGAGTTGGA
765178 GTATCCCCGATTACAGGGAAATGGGTGTTTTAGAAATAAAATCG
195 GTATCCCCGATT--AGGGAAATGGGTGTTTTAGAAATAAAATCG
*
765222 GAGTTGGAGTATCCCC
1 GGGTTGGAGTATCCCC
765238 GATTGAGAAA
Statistics
Matches: 232, Mismatches: 17, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
236 2 0.01
237 188 0.81
238 37 0.16
239 4 0.02
240 1 0.00
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (236 bp):
GGGTTGGAGTATCCCCTCGAAAATAACGAGGTTGGAGTATCCCCGATTATGAAAAATTAATATTT
CAAAAATAAAACCGGGGTTGGAGTATCCCCTCAAAAATAACAGGGTAGGAGTATCCCCGATGAAA
TAACAAGGCTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTGGAAATAAAATCAGAGTTGGAG
TATCCCCGATTAGGGAAATGGGTGTTTTAGAAATAAAATCG
Found at i:765188 original size:51 final size:50
Alignment explanation
Indices: 765121--765288 Score: 212
Period size: 51 Copynumber: 3.3 Consensus size: 50
765111 AAATAATGGG
*
765121 GTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGAGAAAAATT-GTGTTTTGGAAATAAAATCGGA
* ** * *
765172 GTTGGAGTATCCCCGATTACAGGGAAATGGGTGTTTTAGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATT-GAGAAAAAT-TGTGTTTTGGAAATAAAATCGGA
* *
765224 GTTGGAGTATCCCCGATTGAGAAAAATTGATGTTTTGGAAATGAAACCGG-
1 GTTGGAGTATCCCCGATTGAGAAAAATTG-TGTTTTGGAAATAAAATCGGA
765274 GATTGGAGTATCCCC
1 G-TTGGAGTATCCCC
765289 AAGATGAAAA
Statistics
Matches: 100, Mismatches: 13, Indels: 8
0.83 0.11 0.07
Matches are distributed among these distances:
50 2 0.02
51 54 0.54
52 44 0.44
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.29
Consensus pattern (50 bp):
GTTGGAGTATCCCCGATTGAGAAAAATTGTGTTTTGGAAATAAAATCGGA
Found at i:767574 original size:20 final size:20
Alignment explanation
Indices: 767549--767624 Score: 127
Period size: 20 Copynumber: 3.8 Consensus size: 20
767539 AAAATGCCTG
767549 AATGTATCGATACATTGTAA
1 AATGTATCGATACATTGTAA
767569 AATGTATCGATACATTGTAA
1 AATGTATCGATACATTGTAA
*
767589 AATGTATCGATACATCG-AA
1 AATGTATCGATACATTGTAA
767608 TAATGTATCGATACATT
1 -AATGTATCGATACATT
767625 TCCTTGGCAG
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
19 2 0.04
20 51 0.96
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.34
Consensus pattern (20 bp):
AATGTATCGATACATTGTAA
Found at i:768194 original size:56 final size:56
Alignment explanation
Indices: 768134--768304 Score: 146
Period size: 56 Copynumber: 3.1 Consensus size: 56
768124 CGAAGTCCAT
* * * *
768134 ATTAGTTAGCACCTAAATTGATGCCCAAACTAGTTGGCACACAAGTCTAAA-CCCAC
1 ATTAGATAGCACATAAATCGAAGCCCAAACTAGTTGGCACACAAGTC-AAAGCCCAC
* * * * * *
768190 ATTAGATGGCACATGAATCGAAGCTCACACTAGTTGGCACATAAGTCAAAGCCCAT
1 ATTAGATAGCACATAAATCGAAGCCCAAACTAGTTGGCACACAAGTCAAAGCCCAC
* * * * *** * **
768246 ATTAGATGGCACATGAATCAAAACCCACGTTAGCTGGCACACAAGTGTAAGCCCAC
1 ATTAGATAGCACATAAATCGAAGCCCAAACTAGTTGGCACACAAGTCAAAGCCCAC
768302 ATT
1 ATT
768305 CGTTGGCACG
Statistics
Matches: 94, Mismatches: 20, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
55 3 0.03
56 91 0.97
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.22
Consensus pattern (56 bp):
ATTAGATAGCACATAAATCGAAGCCCAAACTAGTTGGCACACAAGTCAAAGCCCAC
Found at i:768218 original size:28 final size:28
Alignment explanation
Indices: 768185--768330 Score: 118
Period size: 28 Copynumber: 5.2 Consensus size: 28
768175 CAAGTCTAAA
*
768185 CCCACATTAGATGGCACATGAATCGAAG
1 CCCACATTAGATGGCACATGAATCAAAG
* * *
768213 CTCACACTAGTTGGCACAT-AAGTCAAAG
1 CCCACATTAGATGGCACATGAA-TCAAAG
* *
768241 CCCATATTAGATGGCACATGAATCAAAA
1 CCCACATTAGATGGCACATGAATCAAAG
* * * **
768269 CCCACGTTAGCTGGCACA-CAAGTGTAAG
1 CCCACATTAGATGGCACATGAA-TCAAAG
* * *
768297 CCCACATTCGTTGGCACGT-AAGTCAAAG
1 CCCACATTAGATGGCACATGAA-TCAAAG
768325 CCCACA
1 CCCACA
768331 CATGCTGGCA
Statistics
Matches: 92, Mismatches: 22, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
27 4 0.04
28 86 0.93
29 2 0.02
ACGTcount: A:0.34, C:0.27, G:0.19, T:0.19
Consensus pattern (28 bp):
CCCACATTAGATGGCACATGAATCAAAG
Found at i:768312 original size:56 final size:56
Alignment explanation
Indices: 768157--768358 Score: 187
Period size: 56 Copynumber: 3.6 Consensus size: 56
768147 TAAATTGATG
* * * * *
768157 CCCAAACTAGTTGGCACACAAGTCTAAACCCACATTAGATGGCACATGAATCGAAG
1 CCCACACTAGCTGGCACACAAGTCTAAGCCCACATTAGATGGCACATGAATCAAAA
* * * * *
768213 CTCACACTAGTTGGCACATAAGTCAAAGCCCATATTAGATGGCACATGAATCAAAA
1 CCCACACTAGCTGGCACACAAGTCTAAGCCCACATTAGATGGCACATGAATCAAAA
** * * * * *
768269 CCCACGTTAGCTGGCACACAAGTGTAAGCCCACATTCGTTGGCACGT-AAGTCAAAG
1 CCCACACTAGCTGGCACACAAGTCTAAGCCCACATTAGATGGCACATGAA-TCAAAA
* *
768325 CCCACAC-ATGCTGG--CACAAGTCAAAGCCTACATT
1 CCCACACTA-GCTGGCACACAAGTCTAAGCCCACATT
768359 CGTTGGCAAG
Statistics
Matches: 119, Mismatches: 25, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
54 17 0.14
55 3 0.03
56 99 0.83
ACGTcount: A:0.35, C:0.28, G:0.18, T:0.19
Consensus pattern (56 bp):
CCCACACTAGCTGGCACACAAGTCTAAGCCCACATTAGATGGCACATGAATCAAAA
Found at i:768339 original size:28 final size:27
Alignment explanation
Indices: 768210--768658 Score: 203
Period size: 28 Copynumber: 16.4 Consensus size: 27
768200 ACATGAATCG
* *
768210 AAGCTCACACTAGTTGGCACATAAGTCA
1 AAGCCCACACTTGTTGGCAC-TAAGTCA
* *
768238 AAGCCCATA-TTAGATGGCACATGAA-TCA
1 AAGCCCACACTT-GTTGGCAC-T-AAGTCA
* * * * **
768266 AAACCCAC-GTTAGCTGGCACACAAGTGT
1 AAGCCCACACTT-GTTGGCAC-TAAGTCA
768294 AAGCCCACA-TTCGTTGGCACGTAAGTCA
1 AAGCCCACACTT-GTTGGCAC-TAAGTCA
* *
768322 AAGCCCACACATGCTGGCAC-AAGTCA
1 AAGCCCACACTTGTTGGCACTAAGTCA
* *
768348 AAGCCTACA-TTCGTTGGCAAGTAAGTCA
1 AAGCCCACACTT-GTTGGC-ACTAAGTCA
*
768376 AAGCCCACA-TTCATTGGCAC-AAGTCA
1 AAGCCCACACTT-GTTGGCACTAAGTCA
* * * *
768402 AAACCCATACTAGTTGGCACACAAGTCA
1 AAGCCCACACTTGTTGGCAC-TAAGTCA
* * *
768430 AAGCCTACATTTGCTGGCA-TAAGTCA
1 AAGCCCACACTTGTTGGCACTAAGTCA
* * *
768456 AAGACCACATTTGTTGGCACACAAGTCTA
1 AAGCCCACACTTGTTGGCAC-TAAGTC-A
*
768485 AA-CCCACA-TTCGCTGGCACGTAAGTCA
1 AAGCCCACACTT-GTTGGCAC-TAAGTCA
* *
768512 AAGCCCACACTTGTTGGCAC-ACGTTA
1 AAGCCCACACTTGTTGGCACTAAGTCA
* * **
768538 ACGCCCACA--TGGTGGCACTCAAGTTT
1 AAGCCCACACTTGTTGGCACT-AAGTCA
* **
768564 AAGCCCACATTTACTGGCACATAAGTCA
1 AAGCCCACACTTGTTGGCAC-TAAGTCA
* * *
768592 ATGCCCACA-TTAGCTAGCATCTAAGTCCA
1 AAGCCCACACTT-GTTGGCA-CTAAGT-CA
* *
768621 AA-CCCATA-TTATTCGGCATCTAAGTCA
1 AAGCCCACACTTGTT-GGCA-CTAAGTCA
*
768648 AAGGCCACACT
1 AAGCCCACACT
768659 CGCTAGCACC
Statistics
Matches: 325, Mismatches: 67, Indels: 57
0.72 0.15 0.13
Matches are distributed among these distances:
24 8 0.02
25 1 0.00
26 85 0.26
27 18 0.06
28 199 0.61
29 14 0.04
ACGTcount: A:0.33, C:0.28, G:0.18, T:0.21
Consensus pattern (27 bp):
AAGCCCACACTTGTTGGCACTAAGTCA
Found at i:768366 original size:54 final size:54
Alignment explanation
Indices: 768285--768533 Score: 231
Period size: 54 Copynumber: 4.6 Consensus size: 54
768275 TTAGCTGGCA
** **
768285 CACAAGTGTAAGCCCACATTCGTTGGCACGTAAGTCAAAGCCCACACATGCTGG
1 CACAAGTCAAAGCCCACATTCGTTGGCACACAAGTCAAAGCCCACACATGCTGG
* *
768339 CACAAGTCAAAGCCTACATTCGTTGGCA-AGTAAGTCAAAGCCCACATTCAT--TGG
1 CACAAGTCAAAGCCCACATTCGTTGGCACA-CAAGTCAAAGCCCACA--CATGCTGG
* * * * * **
768393 CACAAGTCAAAACCCATACTAGTTGGCACACAAGTCAAAGCCTACATTTGCTGG
1 CACAAGTCAAAGCCCACATTCGTTGGCACACAAGTCAAAGCCCACACATGCTGG
* * * *
768447 CATAAGTCAAAGACCACATTTGTTGGCACACAAGTCTAAA-CCCACA-TTCGCTGG
1 CACAAGTCAAAGCCCACATTCGTTGGCACACAAGTC-AAAGCCCACACAT-GCTGG
768501 CACGTAAGTCAAAGCCCACACTT-GTTGGCACAC
1 CAC--AAGTCAAAGCCCACA-TTCGTTGGCACAC
768534 GTTAACGCCC
Statistics
Matches: 162, Mismatches: 22, Indels: 20
0.79 0.11 0.10
Matches are distributed among these distances:
52 1 0.01
53 2 0.01
54 126 0.78
55 4 0.02
56 27 0.17
57 2 0.01
ACGTcount: A:0.33, C:0.29, G:0.18, T:0.20
Consensus pattern (54 bp):
CACAAGTCAAAGCCCACATTCGTTGGCACACAAGTCAAAGCCCACACATGCTGG
Found at i:768395 original size:82 final size:77
Alignment explanation
Indices: 768294--768530 Score: 235
Period size: 82 Copynumber: 2.9 Consensus size: 77
768284 ACACAAGTGT
768294 AAGCCCACATTCGTTGGCACGTAAGTCAAAGCCCACAC-ATGCTGGCACAAGTCAAAGCCTACAT
1 AAGCCCACATTCGTTGGCAC--AAGTCAAA-CCCACACTA-GCTGGCACAAGTCAAAGCCTACAT
768358 TCGTTGGCAAGTAAGTCA
62 T-GTTGGCAA-TAAGTCA
* * *
768376 AAGCCCACATTCATTGGCACAAGTCAAAACCCATACTAGTTGGCACACAAGTCAAAGCCTACATT
1 AAGCCCACATTCGTTGGCACAAGTC-AAACCCACACTAGCTGG--CACAAGTCAAAGCCTACA-T
*
768441 TGCTGGC-ATAAGTCA
62 TGTTGGCAATAAGTCA
* * * * *
768456 AAGACCACATTTGTTGGCACACAAGTCTAAACCCACATTCGCTGGCACGTAAGTCAAAGCCCACA
1 AAGCCCACATTCGTTGG--CACAAGTC-AAACCCACACTAGCTGGCAC--AAGTCAAAGCCTACA
768521 CTTGTTGGCA
61 -TTGTTGGCA
768531 CACGTTAACG
Statistics
Matches: 130, Mismatches: 15, Indels: 19
0.79 0.09 0.12
Matches are distributed among these distances:
80 39 0.30
81 5 0.04
82 84 0.65
83 2 0.02
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.21
Consensus pattern (77 bp):
AAGCCCACATTCGTTGGCACAAGTCAAACCCACACTAGCTGGCACAAGTCAAAGCCTACATTGTT
GGCAATAAGTCA
Found at i:768447 original size:108 final size:109
Alignment explanation
Indices: 768297--768533 Score: 275
Period size: 108 Copynumber: 2.2 Consensus size: 109
768287 CAAGTGTAAG
* * **
768297 CCCACATTCGTTGGCACGTAAGTCAAAGCCCACACATGCTGGCACAAGTCAAAG-CCTACATTCG
1 CCCACACTAGTTGGCACACAAGTCAAAGCCCACACATGCTGGCACAAGTCAAAGACC-ACATTCG
* *
768361 TTGGCA-AGTAAGTC-AAAGCCCACATTCATTGGCAC-AAGTCAAAA
65 TTGGCACA-CAAGTCTAAA-CCCACATTCACTGGCACGAAGTCAAAA
* * ** * *
768405 CCCATACTAGTTGGCACACAAGTCAAAGCCTACATTTGCTGGCATAAGTCAAAGACCACATTTGT
1 CCCACACTAGTTGGCACACAAGTCAAAGCCCACACATGCTGGCACAAGTCAAAGACCACATTCGT
* *
768470 TGGCACACAAGTCTAAACCCACATTCGCTGGCACGTAAGTCAAAG
66 TGGCACACAAGTCTAAACCCACATTCACTGGCACG-AAGTCAAAA
*
768515 CCCACACTTGTTGGCACAC
1 CCCACACTAGTTGGCACAC
768534 GTTAACGCCC
Statistics
Matches: 108, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
108 77 0.71
109 6 0.06
110 25 0.23
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.21
Consensus pattern (109 bp):
CCCACACTAGTTGGCACACAAGTCAAAGCCCACACATGCTGGCACAAGTCAAAGACCACATTCGT
TGGCACACAAGTCTAAACCCACATTCACTGGCACGAAGTCAAAA
Found at i:768545 original size:54 final size:53
Alignment explanation
Indices: 768334--768626 Score: 172
Period size: 54 Copynumber: 5.4 Consensus size: 53
768324 GCCCACACAT
* * *
768334 GCTGGCAC-AAGTCAAAGCCTACA-TTCGTTGGCA-AGTAAGTCAAAGCCCACATTC
1 GCTGGCACTAAGTCAAAGCCCACACTT-GTTGGCACA--CAGT-TAAGCCCACATTC
** * * * * * *
768388 ATTGGCAC-AAGTCAAAACCCATACTAGTTGGCACACAAGTCAAAGCCTACATTT
1 GCTGGCACTAAGTCAAAGCCCACACTTGTTGGCACAC-AGT-TAAGCCCACATTC
* * *
768442 GCTGGCA-TAAGTCAAAGACCACATTTGTTGGCACACAAGTCTAAACCCACATTC
1 GCTGGCACTAAGTCAAAGCCCACACTTGTTGGCACAC-AGT-TAAGCCCACATTC
768496 GCTGGCACGTAAGTCAAAGCCCACACTTGTTGGCACAC-GTTAACGCCCACA-T-
1 GCTGGCAC-TAAGTCAAAGCCCACACTTGTTGGCACACAGTTAA-GCCCACATTC
* ** * ** * * *
768548 GGTGGCACTCAAGTTTAAGCCCACATTTACTGGCACATAAGTCAATGCCCACATTA
1 GCTGGCACT-AAGTCAAAGCCCACACTTGTTGGCACA-CAGTTAA-GCCCACATTC
*
768604 GCTAGCATCTAAGTCCAAA-CCCA
1 GCTGGCA-CTAAGT-CAAAGCCCA
768627 TATTATTCGG
Statistics
Matches: 189, Mismatches: 36, Indels: 26
0.75 0.14 0.10
Matches are distributed among these distances:
51 1 0.01
52 29 0.15
53 4 0.02
54 108 0.57
55 3 0.02
56 40 0.21
57 4 0.02
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.22
Consensus pattern (53 bp):
GCTGGCACTAAGTCAAAGCCCACACTTGTTGGCACACAGTTAAGCCCACATTC
Found at i:768589 original size:80 final size:81
Alignment explanation
Indices: 768416--768600 Score: 201
Period size: 80 Copynumber: 2.3 Consensus size: 81
768406 CCATACTAGT
* * * * *
768416 TGGCACACAAGTCAAAGCCTACATTTGCTGGCATAAGTCAAAGACCACATTTGTTGGCACACAAG
1 TGGCACATAAGTCAAAGCCCACACTTGCTGGCACAAGTCAAAGACCACA-TTGGTGGCACACAAG
*
768481 TCTAAACCCACATTCGC
65 TCTAAACCCACATTCAC
* * * * * * *
768498 TGGCACGTAAGTCAAAGCCCACACTTGTTGGCACACGTTAACGCCCACA-TGGTGGCACTCAAGT
1 TGGCACATAAGTCAAAGCCCACACTTGCTGGCACAAGTCAAAGACCACATTGGTGGCACACAAGT
* * *
768562 TTAAGCCCACATTTAC
66 CTAAACCCACATTCAC
*
768578 TGGCACATAAGTCAATGCCCACA
1 TGGCACATAAGTCAAAGCCCACA
768601 TTAGCTAGCA
Statistics
Matches: 85, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
80 46 0.54
82 39 0.46
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (81 bp):
TGGCACATAAGTCAAAGCCCACACTTGCTGGCACAAGTCAAAGACCACATTGGTGGCACACAAGT
CTAAACCCACATTCAC
Found at i:768937 original size:14 final size:14
Alignment explanation
Indices: 768908--768949 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
768898 TTTTTTGGGT
768908 AATTTATT-ATTCAA
1 AATTTATTAATT-AA
768922 AATTTATTAATTAA
1 AATTTATTAATTAA
* *
768936 AACTAATTAATTAA
1 AATTTATTAATTAA
768950 TTAATTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 22 0.88
15 3 0.12
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (14 bp):
AATTTATTAATTAA
Found at i:769562 original size:7 final size:7
Alignment explanation
Indices: 769550--769594 Score: 51
Period size: 7 Copynumber: 6.6 Consensus size: 7
769540 GAAGAAAAGG
769550 AGAAGAA
1 AGAAGAA
769557 AGAAGAA
1 AGAAGAA
769564 AGAACG-A
1 AGAA-GAA
769571 AGAAGTAA
1 AGAAG-AA
769579 AGAAGAA
1 AGAAGAA
769586 A-AA-AA
1 AGAAGAA
769591 AGAA
1 AGAA
769595 AAAAAAGAGT
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
5 3 0.09
6 5 0.15
7 19 0.56
8 7 0.21
ACGTcount: A:0.71, C:0.02, G:0.24, T:0.02
Consensus pattern (7 bp):
AGAAGAA
Found at i:769563 original size:18 final size:20
Alignment explanation
Indices: 769540--769587 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
769530 AGCAAATCAG
*
769540 GAAGAAAA-GGAGAAG-AAA
1 GAAGAAAACGAAGAAGTAAA
769558 GAAGAAAGAACGAAGAAGTAAA
1 GAAG-AA-AACGAAGAAGTAAA
769580 GAAGAAAA
1 GAAGAAAA
769588 AAAAGAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
18 4 0.16
19 2 0.08
20 4 0.16
21 8 0.32
22 7 0.28
ACGTcount: A:0.67, C:0.02, G:0.29, T:0.02
Consensus pattern (20 bp):
GAAGAAAACGAAGAAGTAAA
Found at i:770375 original size:100 final size:100
Alignment explanation
Indices: 770205--770385 Score: 238
Period size: 100 Copynumber: 1.8 Consensus size: 100
770195 AGGGATTGAT
* * * * *
770205 CCCGAAATAGATCATCCTCTAGAGTCATAAAGTGACATACGAACGCTCTTTGTATCAGATAATTT
1 CCCGAAATAGATCATCATCTAGAGTCATAAAGTGACATACAAACGCCCTTTATATCAGATAATTC
* *
770270 TTTTTTTGCATTAATTTGGGCACCAAAAGATTGGC
66 ATTTTTTACATTAATTTGGGCACCAAAAGATTGGC
* * * **
770305 CCCGAAATA-AGTCATCATCTAGAGTCATAAAGTGGCGTACAAATGCCCTTTATATGGGATAATT
1 CCCGAAATAGA-TCATCATCTAGAGTCATAAAGTGACATACAAACGCCCTTTATATCAGATAATT
770369 CATTTTTTACATTAATT
65 CATTTTTTACATTAATT
770386 ACATAAATTC
Statistics
Matches: 68, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
99 1 0.01
100 67 0.99
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (100 bp):
CCCGAAATAGATCATCATCTAGAGTCATAAAGTGACATACAAACGCCCTTTATATCAGATAATTC
ATTTTTTACATTAATTTGGGCACCAAAAGATTGGC
Found at i:770533 original size:107 final size:109
Alignment explanation
Indices: 770289--770538 Score: 317
Period size: 109 Copynumber: 2.3 Consensus size: 109
770279 ATTAATTTGG
* * * ** * *
770289 GCACCAAAAGATTGGCCCCGAAATAAGTCATCATCTAGAGTCATAAAGTGGCGTACAAATGCCCT
1 GCACCAAAGGATTGGCCCTGAAATAGGTCATTGTCTAGAGTCATAAAGTGACGTACAAAGGCCCT
** **
770354 TTATATGGGATAATTCATTTTTTACATTAATTACATAAATTCGG
66 TTATATAAGATAATTCATTTTTTACATTAATTACATAAATTCAA
** * * *
770398 GTGCCAAAGGATTAGCCCTGAAATAGGTCATTGTCTTGAGTCATAAAGTGACGTACGAACGGCCC
1 GCACCAAAGGATTGGCCCTGAAATAGGTCATTGTCTAGAGTCATAAAGTGACGTAC-AAAGGCCC
*
770463 -TTATATAAGATAATTTA-TTTTTA-ATTAATTACATAAATTCAA
65 TTTATATAAGATAATTCATTTTTTACATTAATTACATAAATTCAA
770505 GCACCAAAGGATTGGCCCTGAAATAGGTCATTGT
1 GCACCAAAGGATTGGCCCTGAAATAGGTCATTGT
770539 ACGAACACTC
Statistics
Matches: 120, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
107 48 0.40
108 6 0.05
109 60 0.50
110 6 0.05
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.30
Consensus pattern (109 bp):
GCACCAAAGGATTGGCCCTGAAATAGGTCATTGTCTAGAGTCATAAAGTGACGTACAAAGGCCCT
TTATATAAGATAATTCATTTTTTACATTAATTACATAAATTCAA
Found at i:770610 original size:89 final size:87
Alignment explanation
Indices: 770463--770624 Score: 207
Period size: 89 Copynumber: 1.8 Consensus size: 87
770453 CGAACGGCCC
* **
770463 TTATATAAGATAATTTATTTTTAATTAATTACATAAATTCAAGCACCAAAGGATTGGCCCTGAAA
1 TTATATAAGATAATTCATTTTTAATTAATTACATAAATTCAAGCACCAAAGGATTGGCCCCAAAA
770528 TAGGTCATTGTACGAACACTCT
66 TAGGTCATTGTACGAACACTCT
* ** ** * * *
770550 TTATATATGATAATTCATTTTTTACATTAATTATGTAAATTCGGGTACTAAATGATTGGCCCCAA
1 TTATATAAGATAATTCA-TTTTTA-ATTAATTACATAAATTCAAGCACCAAAGGATTGGCCCCAA
770615 AATAGGTCAT
64 AATAGGTCAT
770625 CGTCTAAAGT
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
87 15 0.24
88 6 0.10
89 41 0.66
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.37
Consensus pattern (87 bp):
TTATATAAGATAATTCATTTTTAATTAATTACATAAATTCAAGCACCAAAGGATTGGCCCCAAAA
TAGGTCATTGTACGAACACTCT
Found at i:779245 original size:9 final size:9
Alignment explanation
Indices: 779226--779264 Score: 51
Period size: 10 Copynumber: 4.1 Consensus size: 9
779216 TAAGATTTTT
779226 AAAAAACAAC
1 AAAAAA-AAC
779236 AAAAAAAAC
1 AAAAAAAAC
*
779245 AAAAACAAGC
1 AAAAA-AAAC
779255 AAAAAAAAC
1 AAAAAAAAC
779264 A
1 A
779265 CAGATGAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
9 12 0.46
10 14 0.54
ACGTcount: A:0.82, C:0.15, G:0.03, T:0.00
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:779250 original size:18 final size:19
Alignment explanation
Indices: 779227--779264 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
779217 AAGATTTTTA
779227 AAAAACAA-CAAAAAAAAC
1 AAAAACAAGCAAAAAAAAC
779245 AAAAACAAGCAAAAAAAAC
1 AAAAACAAGCAAAAAAAAC
779264 A
1 A
779265 CAGATGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.82, C:0.16, G:0.03, T:0.00
Consensus pattern (19 bp):
AAAAACAAGCAAAAAAAAC
Found at i:780795 original size:54 final size:54
Alignment explanation
Indices: 780715--781006 Score: 238
Period size: 54 Copynumber: 5.4 Consensus size: 54
780705 CTAGCTGCCA
** * *
780715 CACAAGTGTAAGCCCAGATTCGTTGGCACGTAAGTCAAAGCCCACACTTGCTGG
1 CACAAGTCAAAGCCCACATTCATTGGCACGTAAGTCAAAGCCCACACTTGCTGG
* * *
780769 CACAAGTCAAAGCCCACATTTATTGGCACGTAAGTTAAAGCCCACA-TTCGTTGG
1 CACAAGTCAAAGCCCACATTCATTGGCACGTAAGTCAAAGCCCACACTT-GCTGG
* * * * * *
780823 CACGTAAGTTAAAGCCCACATTCGTTGGCAC--AAGTCAAAACCCATACTAGTTGG
1 CAC--AAGTCAAAGCCCACATTCATTGGCACGTAAGTCAAAGCCCACACTTGCTGG
* * ** * *
780877 CACACAAGTCAAAGCCTATATTCGCTGGCA--TAAGTCAAAGCCTACA-TT-CATTAG
1 --CACAAGTCAAAGCCCACATTCATTGGCACGTAAGTCAAAGCCCACACTTGC--TGG
* * * *
780931 CACAGAAGTCTAAGCCCATATTCATAGGCACGTAAGTCAAAGCCCACACTTGCTTG
1 CAC--AAGTCAAAGCCCACATTCATTGGCACGTAAGTCAAAGCCCACACTTGCTGG
*
780987 CACAGGTCAAAGCCCACATT
1 CACAAGTCAAAGCCCACATT
781007 TGGTGGCACA
Statistics
Matches: 189, Mismatches: 34, Indels: 30
0.75 0.13 0.12
Matches are distributed among these distances:
52 3 0.02
53 3 0.02
54 133 0.70
55 1 0.01
56 46 0.24
57 2 0.01
58 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.22
Consensus pattern (54 bp):
CACAAGTCAAAGCCCACATTCATTGGCACGTAAGTCAAAGCCCACACTTGCTGG
Found at i:780820 original size:82 final size:80
Alignment explanation
Indices: 780724--781086 Score: 283
Period size: 82 Copynumber: 4.4 Consensus size: 80
780714 ACACAAGTGT
*
780724 AAGCCCAGATTCGTTGGCACGTAAGTCAAAGCCCACACTTGCTGGCACAAGTCAAAGCCCACATT
1 AAGCCCACATTCGTTGGCAC-TAAGTCAAAGCCCACA-TTGCTGGCACAAGTCAAAGCCCACATT
* *
780789 TATTGGCACGTAAGTTA
64 TATTGGCACATAAGTCA
* * * * *
780806 AAGCCCACATTCGTTGGCACGTAAGTTAAAGCCCACATTCGTTGGCACAAGTCAAAACCCATA-C
1 AAGCCCACATTCGTTGGCAC-TAAGTCAAAGCCCACATT-GCTGGCACAAGTCAAAGCCCACATT
*
780870 TAGTTGGCACACAAGTCA
64 TA-TTGGCACATAAGTCA
* * * * * * *
780888 AAGCCTATATTCGCTGGCA-TAAGTCAAAGCCTACATT-CATTAGCACAGAAGTCTAAGCCCATA
1 AAGCCCACATTCGTTGGCACTAAGTCAAAGCCCACATTGC--TGGCAC--AAGTCAAAGCCCACA
* * *
780951 TTCATAGGCACGTAAGTCA
62 TTTATTGGCACATAAGTCA
* * **
780970 AAGCCCACACTT-GCTT-GCAC-AGGTCAAAGCCCACATTTGGTGGCACACAAGTTTAAGCCCAC
1 AAGCCCACA-TTCG-TTGGCACTAAGTCAAAGCCCACA-TTGCTGG--CACAAGTCAAAGCCCAC
781032 ATTCT-TTGGCACATAAGTCA
61 ATT-TATTGGCACATAAGTCA
* * *
781052 ATGCCCACATTAGCTGGCATCTAAGTCCAAA-CCCA
1 AAGCCCACATTCGTTGGCA-CTAAGT-CAAAGCCCA
781087 TATTATTTGG
Statistics
Matches: 223, Mismatches: 38, Indels: 38
0.75 0.13 0.13
Matches are distributed among these distances:
80 21 0.09
81 7 0.03
82 174 0.78
83 7 0.03
84 10 0.04
85 4 0.02
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22
Consensus pattern (80 bp):
AAGCCCACATTCGTTGGCACTAAGTCAAAGCCCACATTGCTGGCACAAGTCAAAGCCCACATTTA
TTGGCACATAAGTCA
Found at i:781069 original size:28 final size:28
Alignment explanation
Indices: 780528--781127 Score: 322
Period size: 28 Copynumber: 21.7 Consensus size: 28
780518 TATCTAAAGG
* *
780528 AAGCCCACACTAGCTGGCACATGAA-TCA
1 AAGCCCACATTAGTTGGCACAT-AAGTCA
* * * * * * *
780556 AAGTCCATATTAGTAGGCCCTTAAATCG
1 AAGCCCACATTAGTTGGCACATAAGTCA
* * * * * *
780584 ACGTCCACACTAGTTGGGACACAAGTCT
1 AAGCCCACATTAGTTGGCACATAAGTCA
* * *
780612 AAGCCTACATTAGATGGCACATGAA-TCG
1 AAGCCCACATTAGTTGGCACAT-AAGTCA
* * *
780640 AAGCCCACACTAGTTAGCACATAAGTCT
1 AAGCCCACATTAGTTGGCACATAAGTCA
* *
780668 AAGCCCACATTAGATGGCACATGAA-TCG
1 AAGCCCACATTAGTTGGCACAT-AAGTCA
** * * * **
780696 AAGCCCACGCTAGCTGCCACACAAGTGT
1 AAGCCCACATTAGTTGGCACATAAGTCA
* * *
780724 AAGCCCAGATTCGTTGGCACGTAAGTCA
1 AAGCCCACATTAGTTGGCACATAAGTCA
*
780752 AAGCCCACACTT-GCTGGCAC--AAGTCA
1 AAGCCCACA-TTAGTTGGCACATAAGTCA
* *
780778 AAGCCCACATTTA-TTGGCACGTAAGTTA
1 AAGCCCACA-TTAGTTGGCACATAAGTCA
* * *
780806 AAGCCCACATTCGTTGGCACGTAAGTTA
1 AAGCCCACATTAGTTGGCACATAAGTCA
*
780834 AAGCCCACATTCGTTGGCAC--AAGTCA
1 AAGCCCACATTAGTTGGCACATAAGTCA
* * * *
780860 AAACCCATACTAGTTGGCACACAAGTCA
1 AAGCCCACATTAGTTGGCACATAAGTCA
* * * *
780888 AAGCCTATATTCGCTGG--CATAAGTCA
1 AAGCCCACATTAGTTGGCACATAAGTCA
* * * *
780914 AAGCCTACATTCA-TTAGCACAGAAGTCT
1 AAGCCCACATT-AGTTGGCACATAAGTCA
* * *
780942 AAGCCCATATTCA-TAGGCACGTAAGTCA
1 AAGCCCACATT-AGTTGGCACATAAGTCA
*
780970 AAGCCCACACTT-GCTT-GCAC--AGGTCA
1 AAGCCCACA-TTAG-TTGGCACATAAGTCA
* * * **
780996 AAGCCCACATTTGGTGGCACACAAGTTT
1 AAGCCCACATTAGTTGGCACATAAGTCA
**
781024 AAGCCCACATTCTTTGGCACATAAGTCA
1 AAGCCCACATTAGTTGGCACATAAGTCA
* *
781052 ATGCCCACATTAGCTGGCATC-TAAGTCCA
1 AAGCCCACATTAGTTGGCA-CATAAGT-CA
* *
781081 AA-CCCATATTATTTGGCATC-TAAGTCA
1 AAGCCCACATTAGTTGGCA-CATAAGTCA
* * *
781108 AAACCCACACTAGCTGGCAC
1 AAGCCCACATTAGTTGGCAC
781128 CTTGTAGGGA
Statistics
Matches: 440, Mismatches: 107, Indels: 51
0.74 0.18 0.09
Matches are distributed among these distances:
25 3 0.01
26 83 0.19
27 13 0.03
28 328 0.75
29 13 0.03
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22
Consensus pattern (28 bp):
AAGCCCACATTAGTTGGCACATAAGTCA
Found at i:781421 original size:18 final size:18
Alignment explanation
Indices: 781385--781421 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
781375 TATTCAAAAT
* *
781385 TTAATTAATTAATACTAA
1 TTAATTAATTAAAAATAA
781403 TTAATTAATTAAAAATAA
1 TTAATTAATTAAAAATAA
781421 T
1 T
781422 AAAAAAAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (18 bp):
TTAATTAATTAAAAATAA
Found at i:782043 original size:14 final size:15
Alignment explanation
Indices: 782024--782059 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
782014 CAAACTAGGG
782024 AAGAAAAAAAG-AAA
1 AAGAAAAAAAGAAAA
*
782038 AAGAAAGAAAGAAAA
1 AAGAAAAAAAGAAAA
782053 AAGAAAA
1 AAGAAAA
782060 GGAAAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
14 10 0.53
15 9 0.47
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (15 bp):
AAGAAAAAAAGAAAA
Found at i:782931 original size:109 final size:109
Alignment explanation
Indices: 782656--783184 Score: 583
Period size: 109 Copynumber: 4.9 Consensus size: 109
782646 AATTTAATTG
* * ** * ** *
782656 CATTAACTACGTAGTATTCGAGCACCAAGGGATTGGCCCCAAAATAGATTATCATCTAGAGTCAT
1 CATTAATTACGTA-AATTCGAGCACCAAAAGATTGGCCCCAAAATAGGTTATTGTCTAAAGTCAT
* * * *
782721 AAAGTGGCATACGAATGCTCTTTATATAGGATAATTCA-TTTTT-
65 AAAGTGACGTACGAACGCCCTTTATATAGGATAATTCATTTTTTA
* * * *
782764 --TT--TTACATTAATTCGGGCACCAAAAGATTGGCCCCAAAATAGGTTATCGTCTAAAGTCATA
1 CATTAATTACGTAAATTCGAGCACCAAAAGATTGGCCCCAAAATAGGTTATTGTCTAAAGTCATA
782825 AAGTGACGTACGAACGCCCTTTATATAGGATAATTCATTTTTTA
66 AAGTGACGTACGAACGCCCTTTATATAGGATAATTCATTTTTTA
* * * *
782869 CATTAATTATGTAAATTCGGGCACCAAAAGATTGGCCCCAAAATAGATTATTGTCTAGAGTCATA
1 CATTAATTACGTAAATTCGAGCACCAAAAGATTGGCCCCAAAATAGGTTATTGTCTAAAGTCATA
* * * *
782934 AAATGACGTACGCACGCCCTTTATATAAGATAATACA-TTTTTA
66 AAGTGACGTACGAACGCCCTTTATATAGGATAATTCATTTTTTA
* * * ** * *
782977 AATTAATTACGTAAATTCAAGCACCAAAATATTGATCCCGAAATAGGTCT-TTGTTTAAAGTCAT
1 CATTAATTACGTAAATTCGAGCACCAAAAGATTGGCCCCAAAATAGGT-TATTGTCTAAAGTCAT
* * *
783041 AAAGTGACGTAC-AAGCGCTCTATATATAGAATAATTCATTTTTTA
65 AAAGTGACGTACGAA-CGCCCTTTATATAGGATAATTCATTTTTTA
* ** * *
783086 CATTAATTACATAAATTCGAGCACCAAAAGATTGGCTTCGAAATAGGTCATTGTCTAAAGTCATA
1 CATTAATTACGTAAATTCGAGCACCAAAAGATTGGCCCCAAAATAGGTTATTGTCTAAAGTCATA
* *
783151 AAGT-AGCATACAAACGCCCTTTATATAGGATAAT
66 AAGTGA-CGTACGAACGCCCTTTATATAGGATAAT
783185 ACTCGAGCAT
Statistics
Matches: 353, Mismatches: 56, Indels: 23
0.82 0.13 0.05
Matches are distributed among these distances:
103 78 0.22
104 9 0.03
106 2 0.01
107 3 0.01
108 87 0.25
109 172 0.49
110 2 0.01
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.31
Consensus pattern (109 bp):
CATTAATTACGTAAATTCGAGCACCAAAAGATTGGCCCCAAAATAGGTTATTGTCTAAAGTCATA
AAGTGACGTACGAACGCCCTTTATATAGGATAATTCATTTTTTA
Found at i:783084 original size:217 final size:212
Alignment explanation
Indices: 782671--783186 Score: 624
Period size: 217 Copynumber: 2.4 Consensus size: 212
782661 ACTACGTAGT
** ** *
782671 ATTCGAGCACCAAGGGATTGGCCCCAAAATAGATTATCATCTAGAGTCATAAAGTGGCATACGAA
1 ATTCGAGCACCAAAAGATTGGCCCCAAAATAGATTATTGTCTAGAGTCATAAAGTGACATACGAA
* * * * ** *
782736 TGCTCTTTATATAGGATAATTCATTTTTTTTTACATTAATTCGGGCACCAAAAGATTGGCCCCAA
66 CGCCCTTTATATAGGATAATACATTTTTTTTTACATAAATTCAAGCACCAAAAGATTGACCCCAA
* *
782801 AATAGGTTATCGTCTAAAGTCATAAAGTGACGTACGAACGCCCTTTATATAGGATAATTCATTTT
131 AATAGGTTATCGTCTAAAGTCATAAAGTGACGTACGAACGCCCTATATATAGAATAATTCATTTT
**
782866 TTACATTAATTATGTAA
196 TTACATTAATTACATAA
* * * *
782883 ATTCGGGCACCAAAAGATTGGCCCCAAAATAGATTATTGTCTAGAGTCATAAAATGACGTACGCA
1 ATTCGAGCACCAAAAGATTGGCCCCAAAATAGATTATTGTCTAGAGTCATAAAGTGACATACGAA
* * * *
782948 CGCCCTTTATATAAGATAATACATTTTTAAATTAATTACGTAAATTCAAGCACCAAAATATTGAT
66 CGCCCTTTATATAGGATAATACATTTTT---TT--TTACATAAATTCAAGCACCAAAAGATTGAC
* * * *
783013 CCCGAAATAGGTCT-TTGTTTAAAGTCATAAAGTGACGTAC-AAGCGCTCTATATATAGAATAAT
126 CCCAAAATAGGT-TATCGTCTAAAGTCATAAAGTGACGTACGAA-CGCCCTATATATAGAATAAT
783076 TCATTTTTTACATTAATTACATAA
189 TCATTTTTTACATTAATTACATAA
** * * * * *
783100 ATTCGAGCACCAAAAGATTGGCTTCGAAATAGGTCATTGTCTAAAGTCATAAAGT-AGCATACAA
1 ATTCGAGCACCAAAAGATTGGCCCCAAAATAGATTATTGTCTAGAGTCATAAAGTGA-CATACGA
783164 ACGCCCTTTATATAGGATAATAC
65 ACGCCCTTTATATAGGATAATAC
783187 TCGAGCATCA
Statistics
Matches: 256, Mismatches: 40, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
212 80 0.31
215 2 0.01
216 3 0.01
217 170 0.66
218 1 0.00
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.31
Consensus pattern (212 bp):
ATTCGAGCACCAAAAGATTGGCCCCAAAATAGATTATTGTCTAGAGTCATAAAGTGACATACGAA
CGCCCTTTATATAGGATAATACATTTTTTTTTACATAAATTCAAGCACCAAAAGATTGACCCCAA
AATAGGTTATCGTCTAAAGTCATAAAGTGACGTACGAACGCCCTATATATAGAATAATTCATTTT
TTACATTAATTACATAA
Found at i:783448 original size:3 final size:3
Alignment explanation
Indices: 783435--783487 Score: 90
Period size: 3 Copynumber: 18.0 Consensus size: 3
783425 ATCCACCCTT
*
783435 ATA AAA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
783483 A-A ATA
1 ATA ATA
783488 CTTTTTTTAA
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
2 2 0.04
3 45 0.96
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:783880 original size:3 final size:3
Alignment explanation
Indices: 783872--783913 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
783862 TCATTTTTTA
783872 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
783914 TCTTACGATA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:784745 original size:13 final size:13
Alignment explanation
Indices: 784727--784752 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
784717 CAATTTTTGG
784727 TGTATCGATACAT
1 TGTATCGATACAT
784740 TGTATCGATACAT
1 TGTATCGATACAT
784753 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:784764 original size:32 final size:33
Alignment explanation
Indices: 784707--784770 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
784697 TACAAGCCAA
**
784707 TGTATCGATACAATTTTTGGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
784740 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
784771 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:784777 original size:19 final size:18
Alignment explanation
Indices: 784707--784777 Score: 62
Period size: 19 Copynumber: 4.0 Consensus size: 18
784697 TACAAGCCAA
784707 TGTATCGATACAATTTTTGG
1 TGTATCGATACAA--TTTGG
784727 TGTATCGATAC-A--T--
1 TGTATCGATACAATTTGG
*
784740 TGTATCGATACATACTTGG
1 TGTATCGATACA-ATTTGG
784759 TGTATCGATACAAGTTTGG
1 TGTATCGATACAA-TTTGG
784778 CTACTGCCAA
Statistics
Matches: 43, Mismatches: 1, Indels: 15
0.73 0.02 0.25
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 1 0.02
18 1 0.02
19 17 0.40
20 11 0.26
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.39
Consensus pattern (18 bp):
TGTATCGATACAATTTGG
Found at i:787328 original size:13 final size:13
Alignment explanation
Indices: 787310--787349 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
787300 AATAATCACC
*
787310 ATGTATCGATACA
1 ATGTATTGATACA
787323 ATGTATTGATACA
1 ATGTATTGATACA
787336 ATGTATTGATACA
1 ATGTATTGATACA
787349 A
1 A
787350 AGAAAAATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.35
Consensus pattern (13 bp):
ATGTATTGATACA
Found at i:787405 original size:45 final size:45
Alignment explanation
Indices: 787309--787415 Score: 135
Period size: 45 Copynumber: 2.4 Consensus size: 45
787299 AAATAATCAC
* * *
787309 CATGTATCGATACAATGTATTGATACAATGTATTGATACAAAGAAA
1 CATGTATCGATACATTGAATT-ATACAATGTATCGATACAAAGAAA
* * *
787355 AATGTATCGATACATTGAATT-TCCAGATGTATCGATACACAGAAA
1 CATGTATCGATACATTGAATTATACA-ATGTATCGATACAAAGAAA
787400 CATGTATCGATACATT
1 CATGTATCGATACATT
787416 TTGGATATTT
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
44 3 0.06
45 32 0.60
46 18 0.34
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.31
Consensus pattern (45 bp):
CATGTATCGATACATTGAATTATACAATGTATCGATACAAAGAAA
Found at i:789447 original size:15 final size:15
Alignment explanation
Indices: 789427--789457 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
789417 ATTTCGTATG
*
789427 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
789442 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
789457 G
1 G
789458 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:791721 original size:34 final size:35
Alignment explanation
Indices: 791683--791749 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
791673 CCTTACAACA
791683 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
791717 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
791750 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:792225 original size:13 final size:13
Alignment explanation
Indices: 792207--792232 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
792197 CAATTTTTTG
792207 TGTATCGATACAT
1 TGTATCGATACAT
792220 TGTATCGATACAT
1 TGTATCGATACAT
792233 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:792247 original size:32 final size:33
Alignment explanation
Indices: 792187--792250 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
792177 TACAAGCCAA
** *
792187 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
792220 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
792251 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:794735 original size:13 final size:13
Alignment explanation
Indices: 794717--794741 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
794707 CAATTTTTGG
794717 TGTATCGATACAT
1 TGTATCGATACAT
794730 TGTATCGATACA
1 TGTATCGATACA
794742 AGTTTGGCTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:796804 original size:5 final size:5
Alignment explanation
Indices: 796796--796823 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
796786 AATATTAATA
796796 TTATT TTATT TTATT TTATT TTATT TTA
1 TTATT TTATT TTATT TTATT TTATT TTA
796824 AAATCAATAC
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:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTATT
Found at i:800453 original size:20 final size:20
Alignment explanation
Indices: 800430--800488 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 20
800420 CAGAAATATC
800430 GATACAAGTTGCAATGTATT
1 GATACAAGTTGCAATGTATT
800450 GATAC-A-TT--AA---ATT
1 GATACAAGTTGCAATGTATT
*
800463 GATACAAGTTGCAATGTATC
1 GATACAAGTTGCAATGTATT
800483 GATACA
1 GATACA
800489 CTATGAGAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 14
0.67 0.02 0.30
Matches are distributed among these distances:
13 8 0.26
14 1 0.03
15 2 0.06
16 2 0.06
17 2 0.06
18 2 0.06
19 1 0.03
20 13 0.42
ACGTcount: A:0.39, C:0.12, G:0.17, T:0.32
Consensus pattern (20 bp):
GATACAAGTTGCAATGTATT
Found at i:800563 original size:22 final size:22
Alignment explanation
Indices: 800535--800592 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
800525 CTACCCTTCA
800535 AATGTATCGATACATA-TATAGG
1 AATGTATCGATACATATTATA-G
* *
800557 AATGTATCAATACA-ATTTTAG
1 AATGTATCGATACATATTATAG
*
800578 AATGTATCGAGACAT
1 AATGTATCGATACAT
800593 CCATAATTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
21 14 0.47
22 16 0.53
ACGTcount: A:0.41, C:0.10, G:0.16, T:0.33
Consensus pattern (22 bp):
AATGTATCGATACATATTATAG
Found at i:803343 original size:1 final size:1
Alignment explanation
Indices: 803337--803368 Score: 64
Period size: 1 Copynumber: 32.0 Consensus size: 1
803327 GCATGCAAGG
803337 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
803369 CTTCTTCCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:803416 original size:8 final size:8
Alignment explanation
Indices: 803403--803488 Score: 50
Period size: 8 Copynumber: 10.0 Consensus size: 8
803393 TTTAATATAC
803403 ATTTTATT
1 ATTTTATT
803411 ATTTTACAATT
1 ATTTT---ATT
803422 ATTTTATT
1 ATTTTATT
*
803430 ATTTTACAT
1 ATTTTA-TT
803439 ATTTT-TAT
1 ATTTTAT-T
*
803447 ATTTTTTT
1 ATTTTATT
*
803455 ATATTAATT
1 AT-TTTATT
803464 ATTATTATT
1 ATT-TTATT
*
803473 AATTTA-T
1 ATTTTATT
803480 ATTTATATT
1 ATTT-TATT
803489 TATATTTAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 19
0.70 0.08 0.22
Matches are distributed among these distances:
7 4 0.07
8 29 0.48
9 20 0.33
11 8 0.13
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.66
Consensus pattern (8 bp):
ATTTTATT
Found at i:803427 original size:19 final size:20
Alignment explanation
Indices: 803403--803495 Score: 77
Period size: 19 Copynumber: 4.6 Consensus size: 20
803393 TTTAATATAC
803403 ATTTTATTATTTTACA-ATT
1 ATTTTATTATTTTACATATT
803422 ATTTTATTATTTTACATATT
1 ATTTTATTATTTTACATATT
* *
803442 -TTTATATTTTTTTATATTAATT
1 ATTT-TATTATTTTACA-T-ATT
* *
803464 ATTATTATTAATTTATAT-TT
1 ATT-TTATTATTTTACATATT
803484 ATATTTA-TATTT
1 AT-TTTATTATTT
803496 AATAAAAATA
Statistics
Matches: 62, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
19 23 0.37
20 20 0.32
21 2 0.03
22 4 0.06
23 12 0.19
24 1 0.02
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (20 bp):
ATTTTATTATTTTACATATT
Found at i:803466 original size:25 final size:25
Alignment explanation
Indices: 803421--803471 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
803411 ATTTTACAAT
* *
803421 TATTTTATTATTTTACATATTTTTA
1 TATTTTATTATATTACATATTATTA
*
803446 TATTTTTTTATATTA-ATTATTATTA
1 TATTTTATTATATTACA-TATTATTA
803471 T
1 T
803472 TAATTTATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 1 0.05
25 21 0.95
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (25 bp):
TATTTTATTATATTACATATTATTA
Found at i:803497 original size:23 final size:22
Alignment explanation
Indices: 803441--803498 Score: 57
Period size: 23 Copynumber: 2.6 Consensus size: 22
803431 TTTTACATAT
*
803441 TTTTATATTT-TTTTATATTAA
1 TTTTATATTTAATTTATATTAA
*
803462 TTATTAT-TATTAATTTATATTTA
1 TT-TTATAT-TTAATTTATATTAA
803485 TATTTATATTTAAT
1 T-TTTATATTTAAT
803499 AAAAATACTA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
21 3 0.10
22 6 0.20
23 19 0.63
24 2 0.07
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (22 bp):
TTTTATATTTAATTTATATTAA
Found at i:804996 original size:26 final size:26
Alignment explanation
Indices: 804956--805009 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
804946 TTAACAGGTT
*
804956 AGATCCAGTATGGCAAGCAAAGAAGC
1 AGATCCAGTACGGCAAGCAAAGAAGC
*
804982 AGATCCAGTACGGCAAGCAAAGAGGC
1 AGATCCAGTACGGCAAGCAAAGAAGC
805008 AG
1 AG
805010 CGGCAATGAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.41, C:0.20, G:0.30, T:0.09
Consensus pattern (26 bp):
AGATCCAGTACGGCAAGCAAAGAAGC
Found at i:808343 original size:27 final size:27
Alignment explanation
Indices: 808313--808372 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
808303 ATTTATATAT
*
808313 TTTATAATT-AATTAAAATTAATAAAAA
1 TTTATAATTAAAATAAAATTAAT-AAAA
* *
808340 TTTAT-ATTAAAATAAATTTAATTAAA
1 TTTATAATTAAAATAAAATTAATAAAA
808366 TTTATAA
1 TTTATAA
808373 GCTAATCAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
26 11 0.39
27 17 0.61
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (27 bp):
TTTATAATTAAAATAAAATTAATAAAA
Found at i:808348 original size:16 final size:15
Alignment explanation
Indices: 808328--808365 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
808318 AATTAATTAA
808328 AATTAATAA-AAATTT
1 AATTAA-AATAAATTT
808343 ATATTAAAATAAATTT
1 A-ATTAAAATAAATTT
808359 AATTAAA
1 AATTAAA
808366 TTTATAAGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 9 0.43
16 12 0.57
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
AATTAAAATAAATTT
Found at i:809187 original size:22 final size:23
Alignment explanation
Indices: 809157--809213 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 23
809147 ATTAAAAATT
*
809157 AATTTAATTAATTTT-AATATTAA
1 AATTAAATTAATTTTAAAT-TTAA
*
809180 AA-TAAATTGATTTTAAATTTAA
1 AATTAAATTAATTTTAAATTTAA
*
809202 AATTAAAATAAT
1 AATTAAATTAAT
809214 AGAATTGATA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
22 16 0.57
23 12 0.43
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.46
Consensus pattern (23 bp):
AATTAAATTAATTTTAAATTTAA
Found at i:809281 original size:20 final size:19
Alignment explanation
Indices: 809258--809305 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
809248 TTTTAAATTT
*
809258 TTTAAATTATTTTTATTTTA
1 TTTAAATTATATTT-TTTTA
*
809278 TTTAATTTATATTTTTTTA
1 TTTAAATTATATTTTTTTA
*
809297 TTTTAATTA
1 TTTAAATTA
809306 GGTTATATTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 12 0.50
20 12 0.50
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (19 bp):
TTTAAATTATATTTTTTTA
Found at i:809299 original size:24 final size:24
Alignment explanation
Indices: 809258--809336 Score: 77
Period size: 24 Copynumber: 3.1 Consensus size: 24
809248 TTTTAAATTT
*
809258 TTTAAATTATTTTTATTTTATTTAA
1 TTTATATT-TTTTTATTTTATTTAA
* *
809283 TTTATATTTTTTTATTTTAATTAG
1 TTTATATTTTTTTATTTTATTTAA
* *
809307 GTTATATTATTTTTTATTTTAATTGAA
1 TTTATA-T-TTTTTTATTTT-ATTTAA
809334 TTT
1 TTT
809337 TTAATTTAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
24 19 0.44
25 8 0.19
26 11 0.26
27 5 0.12
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (24 bp):
TTTATATTTTTTTATTTTATTTAA
Found at i:809301 original size:15 final size:16
Alignment explanation
Indices: 809264--809301 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
809254 ATTTTTTAAA
809264 TTATTTT-TATTTTAT
1 TTATTTTATATTTTAT
*
809279 TTAATTTATATTTT-T
1 TTATTTTATATTTTAT
809294 TTATTTTA
1 TTATTTTA
809302 ATTAGGTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 14 0.70
16 6 0.30
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (16 bp):
TTATTTTATATTTTAT
Found at i:809326 original size:26 final size:26
Alignment explanation
Indices: 809263--809330 Score: 88
Period size: 24 Copynumber: 2.7 Consensus size: 26
809253 AATTTTTTAA
* *
809263 ATTA-TTTTTATTTTATTTAATTTAT
1 ATTATTTTTTATTTTAATTAAGTTAT
*
809288 A-T-TTTTTTATTTTAATTAGGTTAT
1 ATTATTTTTTATTTTAATTAAGTTAT
809312 ATTATTTTTTATTTTAATT
1 ATTATTTTTTATTTTAATT
809331 GAATTTTTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
24 20 0.54
25 2 0.05
26 15 0.41
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (26 bp):
ATTATTTTTTATTTTAATTAAGTTAT
Found at i:809350 original size:6 final size:6
Alignment explanation
Indices: 809339--809429 Score: 52
Period size: 6 Copynumber: 16.2 Consensus size: 6
809329 TTGAATTTTT
* * *
809339 AATTTA AATTTA AATGT- -GTTTA AATTTA AATTTA AA--TA GATTTA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA
* * * * *
809383 AGTTTA AATTTA TATTT- TA-TTA AATAT- ATTTTA AATATTA AATTTA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AAT-TTA AATTTA
809429 A
1 A
809430 TTATTTTGAT
Statistics
Matches: 63, Mismatches: 14, Indels: 16
0.68 0.15 0.17
Matches are distributed among these distances:
4 7 0.11
5 6 0.10
6 44 0.70
7 6 0.10
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (6 bp):
AATTTA
Found at i:809364 original size:22 final size:22
Alignment explanation
Indices: 809339--809394 Score: 78
Period size: 22 Copynumber: 2.5 Consensus size: 22
809329 TTGAATTTTT
*
809339 AATTTAAATTTAAAT-GTGTTTA
1 AATTTAAATTTAAATAG-ATTTA
809361 AATTTAAATTTAAATAGATTTA
1 AATTTAAATTTAAATAGATTTA
*
809383 AGTTTAAATTTA
1 AATTTAAATTTA
809395 TATTTTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
22 30 0.97
23 1 0.03
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (22 bp):
AATTTAAATTTAAATAGATTTA
Found at i:809485 original size:9 final size:9
Alignment explanation
Indices: 809477--809550 Score: 57
Period size: 9 Copynumber: 8.4 Consensus size: 9
809467 AAATCGATTA
809477 AATT-AATT
1 AATTAAATT
809485 AATTAAATT
1 AATTAAATT
*
809494 AA-TAATTT
1 AATTAAATT
809502 AAATT-AATT
1 -AATTAAATT
* *
809511 AA-AAAATA
1 AATTAAATT
809519 AATTAAATT
1 AATTAAATT
*
809528 AACTAAATT
1 AATTAAATT
*
809537 AAATTTAATT
1 -AATTAAATT
809547 AATT
1 AATT
809551 TTTTTAATTA
Statistics
Matches: 51, Mismatches: 9, Indels: 11
0.72 0.13 0.15
Matches are distributed among these distances:
8 16 0.31
9 27 0.53
10 8 0.16
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (9 bp):
AATTAAATT
Found at i:809493 original size:5 final size:5
Alignment explanation
Indices: 809473--809548 Score: 62
Period size: 5 Copynumber: 17.0 Consensus size: 5
809463 TTAAAAATCG
*
809473 ATTAA ATT-A ATT-A ATTAA ATT-A A-TAA TTTAA ATT-A ATTAA A--AA
1 ATTAA ATTAA ATTAA ATTAA ATTAA ATTAA ATTAA ATTAA ATTAA ATTAA
* *
809516 A-TAA ATTAA ATT-A ACTAA ATTAA ATTTA ATTAA
1 ATTAA ATTAA ATTAA ATTAA ATTAA ATTAA ATTAA
809549 TTTTTTTAAT
Statistics
Matches: 58, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
3 4 0.07
4 21 0.36
5 33 0.57
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (5 bp):
ATTAA
Found at i:809529 original size:26 final size:25
Alignment explanation
Indices: 809473--809539 Score: 71
Period size: 26 Copynumber: 2.6 Consensus size: 25
809463 TTAAAAATCG
* *
809473 ATTAAATTAATTAATTAAATTAATAA
1 ATTAAATTAATTAA-AAAATAAATAA
*
809499 TTTAAATTAATTAAAAAATAAATTAA
1 ATTAAATTAATTAAAAAATAAA-TAA
* *
809525 ATTAACTAAATTAAA
1 ATTAAATTAATTAAA
809540 TTTAATTAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
25 6 0.18
26 28 0.82
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (25 bp):
ATTAAATTAATTAAAAAATAAATAA
Found at i:809906 original size:3 final size:3
Alignment explanation
Indices: 809900--809930 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
809890 TGGTTTAGCT
809900 TTC TTC TTC TTC TTC TTC TTC TTC TT- TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
809931 TTAAAAAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (3 bp):
TTC
Found at i:819980 original size:17 final size:17
Alignment explanation
Indices: 819956--819995 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
819946 AATGAAAATG
*
819956 AAGA-AAATAATTAGTA
1 AAGACAAATAATTAATA
819972 AAGACAAATAATTAATA
1 AAGACAAATAATTAATA
*
819989 AAAACAA
1 AAGACAA
819996 GACAATTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.68, C:0.05, G:0.07, T:0.20
Consensus pattern (17 bp):
AAGACAAATAATTAATA
Found at i:820935 original size:76 final size:77
Alignment explanation
Indices: 820824--820965 Score: 166
Period size: 76 Copynumber: 1.9 Consensus size: 77
820814 ATATGTTGAT
* *
820824 ATGAAAATGCTAACATGACTCTAAAGACTTAATTTT-GATG-AAAATAA-TTAAAATGACCCTAA
1 ATGAAAATGCTAACATAACTCTAAAGACTTAATTTTAG-TGTAAAA-AAGCTAAAATGACCCTAA
820886 AAGACATGCGTTGG
64 AAGACATGCGTTGG
* * * * *
820900 ATGAAAGTGCTAACATAA-TCCTAATGATTTGATTTTAGTGTAAAAAAGCTAAAATGACCTTAAA
1 ATGAAAATGCTAACATAACT-CTAAAGACTTAATTTTAGTGTAAAAAAGCTAAAATGACCCTAAA
820964 AG
65 AG
820966 GTTCAGTTTA
Statistics
Matches: 55, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
75 1 0.02
76 33 0.60
77 21 0.38
ACGTcount: A:0.44, C:0.12, G:0.15, T:0.29
Consensus pattern (77 bp):
ATGAAAATGCTAACATAACTCTAAAGACTTAATTTTAGTGTAAAAAAGCTAAAATGACCCTAAAA
GACATGCGTTGG
Found at i:821892 original size:33 final size:33
Alignment explanation
Indices: 821846--821912 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
821836 TATTTATTCC
* *
821846 TAAAATAACCTAAATAACCTTTATGGATGTATT
1 TAAAATAACCTAAATAACCTTAATAGATGTATT
* * *
821879 TAAAATGATCTAAATGACCTTAATAGATGTATT
1 TAAAATAACCTAAATAACCTTAATAGATGTATT
821912 T
1 T
821913 GTGCATGAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.37
Consensus pattern (33 bp):
TAAAATAACCTAAATAACCTTAATAGATGTATT
Found at i:822283 original size:13 final size:13
Alignment explanation
Indices: 822249--822310 Score: 51
Period size: 13 Copynumber: 4.9 Consensus size: 13
822239 CAACAATATA
822249 AACATAAAATAAT
1 AACATAAAATAAT
822262 ---ATAATAATAAT
1 AACATAA-AATAAT
822273 AACATAAAATAA-
1 AACATAAAATAAT
* *
822285 GACATGAAAATAAC
1 AACAT-AAAATAAT
*
822299 AATATAAAATAA
1 AACATAAAATAA
822311 ATAAAGACTA
Statistics
Matches: 40, Mismatches: 3, Indels: 12
0.73 0.05 0.22
Matches are distributed among these distances:
10 4 0.10
11 6 0.15
12 4 0.10
13 19 0.47
14 7 0.17
ACGTcount: A:0.68, C:0.06, G:0.03, T:0.23
Consensus pattern (13 bp):
AACATAAAATAAT
Found at i:822335 original size:23 final size:22
Alignment explanation
Indices: 822305--822355 Score: 75
Period size: 23 Copynumber: 2.3 Consensus size: 22
822295 TAACAATATA
822305 AAATAAATAAAGACTATAAAGT
1 AAATAAATAAAGACTATAAAGT
* *
822327 AAATGAAATAATGAGTATAAAGT
1 AAAT-AAATAAAGACTATAAAGT
822350 AAATAA
1 AAATAA
822356 TGAAATAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 6 0.23
23 20 0.77
ACGTcount: A:0.63, C:0.02, G:0.12, T:0.24
Consensus pattern (22 bp):
AAATAAATAAAGACTATAAAGT
Found at i:822429 original size:31 final size:31
Alignment explanation
Indices: 822392--822496 Score: 104
Period size: 31 Copynumber: 3.3 Consensus size: 31
822382 AAGTGCAAGT
*
822392 AAAGTAAATGACATAAATTTAAATAACAAAA
1 AAAGTAAATAACATAAATTTAAATAACAAAA
** * *
822423 AAAGTAACCAACATGAATTTAAATTACAAAAA
1 AAAGTAAATAACATAAATTTAAATAAC-AAAA
* *
822455 TTAAAGTAAATTACATAAATTAAAATAAC-AAA
1 --AAAGTAAATAACATAAATTTAAATAACAAAA
*
822487 AATGTAAATA
1 AAAGTAAATA
822497 TCAAAAGTAA
Statistics
Matches: 58, Mismatches: 13, Indels: 7
0.74 0.17 0.09
Matches are distributed among these distances:
30 8 0.14
31 22 0.38
32 7 0.12
34 21 0.36
ACGTcount: A:0.62, C:0.08, G:0.06, T:0.25
Consensus pattern (31 bp):
AAAGTAAATAACATAAATTTAAATAACAAAA
Found at i:822466 original size:19 final size:19
Alignment explanation
Indices: 822442--822478 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
822432 AACATGAATT
822442 TAAATTACAAAAATTAAAG
1 TAAATTACAAAAATTAAAG
*
822461 TAAATTACATAAATTAAA
1 TAAATTACAAAAATTAAA
822479 ATAACAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.30
Consensus pattern (19 bp):
TAAATTACAAAAATTAAAG
Found at i:828993 original size:6 final size:6
Alignment explanation
Indices: 828982--829020 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
828972 ATTAAAATTT
* *
828982 ATATAA ATATAA ATGTAA ATATAA ATATAA CTATAA ATA
1 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATA
829021 CTTTAAACAC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (6 bp):
ATATAA
Found at i:831335 original size:19 final size:19
Alignment explanation
Indices: 831311--831347 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
831301 CATATTTCAG
831311 CTGCGAAACTAAAAATGGT
1 CTGCGAAACTAAAAATGGT
831330 CTGCGAAACTAAAAATGG
1 CTGCGAAACTAAAAATGG
831348 AGCCTGACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.43, C:0.16, G:0.22, T:0.19
Consensus pattern (19 bp):
CTGCGAAACTAAAAATGGT
Found at i:831832 original size:21 final size:21
Alignment explanation
Indices: 831794--831834 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
831784 AATATGATAG
***
831794 TTTAAAATAAATTGATAATTT
1 TTTAAAATAAAAAAATAATTT
831815 TTTAAAATAAAAAAATAATT
1 TTTAAAATAAAAAAATAATT
831835 AATTAATTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.41
Consensus pattern (21 bp):
TTTAAAATAAAAAAATAATTT
Found at i:833182 original size:13 final size:13
Alignment explanation
Indices: 833164--833189 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
833154 TACAGCAAGT
833164 ATGTATCGATACA
1 ATGTATCGATACA
833177 ATGTATCGATACA
1 ATGTATCGATACA
833190 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:835429 original size:21 final size:21
Alignment explanation
Indices: 835396--835440 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
835386 TTGCAAGTTG
*
835396 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
835418 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
835438 AAA
1 AAA
835441 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:837263 original size:15 final size:15
Alignment explanation
Indices: 837243--837273 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
837233 TAAAAATGTC
*
837243 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
837258 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
837273 C
1 C
837274 CAAACAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:841253 original size:71 final size:71
Alignment explanation
Indices: 841169--841337 Score: 313
Period size: 71 Copynumber: 2.4 Consensus size: 71
841159 AAATTTTTGA
841169 TATGAATTACTTGATTAAGGGGGAGAATTATTAATAAACGGGGGAGATAAAGGGGAGAATGCGTA
1 TATGAATTACTTGATTAAGGGGGAGAATTATTAATAAACGGGGGAGATAAAGGGGAGAATGCGTA
841234 AATTGC
66 AATTGC
841240 TATGAATTACTTGATTAAGGGGGAGAATTATTAATAAACGGGGGAGATAAAGGGGAGAATGCGTA
1 TATGAATTACTTGATTAAGGGGGAGAATTATTAATAAACGGGGGAGATAAAGGGGAGAATGCGTA
841305 AATTGC
66 AATTGC
* *
841311 TAT-AATTATTTTATTAAGGGGGAGAAT
1 TATGAATTACTTGATTAAGGGGGAGAAT
841338 GTACAAATTT
Statistics
Matches: 96, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
70 22 0.23
71 74 0.77
ACGTcount: A:0.38, C:0.05, G:0.30, T:0.28
Consensus pattern (71 bp):
TATGAATTACTTGATTAAGGGGGAGAATTATTAATAAACGGGGGAGATAAAGGGGAGAATGCGTA
AATTGC
Found at i:842012 original size:13 final size:13
Alignment explanation
Indices: 841994--842019 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
841984 TACAGCAAGT
841994 ATGTATCGATACA
1 ATGTATCGATACA
842007 ATGTATCGATACA
1 ATGTATCGATACA
842020 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:843271 original size:92 final size:89
Alignment explanation
Indices: 842993--843271 Score: 362
Period size: 89 Copynumber: 3.1 Consensus size: 89
842983 AAACAACTGT
* *
842993 ATGGATTATTTTTAATAATAAGATTCTTTTTAGTAGAAAGGAAGAAAATATTGATTATAAATATT
1 ATGGATTATTTTTAAGAATAGGATTCTTTTTAGTAGAAAGGAAGAAAATATTGATTATAAATATT
* *
843058 AAACTGCAATGATTAGACTAATAA
66 AAACTACAATGATTAGACTAATAC
* *
843082 ATGGATTAATTTTAAGAATAGGATT-TCTTCTAGTAGAAAGGAAGAAAATATTGATTATAAATAT
1 ATGGATTATTTTTAAGAATAGGATTCT-TTTTAGTAGAAAGGAAGAAAATATTGATTATAAATAT
843146 TAAACTACAATGATTAGACTAATAC
65 TAAACTACAATGATTAGACTAATAC
* * * *
843171 ATGGATTATTTTTAAGAATAGGATTCTTTTTAATAGAAAGAAAAAAAAATTGATTGATTGTAAAT
1 ATGGATTATTTTTAAGAATAGGATTCTTTTTAGTAGAAAG-GAAGAAAA-T-ATTGATTATAAAT
* * * * * *
843236 ATCAGATTATAATGATTAGATTAATGC
63 ATTAAACTACAATGATTAGACTAATAC
*
843263 ATGAATTAT
1 ATGGATTAT
843272 ATATAAAAAT
Statistics
Matches: 166, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
88 1 0.01
89 116 0.70
90 7 0.04
91 1 0.01
92 41 0.25
ACGTcount: A:0.44, C:0.05, G:0.14, T:0.37
Consensus pattern (89 bp):
ATGGATTATTTTTAAGAATAGGATTCTTTTTAGTAGAAAGGAAGAAAATATTGATTATAAATATT
AAACTACAATGATTAGACTAATAC
Found at i:845806 original size:97 final size:96
Alignment explanation
Indices: 845677--845864 Score: 236
Period size: 97 Copynumber: 1.9 Consensus size: 96
845667 TAATTTGGGC
* * *
845677 AAAATAAGATTTAAACCTTAGTAAGCTTAAAAATGGGGTTAGAGTGTCCCCTCGAAAGAATGGGG
1 AAAATAAGATTTAAACCTTAGTAAGCTTAAAAACGGGGTTAGAGTATCCCCTCGAAAG-ATGGGA
*
845742 TTGGAGCATCCTCGATA-ATAATAATTTAAGCA
65 TTGGAGCATCCTAGATATATAA-AATTTAAGCA
* * * ** *
845774 AAAATAAGATTTAAATCTT-GATGAGTTTAAAAACGTTGTTAGAGTATCTCCTCGAAAGATGGGA
1 AAAATAAGATTTAAACCTTAG-TAAGCTTAAAAACGGGGTTAGAGTATCCCCTCGAAAGATGGGA
*
845838 TTGGAGTATCCTAGATATATAAAATTT
65 TTGGAGCATCCTAGATATATAAAATTT
845865 TGATATTTTT
Statistics
Matches: 78, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
96 26 0.33
97 52 0.67
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.30
Consensus pattern (96 bp):
AAAATAAGATTTAAACCTTAGTAAGCTTAAAAACGGGGTTAGAGTATCCCCTCGAAAGATGGGAT
TGGAGCATCCTAGATATATAAAATTTAAGCA
Found at i:848940 original size:52 final size:53
Alignment explanation
Indices: 848884--849174 Score: 162
Period size: 52 Copynumber: 5.5 Consensus size: 53
848874 AAGTGCAGTA
*
848884 ACATTAGA-TTTAAAGATGATAAGGGTACCAATGTGCTGATTCAAGGCCAACG
1 ACATTAGACTTTAAAGATGATAAGGGTACCAATATGCTGATTCAAGGCCAACG
* * * * ** * *
848936 ACATT-GAACTTTGAAAAGGATTTGACAAGTGCACCAATATACAAATTCAAGGCCTATG
1 ACATTAG-ACTTT--AAA-GA--TGATAAGGGTACCAATATGCTGATTCAAGGCCAACG
* * * * * *
848994 ACACTAGACTTTAAAAATGATAAAGGTGCTAATATGCTGATTCAAGGCCAACA
1 ACATTAGACTTTAAAGATGATAAGGGTACCAATATGCTGATTCAAGGCCAACG
* * * * * * * * *
849047 ATATTAGAC-TTAAAGATAATAAAGATACTAATATGCGGGTTCAAGGCTAGCG
1 ACATTAGACTTTAAAGATGATAAGGGTACCAATATGCTGATTCAAGGCCAACG
* ** * * * * * * *
849099 -CTATTGGACTTT-AAGATGAGCAGTGTGCCAATGTGTTGATTCAAGGCTAGCA
1 AC-ATTAGACTTTAAAGATGATAAGGGTACCAATATGCTGATTCAAGGCCAACG
*
849151 ACATTAGAC-TTAAAGATGAGAAGG
1 ACATTAGACTTTAAAGATGATAAGG
849175 TTTGGCAAGT
Statistics
Matches: 175, Mismatches: 52, Indels: 24
0.70 0.21 0.10
Matches are distributed among these distances:
51 3 0.02
52 89 0.51
53 37 0.21
55 4 0.02
56 5 0.03
58 36 0.21
59 1 0.01
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (53 bp):
ACATTAGACTTTAAAGATGATAAGGGTACCAATATGCTGATTCAAGGCCAACG
Found at i:849336 original size:33 final size:33
Alignment explanation
Indices: 849246--849355 Score: 134
Period size: 33 Copynumber: 3.4 Consensus size: 33
849236 CCAATTTTTA
* *
849246 TGGGCTTTTGAGAA-GGTTGCCACCGACTTGTG
1 TGGGCTTTTGAAAAGGGTTACCACCGACTTGTG
** * *
849278 TAAGC-TTTGAAATGGGTCACCACCGACTTGTG
1 TGGGCTTTTGAAAAGGGTTACCACCGACTTGTG
*
849310 TGGGCTTTTGAAAAGGGTTACTACCGACTTGTG
1 TGGGCTTTTGAAAAGGGTTACCACCGACTTGTG
*
849343 TGGGCTTTGGAAA
1 TGGGCTTTTGAAA
849356 GAGTTGCCAT
Statistics
Matches: 64, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
31 6 0.09
32 22 0.34
33 36 0.56
ACGTcount: A:0.21, C:0.17, G:0.31, T:0.31
Consensus pattern (33 bp):
TGGGCTTTTGAAAAGGGTTACCACCGACTTGTG
Found at i:849440 original size:78 final size:79
Alignment explanation
Indices: 849297--849442 Score: 197
Period size: 78 Copynumber: 1.9 Consensus size: 79
849287 AAATGGGTCA
* * * * *
849297 CCACCGACTTGTGTGGGCTTTTGAAAAGGGTTACTACCGACTTGTGTGGGCTTTGGAAAGAGTTG
1 CCACCGACTTGTGTAGGCTTTTGAAAAGAGTTACCACCGACTAGTGTAGGCTTTGGAAAGAGTTG
849362 CCATCGATTTATTG
66 CCATCGATTTATTG
* * *
849376 CCACTGACTTGTGTAGGC-TTTGAAAAGAGTTGCCACCGACTAGTGTAGGCTTT-GAAAGGGGTT
1 CCACCGACTTGTGTAGGCTTTTGAAAAGAGTTACCACCGACTAGTGTAGGCTTTGGAAA-GAGTT
849439 GCCA
65 GCCA
849443 CTGACCTGTG
Statistics
Matches: 58, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
77 4 0.07
78 38 0.66
79 16 0.28
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.30
Consensus pattern (79 bp):
CCACCGACTTGTGTAGGCTTTTGAAAAGAGTTACCACCGACTAGTGTAGGCTTTGGAAAGAGTTG
CCATCGATTTATTG
Found at i:849459 original size:32 final size:32
Alignment explanation
Indices: 849373--849467 Score: 113
Period size: 32 Copynumber: 2.9 Consensus size: 32
849363 CATCGATTTA
*
849373 TTGCCACTGACTTGTGTAGGCTTTGAAAAGAG
1 TTGCCACTGACCTGTGTAGGCTTTGAAAAGAG
* * *
849405 TTGCCACCGA-CTAGTGTAGGCTTTGAAAGGGG
1 TTGCCACTGACCT-GTGTAGGCTTTGAAAAGAG
849437 TTGCCACTGACCTGTG-AGGGCTTTTGAAAAG
1 TTGCCACTGACCTGTGTA-GGC-TTTGAAAAG
849468 GATGCATTGA
Statistics
Matches: 53, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
31 2 0.04
32 41 0.77
33 10 0.19
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (32 bp):
TTGCCACTGACCTGTGTAGGCTTTGAAAAGAG
Found at i:849532 original size:29 final size:29
Alignment explanation
Indices: 849374--849649 Score: 178
Period size: 29 Copynumber: 9.2 Consensus size: 29
849364 ATCGATTTAT
*
849374 TGCCACTGACTTGTGTAGGCTTTGAAAAGAGT
1 TGCCACTGAC-T-TGTAGGCTTTGAAAAG-GA
* * *
849406 TGCCACCGACTAGTGTAGGCTTTGAAAGGGGT
1 TGCCACTGACT--TGTAGGCTTTGAAA-AGGA
*
849438 TGCCACTGACCTGTGAGGGCTTTTGAAAAGGA
1 TGCCACTGACTTGT-A-GGC-TTTGAAAAGGA
* * * * **
849470 TG-CATTGA-TTATGGGCTTTTAAAATTA
1 TGCCACTGACTTGTAGGCTTTGAAAAGGA
* *
849497 TGCCACTGACTTATAGGCTTTGAAAAGGG
1 TGCCACTGACTTGTAGGCTTTGAAAAGGA
* * *
849526 TGTCACTGACTTGTGGGCTTTAAAAAGGA
1 TGCCACTGACTTGTAGGCTTTGAAAAGGA
* * *
849555 TACCACTGACTTGTGGGCTTTGAAAGGGGA
1 TGCCACTGACTTGTAGGCTTTGAAA-AGGA
* * * *
849585 TGCCAATAACTTGTGGGCTTTGCAAAAAGA
1 TGCCACTGACTTGTAGGCTTTG-AAAAGGA
* * * * *
849615 TACCACTAACTTGTGGGCTTTAAAGAAGGG
1 TGCCACTGACTTGTAGGCTTTGAA-AAGGA
849645 TGCCA
1 TGCCA
849650 TAGAGTTGTA
Statistics
Matches: 195, Mismatches: 39, Indels: 22
0.76 0.15 0.09
Matches are distributed among these distances:
27 10 0.05
28 8 0.04
29 62 0.32
30 55 0.28
31 10 0.05
32 42 0.22
33 8 0.04
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (29 bp):
TGCCACTGACTTGTAGGCTTTGAAAAGGA
Done.