Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 180 of 187
Found at i:55065718 original size:38 final size:39
Alignment explanation
Indices: 55065670--55065747 Score: 115
Period size: 37 Copynumber: 2.0 Consensus size: 39
55065660 TAAACATTAA
*
55065670 AAAATTATTTTAAAAATAAAAAAATAAAAAA-ATAT-TTT
1 AAAAGTATTTT-AAAATAAAAAAATAAAAAATATATATTT
*
55065708 AAAAGTATTTTAAAATTAAAAAATAAAAAATATATATTT
1 AAAAGTATTTTAAAATAAAAAAATAAAAAATATATATTT
55065747 A
1 A
55065748 TTATATTCGG
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
37 18 0.50
38 14 0.39
39 4 0.11
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (39 bp):
AAAAGTATTTTAAAATAAAAAAATAAAAAATATATATTT
Found at i:55084621 original size:29 final size:30
Alignment explanation
Indices: 55084579--55084643 Score: 114
Period size: 29 Copynumber: 2.2 Consensus size: 30
55084569 TTAATGCCAA
55084579 GAATGGTGTCGAATAGATTCCTGAAGATT-
1 GAATGGTGTCGAATAGATTCCTGAAGATTG
*
55084608 GAATGGTGTCGAATAGATTCTTGAAGATTG
1 GAATGGTGTCGAATAGATTCCTGAAGATTG
55084638 GAATGG
1 GAATGG
55084644 CTGAAAATGC
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 28 0.82
30 6 0.18
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.31
Consensus pattern (30 bp):
GAATGGTGTCGAATAGATTCCTGAAGATTG
Found at i:55086279 original size:166 final size:166
Alignment explanation
Indices: 55086005--55086336 Score: 664
Period size: 166 Copynumber: 2.0 Consensus size: 166
55085995 GAACTGAACC
55086005 CAGGGCGTTTTCGAGGCAGGGTCGTATCATCCCCCCTTCTTCGAAGCGACTTGTTCTCAAGTCGA
1 CAGGGCGTTTTCGAGGCAGGGTCGTATCATCCCCCCTTCTTCGAAGCGACTTGTTCTCAAGTCGA
55086070 TGCGTTGGTTCACTTGAACATAGCTCTTCTTAGTCGACTTTCCTCAATCGAACGGGACTAATGAC
66 TGCGTTGGTTCACTTGAACATAGCTCTTCTTAGTCGACTTTCCTCAATCGAACGGGACTAATGAC
55086135 AATTGAGTCCACTGAAAAGAATAGCCATGAGTTAGT
131 AATTGAGTCCACTGAAAAGAATAGCCATGAGTTAGT
55086171 CAGGGCGTTTTCGAGGCAGGGTCGTATCATCCCCCCTTCTTCGAAGCGACTTGTTCTCAAGTCGA
1 CAGGGCGTTTTCGAGGCAGGGTCGTATCATCCCCCCTTCTTCGAAGCGACTTGTTCTCAAGTCGA
55086236 TGCGTTGGTTCACTTGAACATAGCTCTTCTTAGTCGACTTTCCTCAATCGAACGGGACTAATGAC
66 TGCGTTGGTTCACTTGAACATAGCTCTTCTTAGTCGACTTTCCTCAATCGAACGGGACTAATGAC
55086301 AATTGAGTCCACTGAAAAGAATAGCCATGAGTTAGT
131 AATTGAGTCCACTGAAAAGAATAGCCATGAGTTAGT
55086337 AAATAGCAAC
Statistics
Matches: 166, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
166 166 1.00
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.29
Consensus pattern (166 bp):
CAGGGCGTTTTCGAGGCAGGGTCGTATCATCCCCCCTTCTTCGAAGCGACTTGTTCTCAAGTCGA
TGCGTTGGTTCACTTGAACATAGCTCTTCTTAGTCGACTTTCCTCAATCGAACGGGACTAATGAC
AATTGAGTCCACTGAAAAGAATAGCCATGAGTTAGT
Found at i:55089244 original size:18 final size:18
Alignment explanation
Indices: 55089221--55089259 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
55089211 CTCTTTTTGC
55089221 TCTTTTTC-ATTCTCTTTT
1 TCTTTTTCGATT-TCTTTT
55089239 TCTTTTTCGATTTCTTTT
1 TCTTTTTCGATTTCTTTT
55089257 TCT
1 TCT
55089260 GTCTTCCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 17 0.85
19 3 0.15
ACGTcount: A:0.05, C:0.21, G:0.03, T:0.72
Consensus pattern (18 bp):
TCTTTTTCGATTTCTTTT
Found at i:55091223 original size:24 final size:24
Alignment explanation
Indices: 55091199--55091245 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
55091189 AAACTACTTC
55091199 TAAAAAAAACTCAAGAGAGAATTCT
1 TAAAAAAAACTCAA-AGAGAATTCT
** *
55091224 TGGAGAAAACTCAAAGAGAATT
1 TAAAAAAAACTCAAAGAGAATT
55091246 TTTCACTCAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 8 0.42
25 11 0.58
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (24 bp):
TAAAAAAAACTCAAAGAGAATTCT
Found at i:55092033 original size:20 final size:20
Alignment explanation
Indices: 55092008--55092049 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
55091998 CCTTACAGAG
55092008 AATGAGATTCTATCTTAGTT
1 AATGAGATTCTATCTTAGTT
55092028 AATGAGATTCTATCTTAGTT
1 AATGAGATTCTATCTTAGTT
55092048 AA
1 AA
55092050 CCGCATCAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (20 bp):
AATGAGATTCTATCTTAGTT
Found at i:55096969 original size:41 final size:40
Alignment explanation
Indices: 55096907--55097030 Score: 142
Period size: 41 Copynumber: 3.0 Consensus size: 40
55096897 GTACGGGATA
*
55096907 TACTTTGGCTTCTCCAATGATGCACTTATGTGCCAGTATAT
1 TACTTTGGTTTCTCC-ATGATGCACTTATGTGCCAGTATAT
*
55096948 TACTTTGGTTTGTCCAGTGATGCACTTATGTGCCAGTATAT
1 TACTTTGGTTTCTCCA-TGATGCACTTATGTGCCAGTATAT
* ** * *
55096989 TA-TTCTGGTTCTTTTGATGATGCCCTTATGTGCCAATATAT
1 TACTT-TGGTT-TCTCCATGATGCACTTATGTGCCAGTATAT
55097030 T
1 T
55097031 TGCTTTGATG
Statistics
Matches: 73, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
40 3 0.04
41 67 0.92
42 3 0.04
ACGTcount: A:0.20, C:0.19, G:0.19, T:0.43
Consensus pattern (40 bp):
TACTTTGGTTTCTCCATGATGCACTTATGTGCCAGTATAT
Found at i:55102205 original size:25 final size:25
Alignment explanation
Indices: 55102164--55102229 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
55102154 ATCTCGACCC
* * *
55102164 ACAACTCGTGTAAGCAATTACAGCT
1 ACAACTTGTGTGAGCAATAACAGCT
* * *
55102189 ACAGCTTGTGTGAGCAATAATAGTT
1 ACAACTTGTGTGAGCAATAACAGCT
55102214 ACAACTTGTGTGAGCA
1 ACAACTTGTGTGAGCA
55102230 TCGTTCTAGC
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.27
Consensus pattern (25 bp):
ACAACTTGTGTGAGCAATAACAGCT
Found at i:55102331 original size:13 final size:13
Alignment explanation
Indices: 55102315--55102444 Score: 57
Period size: 13 Copynumber: 9.8 Consensus size: 13
55102305 AATGTCAAAC
*
55102315 GAAATGTTTATAT
1 GAAATGGTTATAT
**
55102328 GAAATGGTTACCT
1 GAAATGGTTATAT
55102341 GAAATGGTTATAT
1 GAAATGGTTATAT
*
55102354 -AAATAAGTTATAT
1 GAAAT-GGTTATAT
* * *
55102367 AGAAATTGATATAC
1 -GAAATGGTTATAT
** * *
55102381 GGGATGATTTTAT
1 GAAATGGTTATAT
*
55102394 G-AATCGGTTATAAA
1 GAAAT-GGTTAT-AT
*
55102408 GAAATAGTTATAT
1 GAAATGGTTATAT
* * *
55102421 GAAGTGTTTTTAT
1 GAAATGGTTATAT
*
55102434 GAAATGCTTAT
1 GAAATGGTTAT
55102445 TTGGATATAG
Statistics
Matches: 82, Mismatches: 29, Indels: 12
0.67 0.24 0.10
Matches are distributed among these distances:
12 6 0.07
13 57 0.70
14 12 0.15
15 7 0.09
ACGTcount: A:0.38, C:0.04, G:0.19, T:0.38
Consensus pattern (13 bp):
GAAATGGTTATAT
Found at i:55108608 original size:85 final size:85
Alignment explanation
Indices: 55108465--55108638 Score: 330
Period size: 85 Copynumber: 2.0 Consensus size: 85
55108455 TGTTATCAGA
55108465 AATACATTGATTTGAGATGTTAGAACGGTCAATTGATTTGTGCTGAATATACTAAGCCTGGTTGT
1 AATACATTGATTTGAGATGTTAGAACGGTCAATTGATTTGTGCTGAATATACTAAGCCTGGTTGT
55108530 GTTTTAAATATGATTTTAGC
66 GTTTTAAATATGATTTTAGC
* *
55108550 AATACATTGATTTGAGATGTTAGAATGGTCAATTGATTTGTGCTGAATCTACTAAGCCTGGTTGT
1 AATACATTGATTTGAGATGTTAGAACGGTCAATTGATTTGTGCTGAATATACTAAGCCTGGTTGT
55108615 GTTTTAAATATGATTTTAGC
66 GTTTTAAATATGATTTTAGC
55108635 AATA
1 AATA
55108639 TCCGCACAAA
Statistics
Matches: 87, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 87 1.00
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (85 bp):
AATACATTGATTTGAGATGTTAGAACGGTCAATTGATTTGTGCTGAATATACTAAGCCTGGTTGT
GTTTTAAATATGATTTTAGC
Found at i:55109624 original size:26 final size:27
Alignment explanation
Indices: 55109569--55109625 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
55109559 AGGTTTTTAG
*
55109569 TTTATCGATAACTGAATATTTTATTAA
1 TTTATCGATAAATGAATATTTTATTAA
*
55109596 TTTATCGATAAATTAATA-TTTATTAA
1 TTTATCGATAAATGAATATTTTATTAA
55109622 TTTA
1 TTTA
55109626 GAGAATATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
26 12 0.43
27 16 0.57
ACGTcount: A:0.39, C:0.05, G:0.05, T:0.51
Consensus pattern (27 bp):
TTTATCGATAAATGAATATTTTATTAA
Found at i:55115118 original size:22 final size:24
Alignment explanation
Indices: 55115069--55115118 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
55115059 ATTTCTCTCA
*
55115069 CCCTTTTCAACATATACCTATAAT
1 CCCTTTTCAACATATACCTATAAG
55115093 CCCTTTTGC-ACATATA-C-ATAAG
1 CCCTTTT-CAACATATACCTATAAG
55115115 CCCT
1 CCCT
55115119 CAAAAGGCAC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
22 8 0.33
23 1 0.04
24 14 0.58
25 1 0.04
ACGTcount: A:0.30, C:0.32, G:0.04, T:0.34
Consensus pattern (24 bp):
CCCTTTTCAACATATACCTATAAG
Found at i:55116498 original size:27 final size:29
Alignment explanation
Indices: 55116441--55116515 Score: 77
Period size: 27 Copynumber: 2.6 Consensus size: 29
55116431 TATGTACATG
*
55116441 TCATGATACATATTATTATCTTACCATTTCA
1 TCAT-ATACATA-TATCATCTTACCATTTCA
55116472 TCATATACATATATCATC-T-CCATTTCA
1 TCATATACATATATCATCTTACCATTTCA
55116499 --ATATATCAATATATCAT
1 TCATATA-C-ATATATCAT
55116516 GTACCATCAG
Statistics
Matches: 41, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
25 5 0.12
26 1 0.02
27 17 0.41
28 1 0.02
29 6 0.15
30 7 0.17
31 4 0.10
ACGTcount: A:0.36, C:0.20, G:0.01, T:0.43
Consensus pattern (29 bp):
TCATATACATATATCATCTTACCATTTCA
Found at i:55116719 original size:24 final size:24
Alignment explanation
Indices: 55116685--55116770 Score: 84
Period size: 24 Copynumber: 3.5 Consensus size: 24
55116675 GTACATGTAT
*
55116685 GCTCATACGAGCTATAAACGGTAA
1 GCTCCTACGAGCTATAAACGGTAA
* *
55116709 GCTCCTCCGAGCTGAT-AATGGTAA
1 GCTCCTACGAGCT-ATAAACGGTAA
* * *
55116733 GCTTCTTCGAGCTAAATAACGGTAA
1 GCTCCTACGAGCTATA-AACGGTAA
*
55116758 GCTCATACGAGCT
1 GCTCCTACGAGCT
55116771 GAGTATCAGT
Statistics
Matches: 49, Mismatches: 10, Indels: 5
0.77 0.16 0.08
Matches are distributed among these distances:
23 1 0.02
24 29 0.59
25 19 0.39
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.24
Consensus pattern (24 bp):
GCTCCTACGAGCTATAAACGGTAA
Found at i:55122644 original size:45 final size:45
Alignment explanation
Indices: 55122588--55122675 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
55122578 ACAGATACTC
* *
55122588 GGTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTCA
1 GGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTCA
*
55122633 GGTGGAATCAGCACATAGCAACCACCTTACTAATTAATGATGT
1 GGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGT
55122676 TTGATTCACA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (45 bp):
GGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTCA
Found at i:55122749 original size:51 final size:50
Alignment explanation
Indices: 55122686--55122872 Score: 232
Period size: 51 Copynumber: 3.7 Consensus size: 50
55122676 TTGATTCACA
* *
55122686 TAGTAGCTTGCACATAGTACTACACATGTGACCATTACCATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCA-TACCATCCGGTACACG
* * * * * * * *
55122737 TAGTAGCCTGCACATAGCACTACACACGTGATCGAAACTATCTGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACATGTGA-CCATACCATCCGGTACACG
* *
55122788 TAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTCCGGTACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATACCA-TCCGGTACACG
55122838 TAGTAGCCTGCACATAGTACTACACATGTGACCAT
1 TAGTAGCCTGCACATAGTACTACACATGTGACCAT
55122873 CACTTTCACT
Statistics
Matches: 112, Mismatches: 21, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
49 2 0.02
50 41 0.37
51 67 0.60
52 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACATGTGACCATACCATCCGGTACACG
Found at i:55122861 original size:101 final size:101
Alignment explanation
Indices: 55122684--55122868 Score: 291
Period size: 101 Copynumber: 1.8 Consensus size: 101
55122674 GTTTGATTCA
* *
55122684 CATAGTAGCTTGCACATAGTACTACACATGTGACCATTACCATCCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCA-TACCATCCGATACACGTAGTAGCCTGCA
55122749 CATAGCACTACACACGTGATCGAAACTATCTGGTACG
65 CATAGCACTACACACGTGATCGAAACTATCTGGTACG
* *
55122786 CATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTCCGGTACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCATACCA-TCCGATACACGTAGTAGCCTGCA
* *
55122850 CATAGTACTACACATGTGA
65 CATAGCACTACACACGTGA
55122869 CCATCACTTT
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
100 4 0.05
101 39 0.51
102 33 0.43
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.24
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCATACCATCCGATACACGTAGTAGCCTGCAC
ATAGCACTACACACGTGATCGAAACTATCTGGTACG
Found at i:55125259 original size:23 final size:23
Alignment explanation
Indices: 55125233--55125278 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
55125223 TTTGTCCAAT
*
55125233 AACCACTCTCACATTTCCCTTAC
1 AACCACCCTCACATTTCCCTTAC
55125256 AACCACCCTCACATTTCCCTTAC
1 AACCACCCTCACATTTCCCTTAC
55125279 TTTACCAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.26, C:0.46, G:0.00, T:0.28
Consensus pattern (23 bp):
AACCACCCTCACATTTCCCTTAC
Found at i:55125525 original size:19 final size:20
Alignment explanation
Indices: 55125493--55125530 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
55125483 TAAAATTAAA
55125493 TTTTCAAAAATATT-TTTAT
1 TTTTCAAAAATATTGTTTAT
* *
55125512 TTTTCCAAATTATTGTTTA
1 TTTTCAAAAATATTGTTTA
55125531 ATCAATTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.32, C:0.08, G:0.03, T:0.58
Consensus pattern (20 bp):
TTTTCAAAAATATTGTTTAT
Found at i:55125994 original size:13 final size:13
Alignment explanation
Indices: 55125968--55126025 Score: 62
Period size: 13 Copynumber: 4.5 Consensus size: 13
55125958 AATGTATAAA
* *
55125968 ATGAAATAGATAT
1 ATGAAATTGTTAT
*
55125981 AAGAAATTGTTAT
1 ATGAAATTGTTAT
* *
55125994 ATGAAATAGATAT
1 ATGAAATTGTTAT
*
55126007 ACGAAATTGTTAT
1 ATGAAATTGTTAT
55126020 ATGAAA
1 ATGAAA
55126026 ATAGATATAC
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 35 1.00
ACGTcount: A:0.50, C:0.02, G:0.16, T:0.33
Consensus pattern (13 bp):
ATGAAATTGTTAT
Found at i:55125997 original size:26 final size:26
Alignment explanation
Indices: 55125968--55126039 Score: 117
Period size: 26 Copynumber: 2.7 Consensus size: 26
55125958 AATGTATAAA
55125968 ATGAAATAGATATAAGAAATTGTTAT
1 ATGAAATAGATATAAGAAATTGTTAT
*
55125994 ATGAAATAGATATACGAAATTGTTAT
1 ATGAAATAGATATAAGAAATTGTTAT
55126020 ATGAAAATAGATATACAGAA
1 ATG-AAATAGATATA-AGAA
55126040 TGATTTTATA
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
26 28 0.67
27 11 0.26
28 3 0.07
ACGTcount: A:0.51, C:0.03, G:0.15, T:0.31
Consensus pattern (26 bp):
ATGAAATAGATATAAGAAATTGTTAT
Found at i:55126087 original size:40 final size:41
Alignment explanation
Indices: 55126016--55126093 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
55126006 TACGAAATTG
55126016 TTATATGAAAATAGATATACAGAATGATTTTAT-AAATCGA
1 TTATATGAAAATAGATATACAGAATGATTTTATGAAATCGA
* * * *
55126056 TTATATGGAAATAGTTATA-TGAAGTGTTTTTATGAAAT
1 TTATATGAAAATAGATATACAGAA-TGATTTTATGAAAT
55126094 GTTTATTTCG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
39 3 0.09
40 25 0.78
41 4 0.12
ACGTcount: A:0.42, C:0.03, G:0.15, T:0.40
Consensus pattern (41 bp):
TTATATGAAAATAGATATACAGAATGATTTTATGAAATCGA
Found at i:55126144 original size:13 final size:13
Alignment explanation
Indices: 55126126--55126161 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
55126116 AAAAAGGGAC
*
55126126 ATTTGAAATGAAT
1 ATTTGAAATGAAG
55126139 ATTTGAAATGAAG
1 ATTTGAAATGAAG
*
55126152 ATGTGAAATG
1 ATTTGAAATG
55126162 TTAAATGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.22, T:0.33
Consensus pattern (13 bp):
ATTTGAAATGAAG
Found at i:55144823 original size:21 final size:19
Alignment explanation
Indices: 55144784--55144857 Score: 112
Period size: 19 Copynumber: 3.8 Consensus size: 19
55144774 AATCATATCT
55144784 TCCAAGATTGCATATCATA
1 TCCAAGATTGCATATCATA
55144803 TCCAAGATTGCATAAATCATA
1 TCCAAGATTGCAT--ATCATA
*
55144824 TCTAAGATTGCATATCATA
1 TCCAAGATTGCATATCATA
*
55144843 TCTAAGATTGCATAT
1 TCCAAGATTGCATAT
55144858 GCTTGAAGAT
Statistics
Matches: 52, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
19 34 0.65
21 18 0.35
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.34
Consensus pattern (19 bp):
TCCAAGATTGCATATCATA
Found at i:55144837 original size:40 final size:42
Alignment explanation
Indices: 55144764--55144856 Score: 138
Period size: 40 Copynumber: 2.3 Consensus size: 42
55144754 TTAAATCTCT
*
55144764 AAGATTACA-AAATCATATCTTCCAAGATTGCATATCATATCC
1 AAGATTGCATAAATCATATCTT-CAAGATTGCATATCATATCC
*
55144806 AAGATTGCATAAATCATATC-T-AAGATTGCATATCATATCT
1 AAGATTGCATAAATCATATCTTCAAGATTGCATATCATATCC
55144846 AAGATTGCATA
1 AAGATTGCATA
55144857 TGCTTGAAGA
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
40 29 0.60
42 9 0.19
43 10 0.21
ACGTcount: A:0.41, C:0.17, G:0.10, T:0.32
Consensus pattern (42 bp):
AAGATTGCATAAATCATATCTTCAAGATTGCATATCATATCC
Found at i:55148315 original size:30 final size:31
Alignment explanation
Indices: 55148281--55148340 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
55148271 AAACCTTTTA
*
55148281 TTTT-CCCTCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCT-AAAACTTTTACTCCCTTCCCAC
*
55148311 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCTAAAACTTTTACTCCCTTCCCA
55148341 TCTCACCTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 17 0.65
31 9 0.35
ACGTcount: A:0.20, C:0.38, G:0.00, T:0.42
Consensus pattern (31 bp):
TTTTCCCCTAAAACTTTTACTCCCTTCCCAC
Found at i:55151017 original size:21 final size:21
Alignment explanation
Indices: 55150993--55151035 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
55150983 ACTTGGGCGT
55150993 TTATATTTTTATTTTCATTGC
1 TTATATTTTTATTTTCATTGC
55151014 TTATATTTTTATTTTCATTGC
1 TTATATTTTTATTTTCATTGC
55151035 T
1 T
55151036 ATCACTTATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.19, C:0.09, G:0.05, T:0.67
Consensus pattern (21 bp):
TTATATTTTTATTTTCATTGC
Found at i:55152411 original size:22 final size:21
Alignment explanation
Indices: 55152382--55152451 Score: 58
Period size: 21 Copynumber: 3.4 Consensus size: 21
55152372 AATCACAATC
55152382 ATTTTTAATCAAGGGTTATTT
1 ATTTTTAATCAAGGGTTATTT
* * *
55152403 ATTTATTAAATC---TG-TAATA
1 ATTT-TT-AATCAAGGGTTATTT
55152422 ATTTTTAATCAAGGGTTATTT
1 ATTTTTAATCAAGGGTTATTT
55152443 ATTTATTAA
1 ATTT-TTAA
55152452 ATCTGTACTA
Statistics
Matches: 36, Mismatches: 6, Indels: 13
0.65 0.11 0.24
Matches are distributed among these distances:
17 4 0.11
18 2 0.06
19 7 0.19
20 2 0.06
21 11 0.31
22 6 0.17
23 4 0.11
ACGTcount: A:0.34, C:0.04, G:0.10, T:0.51
Consensus pattern (21 bp):
ATTTTTAATCAAGGGTTATTT
Found at i:55152431 original size:40 final size:40
Alignment explanation
Indices: 55152382--55152458 Score: 154
Period size: 40 Copynumber: 1.9 Consensus size: 40
55152372 AATCACAATC
55152382 ATTTTTAATCAAGGGTTATTTATTTATTAAATCTGTAATA
1 ATTTTTAATCAAGGGTTATTTATTTATTAAATCTGTAATA
55152422 ATTTTTAATCAAGGGTTATTTATTTATTAAATCTGTA
1 ATTTTTAATCAAGGGTTATTTATTTATTAAATCTGTA
55152459 CTAACACGAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.34, C:0.05, G:0.10, T:0.51
Consensus pattern (40 bp):
ATTTTTAATCAAGGGTTATTTATTTATTAAATCTGTAATA
Found at i:55152720 original size:18 final size:18
Alignment explanation
Indices: 55152697--55152732 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
55152687 ATAAAAGAGG
55152697 GTATGAAGTAAGTTTCCA
1 GTATGAAGTAAGTTTCCA
55152715 GTATGAAGTAAGTTTCCA
1 GTATGAAGTAAGTTTCCA
55152733 AAACTTTAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.11, G:0.22, T:0.33
Consensus pattern (18 bp):
GTATGAAGTAAGTTTCCA
Found at i:55157778 original size:27 final size:27
Alignment explanation
Indices: 55157747--55157924 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
55157737 TAAATTGTAC
55157747 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
55157774 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
55157800 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
55157828 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
55157856 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
55157883 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
55157910 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
55157925 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:55157861 original size:82 final size:81
Alignment explanation
Indices: 55157748--55157903 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
55157738 AAATTGTACA
* *
55157748 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
55157812 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
55157829 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
55157894 TGCGAGTTGA
65 TGCGAATTGA
55157904 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:55157915 original size:82 final size:81
Alignment explanation
Indices: 55157744--55157924 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
55157734 GATTAAATTG
* *
55157744 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
55157809 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
55157825 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
55157889 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
55157907 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
55157925 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:55161363 original size:29 final size:31
Alignment explanation
Indices: 55161308--55161375 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 31
55161298 CGACCATTAG
** *
55161308 AAAGGGATAGTTTCGGCTGTCAAAAT-ATGA
1 AAAGGGATAGCCTCAGCTGTCAAAATAATGA
55161338 AAAGGGATAGCCTCAGCTGTC-AAATAATGA
1 AAAGGGATAGCCTCAGCTGTCAAAATAATGA
55161368 AAAGGGAT
1 AAAGGGAT
55161376 TGTGACGACC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 4 0.12
30 30 0.88
ACGTcount: A:0.40, C:0.12, G:0.26, T:0.22
Consensus pattern (31 bp):
AAAGGGATAGCCTCAGCTGTCAAAATAATGA
Found at i:55161403 original size:29 final size:29
Alignment explanation
Indices: 55161363--55161525 Score: 125
Period size: 29 Copynumber: 5.5 Consensus size: 29
55161353 GCTGTCAAAT
*
55161363 AATGAAAAGGGATTGTGACGACCATCAAC
1 AATGAAAAGGGATAGTGACGACCATCAAC
* *
55161392 AATGAAAAGGGATGGTAACGACCATCGAAC
1 AATGAAAAGGGATAGTGACGACCATC-AAC
* * * *
55161422 TATGAAAATGGG-TAGCT-TCGGCTATCAA-
1 AATGAAAA-GGGATAG-TGACGACCATCAAC
* * *
55161450 ATTATGAAAAGGAATGGTGACGACCATTAAC
1 A--ATGAAAAGGGATAGTGACGACCATCAAC
* * * *
55161481 TATGAAAAAGGATAGTGACAACCATCAAA
1 AATGAAAAGGGATAGTGACGACCATCAAC
55161510 ATATGAAAAGGGATAG
1 A-ATGAAAAGGGATAG
55161526 CTTCGGCTAT
Statistics
Matches: 102, Mismatches: 23, Indels: 17
0.72 0.16 0.12
Matches are distributed among these distances:
29 51 0.50
30 47 0.46
31 4 0.04
ACGTcount: A:0.43, C:0.13, G:0.24, T:0.20
Consensus pattern (29 bp):
AATGAAAAGGGATAGTGACGACCATCAAC
Found at i:55161429 original size:30 final size:30
Alignment explanation
Indices: 55161364--55161567 Score: 148
Period size: 30 Copynumber: 6.9 Consensus size: 30
55161354 CTGTCAAATA
* *
55161364 ATGAAAAGGGATTGTGACGACCATC-AACA
1 ATGAAAAGGGATGGTGACGACCATCGAACT
*
55161393 ATGAAAAGGGATGGTAACGACCATCGAACT
1 ATGAAAAGGGATGGTGACGACCATCGAACT
* * * * * *
55161423 ATGAAAATGGG-TAGCT-TCGGCTATCAAATT
1 ATGAAAA-GGGAT-GGTGACGACCATCGAACT
* *
55161453 ATGAAAAGGAATGGTGACGACCAT-TAACT
1 ATGAAAAGGGATGGTGACGACCATCGAACT
* * * * *
55161482 ATGAAAAAGGATAGTGACAACCATCAAAAT
1 ATGAAAAGGGATGGTGACGACCATCGAACT
* * * * *
55161512 ATGAAAAGGGATAGCT-TCGGCTATCGAATT
1 ATGAAAAGGGAT-GGTGACGACCATCGAACT
*
55161542 ATGAAAAGGGATGGTGACAACCATCG
1 ATGAAAAGGGATGGTGACGACCATCG
55161568 TGATTTTACT
Statistics
Matches: 131, Mismatches: 36, Indels: 15
0.72 0.20 0.08
Matches are distributed among these distances:
29 52 0.40
30 73 0.56
31 6 0.05
ACGTcount: A:0.40, C:0.15, G:0.25, T:0.21
Consensus pattern (30 bp):
ATGAAAAGGGATGGTGACGACCATCGAACT
Found at i:55161459 original size:89 final size:89
Alignment explanation
Indices: 55161327--55161566 Score: 320
Period size: 89 Copynumber: 2.7 Consensus size: 89
55161317 GTTTCGGCTG
* * * * *
55161327 TCAAAATATGAAAAGGGATAGCCTCAGCTGTCAAATAATGAAAAGGGATTGTGACGACCATCAAC
1 TCAAAATATGAAAAGGGATAGCTTCGGCTATCAAATTATGAAAAGGGATGGTGACGACCATCAAC
* * *
55161392 AATGAAAAGGGATGGTAACGACCA
66 AATGAAAAAGGATAGTAACAACCA
* * * *
55161416 TCGAACTATGAAAATGGG-TAGCTTCGGCTATCAAATTATGAAAAGGAATGGTGACGACCATTAA
1 TCAAAATATGAAAA-GGGATAGCTTCGGCTATCAAATTATGAAAAGGGATGGTGACGACCATCAA
* *
55161480 CTATGAAAAAGGATAGTGACAACCA
65 CAATGAAAAAGGATAGTAACAACCA
* *
55161505 TCAAAATATGAAAAGGGATAGCTTCGGCTATCGAATTATGAAAAGGGATGGTGACAACCATC
1 TCAAAATATGAAAAGGGATAGCTTCGGCTATCAAATTATGAAAAGGGATGGTGACGACCATC
55161567 GTGATTTTAC
Statistics
Matches: 129, Mismatches: 20, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
88 3 0.02
89 123 0.95
90 3 0.02
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (89 bp):
TCAAAATATGAAAAGGGATAGCTTCGGCTATCAAATTATGAAAAGGGATGGTGACGACCATCAAC
AATGAAAAAGGATAGTAACAACCA
Found at i:55167043 original size:40 final size:40
Alignment explanation
Indices: 55166989--55167197 Score: 364
Period size: 40 Copynumber: 5.2 Consensus size: 40
55166979 CATTTGAATG
*
55166989 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
*
55167029 ATATCCGGGATAAGACCCGAAGGAATTTGTGCGAATTGAT
1 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
* * *
55167069 ATATCCGGGCTAAGACCCGAAGGTATTTGTGCGATTTGAT
1 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
55167109 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
*
55167149 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAACTGAT
1 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
55167189 ATATCCGGG
1 ATATCCGGG
55167198 CGTTCGTTAG
Statistics
Matches: 160, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 160 1.00
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
Found at i:55169352 original size:29 final size:30
Alignment explanation
Indices: 55169317--55169514 Score: 140
Period size: 30 Copynumber: 6.6 Consensus size: 30
55169307 GCTTTAGCTG
* *
55169317 TCAAAATATGAAAAGAGATAGCTTCGACTC
1 TCAAATTATGAAAAGGGATAGCTTCGACTC
* *
55169347 TCAAATTATGAAAAGGGATAGCTTCGGCTG
1 TCAAATTATGAAAAGGGATAGCTTCGACTC
* *
55169377 TCAAATTATGAAATGGGATAGCTTC-AGCTA
1 TCAAATTATGAAAAGGGATAGCTTCGA-CTC
* * **
55169407 TCAAATTATGGAAAGGGAT-GGTGAAGAC-C
1 TCAAATTATGAAAAGGGATAGCT-TCGACTC
* *
55169436 ATCAACA--ATGAAAAGGGAT-GGTGACGAC-C
1 -TCAA-ATTATGAAAAGGGATAGCT-TCGACTC
* * * * *
55169465 ATCGAACTATGAAAAGAGATAGCTTCGGCTA
1 -TCAAATTATGAAAAGGGATAGCTTCGACTC
55169496 TCAAATTATGAAAAGGGAT
1 TCAAATTATGAAAAGGGAT
55169515 GGTGACGACC
Statistics
Matches: 135, Mismatches: 24, Indels: 18
0.76 0.14 0.10
Matches are distributed among these distances:
28 1 0.01
29 26 0.19
30 104 0.77
31 4 0.03
ACGTcount: A:0.39, C:0.14, G:0.24, T:0.23
Consensus pattern (30 bp):
TCAAATTATGAAAAGGGATAGCTTCGACTC
Found at i:55169389 original size:60 final size:60
Alignment explanation
Indices: 55169313--55169425 Score: 165
Period size: 60 Copynumber: 1.9 Consensus size: 60
55169303 GATTGCTTTA
*
55169313 GCTGTCAAAATATGAAAAGAGATAGCTTC-GACTCTCAAATTATGAAAAGGGATAGCTTCG
1 GCTGTCAAAATATGAAAAGAGATAGCTTCAG-CTATCAAATTATGAAAAGGGATAGCTTCG
* * * *
55169373 GCTGTCAAATTATGAAATGGGATAGCTTCAGCTATCAAATTATGGAAAGGGAT
1 GCTGTCAAAATATGAAAAGAGATAGCTTCAGCTATCAAATTATGAAAAGGGAT
55169426 GGTGAAGACC
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
60 46 0.98
61 1 0.02
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.27
Consensus pattern (60 bp):
GCTGTCAAAATATGAAAAGAGATAGCTTCAGCTATCAAATTATGAAAAGGGATAGCTTCG
Found at i:55169529 original size:30 final size:30
Alignment explanation
Indices: 55169406--55169538 Score: 137
Period size: 30 Copynumber: 4.5 Consensus size: 30
55169396 AGCTTCAGCT
* * *
55169406 ATCAAATTATGGAAAGGGATGGTGAAGACC
1 ATCAAACTATGAAAAGGGATGGTGACGACC
*
55169436 ATC-AACAATGAAAAGGGATGGTGACGACC
1 ATCAAACTATGAAAAGGGATGGTGACGACC
* * * * * *
55169465 ATCGAACTATGAAAAGAGATAGCT-TCGGCT
1 ATCAAACTATGAAAAGGGAT-GGTGACGACC
*
55169495 ATCAAATTATGAAAAGGGATGGTGACGACC
1 ATCAAACTATGAAAAGGGATGGTGACGACC
55169525 ATC-AACTATGAAAA
1 ATCAAACTATGAAAA
55169539 TATGAAAAAT
Statistics
Matches: 82, Mismatches: 18, Indels: 7
0.77 0.17 0.07
Matches are distributed among these distances:
29 37 0.45
30 43 0.52
31 2 0.02
ACGTcount: A:0.41, C:0.14, G:0.25, T:0.20
Consensus pattern (30 bp):
ATCAAACTATGAAAAGGGATGGTGACGACC
Found at i:55173746 original size:51 final size:52
Alignment explanation
Indices: 55173670--55173809 Score: 196
Period size: 50 Copynumber: 2.8 Consensus size: 52
55173660 ATGTTCGGTT
55173670 CACATAGTAGCCTGCACATAGTACTACACATGTGACCATTACCA-TCCGATA
1 CACATAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATTCCGATA
* ** * *
55173721 CACATAGTAGCCTGTACATAGTACTACACATGCAACC--TATCATTCCGGTA
1 CACATAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATTCCGATA
* *
55173771 CACGTAGTAGCCTGCACATAGTACTACACACGTGACCAT
1 CACATAGTAGCCTGCACATAGTACTACACATGTGACCAT
55173810 CACTTTCACT
Statistics
Matches: 76, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
49 4 0.05
50 38 0.50
51 34 0.45
ACGTcount: A:0.32, C:0.29, G:0.15, T:0.24
Consensus pattern (52 bp):
CACATAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATTCCGATA
Found at i:55173790 original size:50 final size:50
Alignment explanation
Indices: 55173665--55173800 Score: 184
Period size: 51 Copynumber: 2.7 Consensus size: 50
55173655 CAATGATGTT
* **
55173665 CGGTTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATC
1 CGGTACACATAGTAGCCTGCACATAGTACTACACATGCAACCA-TACCATC
* * *
55173716 CGATACACATAGTAGCCTGTACATAGTACTACACATGCAACC-TATCATTC
1 CGGTACACATAGTAGCCTGCACATAGTACTACACATGCAACCATACCA-TC
*
55173766 CGGTACACGTAGTAGCCTGCACATAGTACTACACA
1 CGGTACACATAGTAGCCTGCACATAGTACTACACA
55173801 CGTGACCATC
Statistics
Matches: 75, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
49 4 0.05
50 34 0.45
51 37 0.49
ACGTcount: A:0.32, C:0.29, G:0.15, T:0.24
Consensus pattern (50 bp):
CGGTACACATAGTAGCCTGCACATAGTACTACACATGCAACCATACCATC
Found at i:55173943 original size:15 final size:16
Alignment explanation
Indices: 55173917--55173946 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
55173907 TTCGGGAATT
55173917 TTTTACTTTTTATCAC
1 TTTTACTTTTTATCAC
55173933 TTTTA-TTTTTATCA
1 TTTTACTTTTTATCA
55173947 ATCAATTTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.20, C:0.13, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTTACTTTTTATCAC
Found at i:55179386 original size:42 final size:42
Alignment explanation
Indices: 55179327--55179408 Score: 146
Period size: 42 Copynumber: 2.0 Consensus size: 42
55179317 ATACGGCCTA
* *
55179327 GCACATGGGCGTGTGAGGCCATTTCGAAGGGTACACGGGCTG
1 GCACATGGGAGTGTGAGGCCATTTCGAAAGGTACACGGGCTG
55179369 GCACATGGGAGTGTGAGGCCATTTCGAAAGGTACACGGGC
1 GCACATGGGAGTGTGAGGCCATTTCGAAAGGTACACGGGC
55179409 ATGTGGCTTG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.22, C:0.21, G:0.39, T:0.18
Consensus pattern (42 bp):
GCACATGGGAGTGTGAGGCCATTTCGAAAGGTACACGGGCTG
Found at i:55185097 original size:44 final size:44
Alignment explanation
Indices: 55185049--55185553 Score: 167
Period size: 44 Copynumber: 11.7 Consensus size: 44
55185039 TCAATCTACT
* * *
55185049 CCACTGCAACCTCAGGGAGTTAAGATTTGCTTCTTCAGTCTGCC
1 CCACTGCAACTTCAGGGAGATAAGACTTGCTTCTTCAGTCTGCC
** * * * *
55185093 CCACTGTGACTTCAGGGGGATAAGACTTGTTTTTTCAGTCTGCT
1 CCACTGCAACTTCAGGGAGATAAGACTTGCTTCTTCAGTCTGCC
* ** * * * *
55185137 CCGCTGCAACTTCAGGGAGATAAGACCCGATGC--GA-TCTGCT
1 CCACTGCAACTTCAGGGAGATAAGACTTGCTTCTTCAGTCTGCC
* ** * *
55185178 CCACTACTGCTT-AGGGAGATAAGATCTATTG-TT-TT-AATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGA-C--TTGCTTCTTCAGTCTGCC
* * * * * *
55185221 CCACTGCAACTTGAGAGAGATAGGA-TTGATTTCTTCTGTCTGCT
1 CCACTGCAACTTCAGGGAGATAAGACTTG-CTTCTTCAGTCTGCC
* * * *
55185265 CCACTACTACTT-AGGGAGATAAGATCTATTG-TT-TT-AATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGA-C--TTGCTTCTTCAGTCTGCC
* * * * * *
55185308 CCACTGCAACTTGAGAGAGATAGGA-TTGATTTCTTCTGTCTGCT
1 CCACTGCAACTTCAGGGAGATAAGACTTG-CTTCTTCAGTCTGCC
* * * *
55185352 CCACTACTACTT-AGGGAGATAAGATCTATTG-TT-TT-AATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGA-C--TTGCTTCTTCAGTCTGCC
* * * * * *
55185395 CCACTGCAACTTGAGAGAGATAGGA-TTGATTTCTTCTGTCTGCT
1 CCACTGCAACTTCAGGGAGATAAGACTTG-CTTCTTCAGTCTGCC
* * * *
55185439 CCACTACTACTT-AGGGAGATAAGATCTATTG-TT-TT-AATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGA-C--TTGCTTCTTCAGTCTGCC
* * * * * *
55185482 CCACTGCAACTTGAGAGAGATAGGA-TTGATTTCTTCTGTCTGCT
1 CCACTGCAACTTCAGGGAGATAAGACTTG-CTTCTTCAGTCTGCC
* *
55185526 CCACTACTACTT-AGGGAGATAAGACTTG
1 CCACTGCAACTTCAGGGAGATAAGACTTG
55185554 TAATTTCCAA
Statistics
Matches: 349, Mismatches: 73, Indels: 78
0.70 0.15 0.16
Matches are distributed among these distances:
40 24 0.07
41 15 0.04
42 11 0.03
43 112 0.32
44 172 0.49
45 6 0.02
47 9 0.03
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.33
Consensus pattern (44 bp):
CCACTGCAACTTCAGGGAGATAAGACTTGCTTCTTCAGTCTGCC
Found at i:55185282 original size:87 final size:87
Alignment explanation
Indices: 55185172--55185549 Score: 747
Period size: 87 Copynumber: 4.3 Consensus size: 87
55185162 CCCGATGCGA
*
55185172 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTATTGTTTTAATCTGCTCCACTGCAACTTGAGA
1 TCTGCTCCACTACTACTTAGGGAGATAAGATCTATTGTTTTAATCTGCTCCACTGCAACTTGAGA
55185237 GAGATAGGATTGATTTCTTCTG
66 GAGATAGGATTGATTTCTTCTG
55185259 TCTGCTCCACTACTACTTAGGGAGATAAGATCTATTGTTTTAATCTGCTCCACTGCAACTTGAGA
1 TCTGCTCCACTACTACTTAGGGAGATAAGATCTATTGTTTTAATCTGCTCCACTGCAACTTGAGA
55185324 GAGATAGGATTGATTTCTTCTG
66 GAGATAGGATTGATTTCTTCTG
55185346 TCTGCTCCACTACTACTTAGGGAGATAAGATCTATTGTTTTAATCTGCTCCACTGCAACTTGAGA
1 TCTGCTCCACTACTACTTAGGGAGATAAGATCTATTGTTTTAATCTGCTCCACTGCAACTTGAGA
55185411 GAGATAGGATTGATTTCTTCTG
66 GAGATAGGATTGATTTCTTCTG
55185433 TCTGCTCCACTACTACTTAGGGAGATAAGATCTATTGTTTTAATCTGCTCCACTGCAACTTGAGA
1 TCTGCTCCACTACTACTTAGGGAGATAAGATCTATTGTTTTAATCTGCTCCACTGCAACTTGAGA
55185498 GAGATAGGATTGATTTCTTCTG
66 GAGATAGGATTGATTTCTTCTG
55185520 TCTGCTCCACTACTACTTAGGGAGATAAGA
1 TCTGCTCCACTACTACTTAGGGAGATAAGA
55185550 CTTGTAATTT
Statistics
Matches: 290, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
87 290 1.00
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (87 bp):
TCTGCTCCACTACTACTTAGGGAGATAAGATCTATTGTTTTAATCTGCTCCACTGCAACTTGAGA
GAGATAGGATTGATTTCTTCTG
Found at i:55185749 original size:87 final size:87
Alignment explanation
Indices: 55185603--55186213 Score: 1078
Period size: 87 Copynumber: 7.0 Consensus size: 87
55185593 ACTTGTAATA
* * ** *
55185603 TTCGATCTGCTTCACTGTCGACGCAGGAGGGCAAGATCTGCTATCTTTAACCAGCTCTACTACAA
1 TTCGATCTACTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCTACTACAA
55185668 CCGATGGAGGCAAGGCTTTGTT
66 CCGATGGAGGCAAGGCTTTGTT
55185690 TTCGATCTACTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCTACTACAA
1 TTCGATCTACTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCTACTACAA
55185755 CCGATGGAGGCAAGGCTTTGTT
66 CCGATGGAGGCAAGGCTTTGTT
55185777 TTCGATCTACTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCTACTACAA
1 TTCGATCTACTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCTACTACAA
55185842 CCGATGGAGGCAAGGCTTTGTT
66 CCGATGGAGGCAAGGCTTTGTT
55185864 TTCGATCTACTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCTACTACAA
1 TTCGATCTACTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCTACTACAA
55185929 CCGATGGAGGCAAGGCTTTGTT
66 CCGATGGAGGCAAGGCTTTGTT
55185951 TTCGATCTACTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCTACTACAA
1 TTCGATCTACTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCTACTACAA
55186016 CCGATGGAGGCAAGGCTTTGTT
66 CCGATGGAGGCAAGGCTTTGTT
* ** * *
55186038 TTCGATCTGCTTCATTGTTAACGTAGGAAGGCAAGATCTGCTATCTTTAATCAGCTCTACTACAA
1 TTCGATCTACTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCTACTACAA
55186103 CCGATGGAGGCAAGGCTTTGTT
66 CCGATGGAGGCAAGGCTTTGTT
* * * * * *
55186125 TTCGATTTGCTTCGCTGTTAACGCATGAAGGCGAGATCTGCTATCTTCAACCAGCTCCACTACAA
1 TTCGATCTACTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCTACTACAA
55186190 CCGATGGAGGCAAGGCTTTGTT
66 CCGATGGAGGCAAGGCTTTGTT
55186212 TT
1 TT
55186214 TTATCTTCAC
Statistics
Matches: 505, Mismatches: 19, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
87 505 1.00
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (87 bp):
TTCGATCTACTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCTACTACAA
CCGATGGAGGCAAGGCTTTGTT
Found at i:55187441 original size:7 final size:7
Alignment explanation
Indices: 55187425--55187462 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
55187415 ATTTTTACTC
55187425 TTTCATT
1 TTTCATT
*
55187432 TTTTATT
1 TTTCATT
55187439 TTTCA-T
1 TTTCATT
55187445 TTTCATT
1 TTTCATT
*
55187452 TTTCATC
1 TTTCATT
55187459 TTTC
1 TTTC
55187463 TTCTCTCTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
6 6 0.22
7 21 0.78
ACGTcount: A:0.13, C:0.16, G:0.00, T:0.71
Consensus pattern (7 bp):
TTTCATT
Found at i:55187447 original size:13 final size:13
Alignment explanation
Indices: 55187415--55187457 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
55187405 TAGCCTATCT
*
55187415 ATTTTTACTCTTTC
1 ATTTTTA-TTTTTC
55187429 ATTTTTTATTTTTC
1 A-TTTTTATTTTTC
*
55187443 ATTTTCATTTTTC
1 ATTTTTATTTTTC
55187456 AT
1 AT
55187458 CTTTCTTCTC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
13 13 0.50
14 7 0.27
15 6 0.23
ACGTcount: A:0.16, C:0.14, G:0.00, T:0.70
Consensus pattern (13 bp):
ATTTTTATTTTTC
Found at i:55187462 original size:20 final size:20
Alignment explanation
Indices: 55187425--55187462 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
55187415 ATTTTTACTC
* *
55187425 TTTCATTTTTTATTTTTCAT
1 TTTCATTTTTCATCTTTCAT
55187445 TTTCATTTTTCATCTTTC
1 TTTCATTTTTCATCTTTC
55187463 TTCTCTCTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.16, G:0.00, T:0.71
Consensus pattern (20 bp):
TTTCATTTTTCATCTTTCAT
Found at i:55187942 original size:43 final size:42
Alignment explanation
Indices: 55187887--55187969 Score: 107
Period size: 42 Copynumber: 2.0 Consensus size: 42
55187877 CTCATTTTCA
55187887 TTTTGATCTTGA-TCTTGATTTTTTTCTTTTTTCTT-CTTTTTGT
1 TTTTGATCTTGATTCTTGA--TTTTTC-TTTTTCTTCCTTTTTGT
* *
55187930 TTTTGATTTTGATTTTTGATTTTTCTTTTTCTTCCTTTTT
1 TTTTGATCTTGATTCTTGATTTTTCTTTTTCTTCCTTTTT
55187970 TTGATCTGAG
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
41 8 0.22
42 12 0.33
43 11 0.31
44 5 0.14
ACGTcount: A:0.07, C:0.11, G:0.08, T:0.73
Consensus pattern (42 bp):
TTTTGATCTTGATTCTTGATTTTTCTTTTTCTTCCTTTTTGT
Found at i:55195546 original size:54 final size:54
Alignment explanation
Indices: 55195448--55195646 Score: 292
Period size: 54 Copynumber: 3.7 Consensus size: 54
55195438 ACATGGTAAG
* *
55195448 TGAAGACTATATAGTGTAAGACCTAGTCTGGGATTATAGA-ATCATATGGGGAAA
1 TGAAGACCATATAGTGTAAGACCTAGTCTGGGACTAT-GACATCATATGGGGAAA
* *
55195502 TGAATACCATATAGTGTAAGACCTAGTCTAGGACTATGACATCATATGGGGAAA
1 TGAAGACCATATAGTGTAAGACCTAGTCTGGGACTATGACATCATATGGGGAAA
* * * * *
55195556 TGAAGACTATATACTATAAGACCTAGCCTGAGACTATGACATCATATGGGGAAA
1 TGAAGACCATATAGTGTAAGACCTAGTCTGGGACTATGACATCATATGGGGAAA
*
55195610 TGAAGACCATATAGTGTAAGACCTAGTTTGGGACTAT
1 TGAAGACCATATAGTGTAAGACCTAGTCTGGGACTAT
55195647 TGCGTCATGT
Statistics
Matches: 127, Mismatches: 17, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
53 2 0.02
54 125 0.98
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.27
Consensus pattern (54 bp):
TGAAGACCATATAGTGTAAGACCTAGTCTGGGACTATGACATCATATGGGGAAA
Found at i:55195819 original size:29 final size:29
Alignment explanation
Indices: 55195773--55195868 Score: 86
Period size: 29 Copynumber: 3.2 Consensus size: 29
55195763 AAGTGATGTA
*
55195773 TTTGTGGCTGAATTTGTTTTATGTAAGCC
1 TTTGTGGCTGAATCTGTTTTATGTAAGCC
* ** *
55195802 TTTGTGGTTGAATCTGTTACATGTGAGCC
1 TTTGTGGCTGAATCTGTTTTATGTAAGCC
* * *
55195831 CTAGTGGCTGAA-CTTTTTATATGTGGAAGCC
1 TTTGTGGCTGAATCTGTTT-TATGT--AAGCC
55195862 TTTGTGG
1 TTTGTGG
55195869 TTGCTCTAGG
Statistics
Matches: 50, Mismatches: 14, Indels: 4
0.74 0.21 0.06
Matches are distributed among these distances:
28 4 0.08
29 37 0.74
31 9 0.18
ACGTcount: A:0.18, C:0.12, G:0.27, T:0.43
Consensus pattern (29 bp):
TTTGTGGCTGAATCTGTTTTATGTAAGCC
Found at i:55195870 original size:60 final size:58
Alignment explanation
Indices: 55195776--55195888 Score: 149
Period size: 58 Copynumber: 1.9 Consensus size: 58
55195766 TGATGTATTT
*
55195776 GTGGCTGAATTTGTTTTATGTAAGCCTTTGTGGTTGAATCT-GTTACATGTGAGCCCTA
1 GTGGCTGAATTTGTTATATGTAAGCCTTTGTGGTTG-ATCTAGTTACATGTGAGCCCTA
*
55195834 GTGGCTGAACTTT-TTATATGTGGAAGCCTTTGTGGTTGCTCTAGGTTACATGTGA
1 GTGGCTGAA-TTTGTTATATGT--AAGCCTTTGTGGTTGATCTA-GTTACATGTGA
55195889 ATCTTCGTGG
Statistics
Matches: 48, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
58 16 0.33
59 6 0.12
60 15 0.31
61 11 0.23
ACGTcount: A:0.19, C:0.13, G:0.27, T:0.41
Consensus pattern (58 bp):
GTGGCTGAATTTGTTATATGTAAGCCTTTGTGGTTGATCTAGTTACATGTGAGCCCTA
Found at i:55199556 original size:16 final size:16
Alignment explanation
Indices: 55199519--55199560 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
55199509 TTAATCATAT
*
55199519 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
55199535 TT-AAATATATTATAA
1 TTAAAATATATTATAA
55199550 TTAAAATATAT
1 TTAAAATATAT
55199561 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:55199567 original size:14 final size:15
Alignment explanation
Indices: 55199528--55199569 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
55199518 TTTAAACATA
*
55199528 ATTATTATTAAATAT
1 ATTATAATTAAATAT
55199543 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
55199557 A-TATAATTTAATA
1 ATTATAATTAAATA
55199570 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:55199619 original size:61 final size:61
Alignment explanation
Indices: 55199554--55199741 Score: 201
Period size: 61 Copynumber: 3.1 Consensus size: 61
55199544 TTATAATTAA
55199554 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
* * * * * * * *
55199615 AATATATGATACT-ATAAAA-T-AT-AT-ATTAACATAATTATTAT-TAAATATA-TTATAATTA
1 AATATATAAT-TTAATAAAATTCTTAATAATT-A-AT-ATTCTTATATGAATTTACTCA-AATCA
*
55199673 A
61 T
55199674 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
55199735 AATATAT
1 AATATAT
55199742 GATACTATAA
Statistics
Matches: 97, Mismatches: 18, Indels: 24
0.70 0.13 0.17
Matches are distributed among these distances:
57 3 0.03
58 6 0.06
59 28 0.29
60 16 0.16
61 35 0.36
62 6 0.06
63 3 0.03
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
Found at i:55199661 original size:120 final size:121
Alignment explanation
Indices: 55199517--55199814 Score: 521
Period size: 120 Copynumber: 2.5 Consensus size: 121
55199507 ATTTAATCAT
*
55199517 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
*
55199582 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATAT-
66 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
55199637 ATATT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAAT
1 AT-TTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAAT
55199701 AATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
65 AATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
* * *
55199758 ATTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
55199815 TAAAATAATT
Statistics
Matches: 171, Mismatches: 4, Indels: 6
0.94 0.02 0.03
Matches are distributed among these distances:
120 165 0.96
121 6 0.04
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (121 bp):
ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
Found at i:55199687 original size:14 final size:15
Alignment explanation
Indices: 55199634--55199689 Score: 55
Period size: 15 Copynumber: 3.8 Consensus size: 15
55199624 TACTATAAAA
55199634 TATATATTAACATA-AT
1 TATA-ATTAA-ATATAT
*
55199650 TATTATTAAATATAT
1 TATAATTAAATATAT
55199665 TATAATTAAA-ATA-
1 TATAATTAAATATAT
*
55199678 TATAATTTAATA
1 TATAATTAAATA
55199690 AAATTCTTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
13 9 0.26
14 7 0.20
15 16 0.46
16 3 0.09
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (15 bp):
TATAATTAAATATAT
Found at i:55199861 original size:101 final size:93
Alignment explanation
Indices: 55199755--55200037 Score: 317
Period size: 91 Copynumber: 3.0 Consensus size: 93
55199745 ACTATAAAAG
* * * *
55199755 ATAATTTGAAATAATTAATATTAAATATATTTTAATTAA-AATATATGATTTAATAAAATTTAAA
1 ATAATTTAAAATAATTAATATTAAATATAATTTAA-TAATAATATATAATTTCATAAAATTT---
* *
55199819 ATAATTATAACTAATAAATTATCTTATATGAATTTGT
62 -T--CT-TAA-TAATAAATTATCTTATATGAATTTAT
* *
55199856 ATAATTTAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCATAAAA--TTCTT
1 ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
* *
55199919 GATAATAAATTTTCTTATATGAATTTAT
66 AATAATAAATTATCTTATATGAATTTAT
* *
55199947 ACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCATAAAA--TTCTT
1 ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
55200010 AATAATAAAATGT-TCTTATATGAATTTA
66 AATAAT-AAAT-TATCTTATATGAATTTA
55200038 CTAAAATCAA
Statistics
Matches: 164, Mismatches: 15, Indels: 15
0.85 0.08 0.08
Matches are distributed among these distances:
91 88 0.54
92 21 0.13
93 2 0.01
95 1 0.01
99 1 0.01
100 3 0.02
101 48 0.29
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (93 bp):
ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
AATAATAAATTATCTTATATGAATTTAT
Found at i:55199884 original size:26 final size:28
Alignment explanation
Indices: 55199855--55199915 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
55199845 TATGAATTTG
*
55199855 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
55199881 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
55199909 TAAAATT
1 TATAATT
55199916 CTTGATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:55199913 original size:47 final size:46
Alignment explanation
Indices: 55199862--55200005 Score: 113
Period size: 47 Copynumber: 3.1 Consensus size: 46
55199852 TTGTATAATT
55199862 TAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCA
1 TAAAATAATTATTATTA-ATATAATTTAATAATAATATATAATTTCA
* ** * *
55199909 TAAAAT--TCT-TGA-TAATA-AATTTTCTTATATGAATTTATACAATT--
1 TAAAATAAT-TATTATTAATATAA-TTTAATA-AT-AATATATA-ATTTCA
* *
55199953 TAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCA
1 TAAAATAATTATTATT-AATATAATTTAATAATAATATATAATTTCA
55200000 TAAAAT
1 TAAAAT
55200006 TCTTAATAAT
Statistics
Matches: 72, Mismatches: 12, Indels: 26
0.65 0.11 0.24
Matches are distributed among these distances:
42 2 0.03
43 8 0.11
44 10 0.14
45 14 0.19
46 12 0.17
47 15 0.21
48 9 0.12
49 2 0.03
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.44
Consensus pattern (46 bp):
TAAAATAATTATTATTAATATAATTTAATAATAATATATAATTTCA
Found at i:55199925 original size:91 final size:90
Alignment explanation
Indices: 55199830--55200037 Score: 326
Period size: 91 Copynumber: 2.3 Consensus size: 90
55199820 TAATTATAAC
* * * *
55199830 TAATAAATTATCTTATATGAATTTGTATAATTTAAAATAATTATTATTACATATAATTTAATAAT
1 TAATAAATT-TCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
55199895 AATATATAATTTCATAAAATTCTTGA
65 AATATATAATTTCATAAAATTCTTAA
55199921 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAA-TTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
55199986 GATATATAATTTCATAAAATTCTTAA
65 AATATATAATTTCATAAAATTCTTAA
55200012 TAATAAAATGTTCTTATATGAATTTA
1 TAAT-AAAT-TTCTTATATGAATTTA
55200038 CTAAAATCAA
Statistics
Matches: 108, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
91 87 0.81
92 21 0.19
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (90 bp):
TAATAAATTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAATA
ATATATAATTTCATAAAATTCTTAA
Found at i:55199997 original size:44 final size:43
Alignment explanation
Indices: 55199855--55199997 Score: 119
Period size: 44 Copynumber: 3.2 Consensus size: 43
55199845 TATGAATTTG
* *
55199855 TATAATTTAAAATAATTATTATTACATATAATTTAATAATAATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
** * * * *
55199899 TATAATTTCATAAAATTCTTGATAATAAAT-T-TTCTTATATGAATTTA
1 TATAA-TT--TAAAATAATTAATATTAAATATAAT-TTA-AT-AATATA
*
55199946 TACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
55199990 TATAATTT
1 TATAATTT
55199998 CATAAAATTC
Statistics
Matches: 74, Mismatches: 16, Indels: 18
0.69 0.15 0.17
Matches are distributed among these distances:
43 3 0.04
44 32 0.43
45 7 0.09
46 7 0.09
47 22 0.30
48 3 0.04
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.46
Consensus pattern (43 bp):
TATAATTTAAAATAATTAATATTAAATATAATTTAATAATATA
Found at i:55200012 original size:47 final size:47
Alignment explanation
Indices: 55199880--55200018 Score: 137
Period size: 47 Copynumber: 3.0 Consensus size: 47
55199870 TTATTATTAC
* *
55199880 ATATAATTTAATAATAATATATAATTTCATAAAATTCTTGATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
* * * ** *
55199927 AT-T--TTCTTAT-ATGAATTTATACAATT--TAAAATAATTAATATTAA
1 ATATAATT-TAATAATG-ATATATA-ATTTCATAAAATTCTTAATAATAA
55199971 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
55200018 A
1 A
55200019 ATGTTCTTAT
Statistics
Matches: 69, Mismatches: 14, Indels: 18
0.68 0.14 0.18
Matches are distributed among these distances:
44 20 0.29
45 13 0.19
46 13 0.19
47 23 0.33
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (47 bp):
ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
Found at i:55202029 original size:15 final size:15
Alignment explanation
Indices: 55202009--55202044 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
55201999 ATAATATGTA
55202009 TAATTGACCTAAAAT
1 TAATTGACCTAAAAT
55202024 TAATTGACCTAAAAT
1 TAATTGACCTAAAAT
55202039 TAATTG
1 TAATTG
55202045 TTGGTATTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.44, C:0.11, G:0.08, T:0.36
Consensus pattern (15 bp):
TAATTGACCTAAAAT
Found at i:55202636 original size:21 final size:21
Alignment explanation
Indices: 55202573--55202636 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 21
55202563 AGATTGAACA
55202573 TAATTAAAGGTTGAACATAAT
1 TAATTAAAGGTTGAACATAAT
* * *
55202594 T-ATTATTA-TTTGAATA-ATAT
1 TAATTA-AAGGTTGAACATA-AT
55202614 TAATTAAAGGTTGAACATAAT
1 TAATTAAAGGTTGAACATAAT
55202635 TA
1 TA
55202637 TATATTAGTA
Statistics
Matches: 32, Mismatches: 6, Indels: 10
0.67 0.12 0.21
Matches are distributed among these distances:
19 1 0.03
20 14 0.44
21 16 0.50
22 1 0.03
ACGTcount: A:0.45, C:0.03, G:0.11, T:0.41
Consensus pattern (21 bp):
TAATTAAAGGTTGAACATAAT
Found at i:55208990 original size:18 final size:18
Alignment explanation
Indices: 55208963--55209008 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
55208953 ATGTTTAGTT
55208963 ATTT-ATTTTTTAATTTA
1 ATTTAATTTTTTAATTTA
** *
55208980 ATTTAATTTTTTTGTTTT
1 ATTTAATTTTTTAATTTA
55208998 ATTTAATTTTT
1 ATTTAATTTTT
55209009 CAGGTAATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
17 4 0.16
18 21 0.84
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (18 bp):
ATTTAATTTTTTAATTTA
Found at i:55215623 original size:18 final size:17
Alignment explanation
Indices: 55215576--55215627 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 17
55215566 AAATTTTAAT
*
55215576 AAAAAATAAAAAATAGA
1 AAAAAATATAAAATAGA
*
55215593 AAAAAATTAATAAAATCGTA
1 AAAAAA-T-ATAAAATAG-A
55215613 AAAAAATATAAAATA
1 AAAAAATATAAAATA
55215628 TTGTAACATT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
17 6 0.21
18 8 0.28
19 8 0.28
20 7 0.24
ACGTcount: A:0.75, C:0.02, G:0.04, T:0.19
Consensus pattern (17 bp):
AAAAAATATAAAATAGA
Found at i:55215986 original size:20 final size:21
Alignment explanation
Indices: 55215905--55215991 Score: 83
Period size: 20 Copynumber: 4.3 Consensus size: 21
55215895 TCCTTACGAC
*
55215905 TTTATAAAATTTTATA-ATTT
1 TTTATAAAATTTTACATATTT
* * *
55215925 TTTCT-ATATTTCTATATATTT
1 TTTATAAAATTT-TACATATTT
* *
55215946 TATAAAAAATTTTAC-TATTT
1 TTTATAAAATTTTACATATTT
55215966 TTTATAAAATTTTACAT-TTT
1 TTTATAAAATTTTACATATTT
55215986 TTTATA
1 TTTATA
55215992 TGTTTTTAAC
Statistics
Matches: 54, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
19 5 0.09
20 35 0.65
21 9 0.17
22 5 0.09
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTATAAAATTTTACATATTT
Found at i:55221081 original size:522 final size:522
Alignment explanation
Indices: 55220097--55221145 Score: 1965
Period size: 522 Copynumber: 2.0 Consensus size: 522
55220087 GAGGAAAAAG
*
55220097 GTAAGGATTATGTGAGAAAAATGTGAGGGTTCTCTGAGTACCTTATGAACTTTTTTTTTGTTTGT
1 GTAAGGATTATGTGAGAAAAATGTGAGGGTTCTCTGAGTACCTTATGAACTTTTTTTTTGTCTGT
55220162 TGCATGTATGTTTATATAGTTATTTCTTCTACATTAAAAGACTAATTTGTGAAACAAAACGAAAG
66 TGCATGTATGTTTATATAGTTATTTCTTCTACATTAAAAGACTAATTTGTGAAACAAAACGAAAG
*
55220227 CTATGCATGTGTGATATACTGATTCTGTGTAAATGTGCATCTGAGAATCTTGCATGTGTGGCTTG
131 CTATGCATGTGTGATATACTGATTCTGTGTAAATGTGCATCTGAGAACCTTGCATGTGTGGCTTG
*
55220292 ATGCCTAAATGACAATGCACCTTCGTTATGAAAAGAAAGTATGAAAAAGATGAATATGCAATAAA
196 ATGCCTAAATGACAATGCACCTTCGTTATGAAAAGAAAGTATGAAAAAGAAGAATATGCAATAAA
*
55220357 GCATGATTTGAATGATAAGTCTCTATTCTATTGAAAAGTATGCGCATGCATGAGTGTGCTTAAAG
261 GCATGATTTGAATGATAAGTCTCTATTCTATTGAAAAGTATGCACATGCATGAGTGTGCTTAAAG
*
55220422 TACGATTGTTTTTGCACGATGAGTTTGAGTTGCATGTCTGGAAACGTAAATGCATCTGCATGTTG
326 TACGATTGTTTTTGCACGATGAGTCTGAGTTGCATGTCTGGAAACGTAAATGCATCTGCATGTTG
*
55220487 AAGTCTATTGCAATGAGTCAGTCAGGCATGAGTCTGCATGTTGAGTCTACTTGCGTGTGCTAGTC
391 AAGTCTATTACAATGAGTCAGTCAGGCATGAGTCTGCATGTTGAGTCTACTTGCGTGTGCTAGTC
*
55220552 TGTCGGGACAGTAAACACAAATTCTGATATGGAAGTCCATGGCCATGGCAAGCGAAGACCAAATA
456 CGTCGGGACAGTAAACACAAATTCTGATATGGAAGTCCATGGCCATGGCAAGCGAAGACCAAATA
55220617 GT
521 GT
*
55220619 GTAAGGATTATGTGAGAAAAATGTGAGGGTTCTGTGAGTACCTTATGAACTTTTTTTTT-TCTGT
1 GTAAGGATTATGTGAGAAAAATGTGAGGGTTCTCTGAGTACCTTATGAACTTTTTTTTTGTCTGT
*
55220683 TGCATGTATGTTTATATAGTTATTTCTTCTACATTAAAAGACTGATTTGTGAAACAAAACGAAAG
66 TGCATGTATGTTTATATAGTTATTTCTTCTACATTAAAAGACTAATTTGTGAAACAAAACGAAAG
*
55220748 CTATGCATGTGTGATATACTGATTCTGTGTAAATGTGCATCTGATAACCTTGCATGTGTGGCTTG
131 CTATGCATGTGTGATATACTGATTCTGTGTAAATGTGCATCTGAGAACCTTGCATGTGTGGCTTG
*
55220813 ATGCCTAAATGACAATGCACCTTCGTTATGAAAAGAAAAGTATGAAAACGAAGAATATGCAATAA
196 ATGCCTAAATGACAATGCACCTTCGTTATGAAAAG-AAAGTATGAAAAAGAAGAATATGCAATAA
55220878 AGCATGATTTGAATGATAAGTCTCTATTCTATTGAAAAGTATGCACATGCATGAGTGTGCTTAAA
260 AGCATGATTTGAATGATAAGTCTCTATTCTATTGAAAAGTATGCACATGCATGAGTGTGCTTAAA
55220943 GTACGATTGTTTTTGCACGATGAGTCTGAGTTGCATGTCTGGAAACGTAAATGCATCTGCATGTT
325 GTACGATTGTTTTTGCACGATGAGTCTGAGTTGCATGTCTGGAAACGTAAATGCATCTGCATGTT
*
55221008 GAAGTCTATTACAATGAGTCAGTTAGGCATGAGTCTGCATGTTGAGTCTACTTGCGTGTGCTAGT
390 GAAGTCTATTACAATGAGTCAGTCAGGCATGAGTCTGCATGTTGAGTCTACTTGCGTGTGCTAGT
55221073 CCGTCGGGACAGTAAACACAAATTCTGATATGGAAGTCCATGGCCATGGCAAGCGAAGACCAAAT
455 CCGTCGGGACAGTAAACACAAATTCTGATATGGAAGTCCATGGCCATGGCAAGCGAAGACCAAAT
55221138 AGT
520 AGT
*
55221141 ATAAG
1 GTAAG
55221146 ACCTAGTCAT
Statistics
Matches: 513, Mismatches: 13, Indels: 2
0.97 0.02 0.00
Matches are distributed among these distances:
521 166 0.32
522 347 0.68
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.33
Consensus pattern (522 bp):
GTAAGGATTATGTGAGAAAAATGTGAGGGTTCTCTGAGTACCTTATGAACTTTTTTTTTGTCTGT
TGCATGTATGTTTATATAGTTATTTCTTCTACATTAAAAGACTAATTTGTGAAACAAAACGAAAG
CTATGCATGTGTGATATACTGATTCTGTGTAAATGTGCATCTGAGAACCTTGCATGTGTGGCTTG
ATGCCTAAATGACAATGCACCTTCGTTATGAAAAGAAAGTATGAAAAAGAAGAATATGCAATAAA
GCATGATTTGAATGATAAGTCTCTATTCTATTGAAAAGTATGCACATGCATGAGTGTGCTTAAAG
TACGATTGTTTTTGCACGATGAGTCTGAGTTGCATGTCTGGAAACGTAAATGCATCTGCATGTTG
AAGTCTATTACAATGAGTCAGTCAGGCATGAGTCTGCATGTTGAGTCTACTTGCGTGTGCTAGTC
CGTCGGGACAGTAAACACAAATTCTGATATGGAAGTCCATGGCCATGGCAAGCGAAGACCAAATA
GT
Found at i:55222924 original size:39 final size:39
Alignment explanation
Indices: 55222870--55223088 Score: 296
Period size: 39 Copynumber: 5.6 Consensus size: 39
55222860 AACATGTTTT
* *
55222870 TGAGTATTGCGATATATGTTTAAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
* * *
55222909 TGAGTATTGTGATATATGTTTGAATGTTATGTTATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
* *
55222948 TAAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
* *
55222987 TGA-TAATTATGATATATGCTTAAATTTTATGTGATTATA
1 TGAGT-ATTGTGATATATGCTTAAATGTTATGTGATTATA
* *
55223026 TGAGTATTATGGTATATGCTTAAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
* * *
55223065 TGTGTAATGTGATATATACTTAAA
1 TGAGTATTGTGATATATGCTTAAA
55223089 AGTGAAAATG
Statistics
Matches: 161, Mismatches: 17, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
38 1 0.01
39 159 0.99
40 1 0.01
ACGTcount: A:0.32, C:0.02, G:0.19, T:0.47
Consensus pattern (39 bp):
TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
Found at i:55230527 original size:36 final size:36
Alignment explanation
Indices: 55230474--55230545 Score: 108
Period size: 36 Copynumber: 2.0 Consensus size: 36
55230464 GCTCTAGGTT
* **
55230474 AGTTTAAGCTATTGTTGCTATAATTGTCTGCAAAGG
1 AGTTTAAGCTATCGTTGCTATAATCATCTGCAAAGG
*
55230510 AGTTTAAGCTCTCGTTGCTATAATCATCTGCAAAGG
1 AGTTTAAGCTATCGTTGCTATAATCATCTGCAAAGG
55230546 GGAACTAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (36 bp):
AGTTTAAGCTATCGTTGCTATAATCATCTGCAAAGG
Found at i:55235274 original size:30 final size:29
Alignment explanation
Indices: 55235238--55235305 Score: 109
Period size: 30 Copynumber: 2.3 Consensus size: 29
55235228 CCCTGTTAAG
*
55235238 AAACATTTAGACCCCAAAATTAAAAAATAA
1 AAACATTTAGACCCCAAAACTAAAAAAT-A
*
55235268 AAACATTTAGACCCCAAAACTAAATAATA
1 AAACATTTAGACCCCAAAACTAAAAAATA
55235297 AAACATTTA
1 AAACATTTA
55235306 ACCAAGAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
29 10 0.28
30 26 0.72
ACGTcount: A:0.57, C:0.18, G:0.03, T:0.22
Consensus pattern (29 bp):
AAACATTTAGACCCCAAAACTAAAAAATA
Found at i:55240741 original size:49 final size:49
Alignment explanation
Indices: 55240677--55240955 Score: 193
Period size: 50 Copynumber: 5.5 Consensus size: 49
55240667 CAAAGCTATG
* * *
55240677 TCCCAGACATAGTCTTACATGGGATGTTTTC-TGTAC-TGCCAATGCCATA
1 TCCCAGACATGGTCTTACATGGGA-GTTCTCATAT-CGTGCCAATGCCATA
* * *
55240726 TCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATG
1 TCCCAGACATGGTCTTACATGGGAGTTCTCATATC-GTGCCAATGCCATA
** ** * * *
55240776 TCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAACGCCATG
1 TCCCAGACATGGTCTTACATGGGAGTTCTCATATC-GTGCCAATGCCATA
* ** * * * ** *
55240826 TCCCAAACATGGTCTTACATGGGACCTCTCATCTTGGTTCCAACACCATG
1 TCCCAGACATGGTCTTACATGGGAGTTCTCAT-ATCGTGCCAATGCCATA
* * ** *
55240876 TCCCGGACATGGTCTTACATAGGACCTCTCATAATCTCAGTGATGCCAATGCCATG
1 TCCCAGACATGGTCTTACATGGGAGTTCTCAT-A--TC---G-TGCCAATGCCATA
55240932 TCCCAGACATGGTCTTACATGGGA
1 TCCCAGACATGGTCTTACATGGGA
55240956 TCTCATTCCC
Statistics
Matches: 188, Mismatches: 32, Indels: 13
0.81 0.14 0.06
Matches are distributed among these distances:
48 6 0.03
49 24 0.13
50 123 0.65
51 1 0.01
52 1 0.01
55 1 0.01
56 32 0.17
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.28
Consensus pattern (49 bp):
TCCCAGACATGGTCTTACATGGGAGTTCTCATATCGTGCCAATGCCATA
Found at i:55240781 original size:50 final size:50
Alignment explanation
Indices: 55240713--55240955 Score: 279
Period size: 50 Copynumber: 4.7 Consensus size: 50
55240703 TTTTCTGTAC
* * **
55240713 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* ** *
55240763 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * * *
55240813 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* ** * *
55240863 TTCCAACACCATGTCCCGGACATGGTCTTACATAGGACCTCTCATAATCTCAGTG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC-G-G
55240918 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
55240956 TCTCATTCCC
Statistics
Matches: 161, Mismatches: 26, Indels: 6
0.83 0.13 0.03
Matches are distributed among these distances:
50 126 0.78
53 1 0.01
54 1 0.01
55 1 0.01
56 32 0.20
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:55242671 original size:33 final size:33
Alignment explanation
Indices: 55242634--55242697 Score: 128
Period size: 33 Copynumber: 1.9 Consensus size: 33
55242624 GACATTAGTT
55242634 ATGGAATTTCAAAGGTTAATAGTAAGGTTAAAC
1 ATGGAATTTCAAAGGTTAATAGTAAGGTTAAAC
55242667 ATGGAATTTCAAAGGTTAATAGTAAGGTTAA
1 ATGGAATTTCAAAGGTTAATAGTAAGGTTAA
55242698 TAGTAAGGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.42, C:0.05, G:0.22, T:0.31
Consensus pattern (33 bp):
ATGGAATTTCAAAGGTTAATAGTAAGGTTAAAC
Found at i:55242695 original size:12 final size:12
Alignment explanation
Indices: 55242678--55242708 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
55242668 TGGAATTTCA
55242678 AAGGTTAATAGT
1 AAGGTTAATAGT
55242690 AAGGTTAATAGT
1 AAGGTTAATAGT
55242702 AAGGTTA
1 AAGGTTA
55242709 GTAAATTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.26, T:0.32
Consensus pattern (12 bp):
AAGGTTAATAGT
Found at i:55243767 original size:17 final size:17
Alignment explanation
Indices: 55243745--55243787 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
55243735 ACTGCAAGGG
55243745 TCACACGGCTATGTGAC
1 TCACACGGCTATGTGAC
*
55243762 TCACACGGCTGTGTGAC
1 TCACACGGCTATGTGAC
55243779 TCACACGGC
1 TCACACGGC
55243788 CAAGAGACAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.21, C:0.33, G:0.26, T:0.21
Consensus pattern (17 bp):
TCACACGGCTATGTGAC
Found at i:55245248 original size:25 final size:25
Alignment explanation
Indices: 55245199--55245338 Score: 131
Period size: 25 Copynumber: 5.6 Consensus size: 25
55245189 GTACATGTAT
* *
55245199 GCTCATACAAGCTGTA-AACGATAA
1 GCTCATACGAGCTGAATAACGATAA
* *
55245223 GCTCCTTCGAGCTGAATAACGATAA
1 GCTCATACGAGCTGAATAACGATAA
* *
55245248 GCTCCT-CTGAGCTGAATAACGGTAA
1 GCTCATAC-GAGCTGAATAACGATAA
* * *
55245273 GCTTATACGAGCTGAGTATCGATAA
1 GCTCATACGAGCTGAATAACGATAA
* * *
55245298 GCTCATACGAGCTGAGTATCGGTAA
1 GCTCATACGAGCTGAATAACGATAA
* *
55245323 GCTCATAAGACCTGAA
1 GCTCATACGAGCTGAA
55245339 ATCTGTAACC
Statistics
Matches: 98, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
24 13 0.13
25 84 0.86
26 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (25 bp):
GCTCATACGAGCTGAATAACGATAA
Found at i:55246637 original size:59 final size:57
Alignment explanation
Indices: 55246568--55246756 Score: 152
Period size: 59 Copynumber: 3.2 Consensus size: 57
55246558 CTATCAAAAT
55246568 ATGAAAAGGGATAGATTCGACTATCTATTCATGAAAAGGGATGGTGACAACCGTCAATA
1 ATGAAAAGGGATAGATTCGACTATCTATT-ATGAAAAGGGATGGTGA-AACCGTCAATA
* * * * * *
55246627 ATGAAAAGGGAT-GGTGACGACAATCTAAATATGAAAAGGGATAGCTTCGAATATCG--AAT-
1 ATGAAAAGGGATAGAT-TCGACTATCT-ATTATGAAAAGGGAT-G-GT-GAA-ACCGTCAATA
* * * * * *
55246686 ATGAAAAGGGATAGCTTCGGCTATCGAATTATGAAAAGGGATGGTGATGACCATCAACA
1 ATGAAAAGGGATAGATTCGACTATC-TATTATGAAAAGGGATGGTGA-AACCGTCAATA
55246745 ATGAAAAGGGAT
1 ATGAAAAGGGAT
55246757 GGTGACGACC
Statistics
Matches: 101, Mismatches: 17, Indels: 24
0.71 0.12 0.17
Matches are distributed among these distances:
56 4 0.04
57 1 0.01
58 5 0.05
59 76 0.75
60 8 0.08
61 2 0.02
62 5 0.05
ACGTcount: A:0.40, C:0.12, G:0.26, T:0.22
Consensus pattern (57 bp):
ATGAAAAGGGATAGATTCGACTATCTATTATGAAAAGGGATGGTGAAACCGTCAATA
Found at i:55246696 original size:29 final size:29
Alignment explanation
Indices: 55246654--55246727 Score: 121
Period size: 29 Copynumber: 2.5 Consensus size: 29
55246644 CGACAATCTA
55246654 AATATGAAAAGGGATAGCTTCGAATATCG
1 AATATGAAAAGGGATAGCTTCGAATATCG
**
55246683 AATATGAAAAGGGATAGCTTCGGCTATCG
1 AATATGAAAAGGGATAGCTTCGAATATCG
55246712 AATTATGAAAAGGGAT
1 AA-TATGAAAAGGGAT
55246728 GGTGATGACC
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
29 29 0.69
30 13 0.31
ACGTcount: A:0.41, C:0.09, G:0.26, T:0.24
Consensus pattern (29 bp):
AATATGAAAAGGGATAGCTTCGAATATCG
Found at i:55246758 original size:29 final size:30
Alignment explanation
Indices: 55246715--55246821 Score: 137
Period size: 30 Copynumber: 3.6 Consensus size: 30
55246705 GCTATCGAAT
55246715 TATGAAAAGGGATGGTGATGACCATC-AAC
1 TATGAAAAGGGATGGTGATGACCATCAAAC
* * *
55246744 AATGAAAAGGGATGGTGACGACCATCGAAC
1 TATGAAAAGGGATGGTGATGACCATCAAAC
* * *
55246774 TATGAAAAGGGATAGGT-TTGGCTATCAAAC
1 TATGAAAAGGGAT-GGTGATGACCATCAAAC
55246804 TATGAAAAGGGATGGTGA
1 TATGAAAAGGGATGGTGA
55246822 CAACCATCGT
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
29 27 0.41
30 36 0.55
31 3 0.05
ACGTcount: A:0.38, C:0.11, G:0.30, T:0.21
Consensus pattern (30 bp):
TATGAAAAGGGATGGTGATGACCATCAAAC
Found at i:55246771 original size:59 final size:60
Alignment explanation
Indices: 55246626--55246830 Score: 186
Period size: 59 Copynumber: 3.5 Consensus size: 60
55246616 AACCGTCAAT
* * * ** *
55246626 AATGAAAAGGGATGGTGACGACAATCTAAATATGAAAAGGGATAGCT-TCGAATATCGAA-
1 AATGAAAAGGGATGGTGACGACCATCGAAATATGAAAAGGGATAGGTAT-GACCATCAAAC
* * * * * *
55246685 TATGAAAAGGGATAGCT-TCGGCTATCGAATTATGAAAAGGGAT-GGTGATGACCATC-AAC
1 AATGAAAAGGGAT-GGTGACGACCATCGAAATATGAAAAGGGATAGGT-ATGACCATCAAAC
* * * *
55246744 AATGAAAAGGGATGGTGACGACCATCGAACTATGAAAAGGGATAGGTTTGGCTATCAAAC
1 AATGAAAAGGGATGGTGACGACCATCGAAATATGAAAAGGGATAGGTATGACCATCAAAC
* *
55246804 TATGAAAAGGGATGGTGACAACCATCG
1 AATGAAAAGGGATGGTGACGACCATCG
55246831 TGATTTTACT
Statistics
Matches: 118, Mismatches: 21, Indels: 13
0.78 0.14 0.09
Matches are distributed among these distances:
58 6 0.05
59 78 0.66
60 34 0.29
ACGTcount: A:0.39, C:0.13, G:0.27, T:0.21
Consensus pattern (60 bp):
AATGAAAAGGGATGGTGACGACCATCGAAATATGAAAAGGGATAGGTATGACCATCAAAC
Found at i:55246778 original size:118 final size:118
Alignment explanation
Indices: 55246559--55246816 Score: 347
Period size: 118 Copynumber: 2.2 Consensus size: 118
55246549 TAACTTTAGC
* *
55246559 TATCAAAATATGAAAAGGGATAGATTCGACTATCTATTCATGAAAAGGGATGGTGACAACCGTCA
1 TATC-AAATATGAAAAGGGATAGATTCGACTATCAATTCATGAAAAGGGATGGTGACAACCATCA
* *
55246624 ATAATGAAAAGGGATGGTGACGACAATCTAAATATGAAAAGGGATAGCTTCGAA
65 ACAATGAAAAGGGATGGTGACGACAATCGAAATATGAAAAGGGATAGCTTCGAA
* * * **
55246678 TATCGAATATGAAAAGGGATAGCTTCGGCTATCGAATT-ATGAAAAGGGATGGTGATGACCATCA
1 TATCAAATATGAAAAGGGATAGATTCGACTATC-AATTCATGAAAAGGGATGGTGACAACCATCA
* * * * **
55246742 ACAATGAAAAGGGATGGTGACGACCATCGAACTATGAAAAGGGATAGGTTTGGC
65 ACAATGAAAAGGGATGGTGACGACAATCGAAATATGAAAAGGGATAGCTTCGAA
55246796 TATCAAACTATGAAAAGGGAT
1 TATCAAA-TATGAAAAGGGAT
55246817 GGTGACAACC
Statistics
Matches: 121, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
118 101 0.83
119 20 0.17
ACGTcount: A:0.40, C:0.12, G:0.26, T:0.22
Consensus pattern (118 bp):
TATCAAATATGAAAAGGGATAGATTCGACTATCAATTCATGAAAAGGGATGGTGACAACCATCAA
CAATGAAAAGGGATGGTGACGACAATCGAAATATGAAAAGGGATAGCTTCGAA
Found at i:55246828 original size:89 final size:89
Alignment explanation
Indices: 55246627--55246829 Score: 259
Period size: 89 Copynumber: 2.3 Consensus size: 89
55246617 ACCGTCAATA
* * *
55246627 ATGAAAAGGGATGGTGACGACAATCTAAATATGAAAAGGGATAGCTTCGAATATCGAATATGAAA
1 ATGAAAAGGGATGGTGACGACCATCTAAATATGAAAAGGGATAGCTACGAACATCGAATATGAAA
* *
55246692 AGGGATAGCTTCGGCTATCGAATT
66 AGGGATAGCTTCGGCTATCAAACT
* * *
55246716 ATGAAAAGGGATGGTGATGACCATC-AACA-ATGAAAAGGGAT-GGTGACGACCATCGAACTATG
1 ATGAAAAGGGATGGTGACGACCATCTAA-ATATGAAAAGGGATAGCT-ACGAACATCGAA-TATG
* *
55246778 AAAAGGGATAGGTTTGGCTATCAAACT
63 AAAAGGGATAGCTTCGGCTATCAAACT
*
55246805 ATGAAAAGGGATGGTGACAACCATC
1 ATGAAAAGGGATGGTGACGACCATC
55246830 GTGATTTTAC
Statistics
Matches: 99, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
87 2 0.02
88 23 0.23
89 74 0.75
ACGTcount: A:0.39, C:0.13, G:0.27, T:0.21
Consensus pattern (89 bp):
ATGAAAAGGGATGGTGACGACCATCTAAATATGAAAAGGGATAGCTACGAACATCGAATATGAAA
AGGGATAGCTTCGGCTATCAAACT
Found at i:55249264 original size:8 final size:8
Alignment explanation
Indices: 55249251--55249278 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
55249241 ATAATAAATA
55249251 TTTTTTAT
1 TTTTTTAT
55249259 TTTTTTAT
1 TTTTTTAT
55249267 TTTTTTAT
1 TTTTTTAT
55249275 TTTT
1 TTTT
55249279 AAAATATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (8 bp):
TTTTTTAT
Found at i:55249300 original size:12 final size:11
Alignment explanation
Indices: 55249272--55249301 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
55249262 TTTATTTTTT
55249272 TATTTTTAAAA
1 TATTTTTAAAA
55249283 TATTTTTAAAA
1 TATTTTTAAAA
55249294 TACTTTTT
1 TA-TTTTT
55249302 TAATTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (11 bp):
TATTTTTAAAA
Found at i:55249311 original size:9 final size:9
Alignment explanation
Indices: 55249251--55249317 Score: 50
Period size: 8 Copynumber: 7.3 Consensus size: 9
55249241 ATAATAAATA
55249251 TTTTTT-AT
1 TTTTTTAAT
55249259 TTTTTT-AT
1 TTTTTTAAT
55249267 TTTTTT-AT
1 TTTTTTAAT
**
55249275 TTTTAAAAT
1 TTTTTTAAT
*
55249284 ATTTTTAAAAT
1 -TTTTT-TAAT
55249295 ACTTTTTTAAT
1 --TTTTTTAAT
55249306 TTTTTTAAT
1 TTTTTTAAT
55249315 TTT
1 TTT
55249318 AAAATACTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
8 20 0.40
9 14 0.28
10 4 0.08
11 7 0.14
12 5 0.10
ACGTcount: A:0.25, C:0.01, G:0.00, T:0.73
Consensus pattern (9 bp):
TTTTTTAAT
Found at i:55249318 original size:28 final size:32
Alignment explanation
Indices: 55249284--55249355 Score: 107
Period size: 28 Copynumber: 2.4 Consensus size: 32
55249274 TTTTTAAAAT
55249284 ATTTTTAAAATAC-TTTTTTA-ATTT-TTTTA
1 ATTTTTAAAATACTTTTTTTATATTTGTTTTA
*
55249313 A-TTTTAAAATACTTTTTTTATTTTTGTTTTA
1 ATTTTTAAAATACTTTTTTTATATTTGTTTTA
55249344 ATTTTTAAAATA
1 ATTTTTAAAATA
55249356 AAATTTTGGT
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
28 11 0.29
29 8 0.21
30 3 0.08
31 6 0.16
32 10 0.26
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (32 bp):
ATTTTTAAAATACTTTTTTTATATTTGTTTTA
Found at i:55251160 original size:25 final size:25
Alignment explanation
Indices: 55251126--55251175 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
55251116 ACATGTACGC
* *
55251126 TTGCAGTAAAATTGAGGTTTAAAAA
1 TTGCAGTAAAATCGAGCTTTAAAAA
55251151 TTGCAGTAAAATCGAGCTTTAAAAA
1 TTGCAGTAAAATCGAGCTTTAAAAA
55251176 CTGACATGCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.44, C:0.08, G:0.18, T:0.30
Consensus pattern (25 bp):
TTGCAGTAAAATCGAGCTTTAAAAA
Found at i:55260113 original size:9 final size:9
Alignment explanation
Indices: 55260091--55260150 Score: 59
Period size: 9 Copynumber: 6.4 Consensus size: 9
55260081 AATTTTGAAT
*
55260091 TTTTATGAAT
1 TTTTAT-AAA
55260101 TTTTATAAA
1 TTTTATAAA
55260110 TTTTATAAA
1 TTTTATAAA
*
55260119 TATTGATAAA
1 T-TTTATAAA
*
55260129 TATTATAAA
1 TTTTATAAA
55260138 TTATTAT-AA
1 TT-TTATAAA
55260147 TTTT
1 TTTT
55260151 TTATAGGTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
8 2 0.05
9 23 0.53
10 18 0.42
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (9 bp):
TTTTATAAA
Found at i:55260115 original size:19 final size:19
Alignment explanation
Indices: 55260091--55260150 Score: 68
Period size: 19 Copynumber: 3.2 Consensus size: 19
55260081 AATTTTGAAT
*
55260091 TTTTATGAATTTTTATAAA
1 TTTTATAAATTTTTATAAA
* *
55260110 TTTTATAAATATTGATAAA
1 TTTTATAAATTTTTATAAA
* *
55260129 TATTATAAATTATTAT-AA
1 TTTTATAAATTTTTATAAA
55260147 TTTT
1 TTTT
55260151 TTATAGGTTT
Statistics
Matches: 33, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
18 5 0.15
19 28 0.85
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (19 bp):
TTTTATAAATTTTTATAAA
Found at i:55260127 original size:10 final size:9
Alignment explanation
Indices: 55260103--55260146 Score: 61
Period size: 10 Copynumber: 4.7 Consensus size: 9
55260093 TTATGAATTT
*
55260103 TTATAAATT
1 TTATAAATA
55260112 TTATAAATA
1 TTATAAATA
55260121 TTGATAAATA
1 TT-ATAAATA
55260131 TTATAAATTA
1 TTATAAA-TA
55260141 TTATAA
1 TTATAA
55260147 TTTTTTATAG
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
9 15 0.47
10 17 0.53
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (9 bp):
TTATAAATA
Found at i:55267632 original size:41 final size:40
Alignment explanation
Indices: 55267579--55267682 Score: 129
Period size: 41 Copynumber: 2.6 Consensus size: 40
55267569 TTTTCAAATC
* * *
55267579 AATGAATAGGTTGAAAAGGATGTT-TCCTGAAAAGGATATCA
1 AATGAAAAGGTTGAAAAGGATATTATCC-AAAAAGGATAT-A
*
55267620 AATGAAAAGGTTGAAAAGGGTATTATCCAAAAAGGATATA
1 AATGAAAAGGTTGAAAAGGATATTATCCAAAAAGGATATA
* *
55267660 AAAGAAAAGGTCGAAAAGGATAT
1 AATGAAAAGGTTGAAAAGGATAT
55267683 CAATGAAAAT
Statistics
Matches: 55, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
40 21 0.38
41 31 0.56
42 3 0.05
ACGTcount: A:0.48, C:0.06, G:0.24, T:0.22
Consensus pattern (40 bp):
AATGAAAAGGTTGAAAAGGATATTATCCAAAAAGGATATA
Found at i:55267679 original size:24 final size:24
Alignment explanation
Indices: 55267647--55267700 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
55267637 GGGTATTATC
55267647 CAAAAAGGATATAAAAGAAAAGGT
1 CAAAAAGGATATAAAAGAAAAGGT
* * * *
55267671 CGAAAAGGATATCAATGAAAATGT
1 CAAAAAGGATATAAAAGAAAAGGT
55267695 CAAAAA
1 CAAAAA
55267701 TGTAACACCC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.59, C:0.07, G:0.19, T:0.15
Consensus pattern (24 bp):
CAAAAAGGATATAAAAGAAAAGGT
Found at i:55267778 original size:21 final size:21
Alignment explanation
Indices: 55267754--55267820 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 21
55267744 GAGTATTACT
55267754 ATACAATTTGAACATTAAATC
1 ATACAATTTGAACATTAAATC
* * *
55267775 ATACAA-TT-CATATT-ACT-
1 ATACAATTTGAACATTAAATC
*
55267792 ATAGAATTTGAACATTAAATC
1 ATACAATTTGAACATTAAATC
55267813 ATACAATT
1 ATACAATT
55267821 CATACATTGA
Statistics
Matches: 34, Mismatches: 8, Indels: 8
0.68 0.16 0.16
Matches are distributed among these distances:
17 5 0.15
18 4 0.12
19 8 0.24
20 4 0.12
21 13 0.38
ACGTcount: A:0.46, C:0.13, G:0.04, T:0.36
Consensus pattern (21 bp):
ATACAATTTGAACATTAAATC
Found at i:55267800 original size:38 final size:38
Alignment explanation
Indices: 55267747--55267824 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
55267737 GGTTACGGAG
55267747 TATTACTATACAATTTGAACATTAAATCATACAATTCA
1 TATTACTATACAATTTGAACATTAAATCATACAATTCA
*
55267785 TATTACTATAGAATTTGAACATTAAATCATACAATTCA
1 TATTACTATACAATTTGAACATTAAATCATACAATTCA
55267823 TA
1 TA
55267825 CATTGACATA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.45, C:0.14, G:0.04, T:0.37
Consensus pattern (38 bp):
TATTACTATACAATTTGAACATTAAATCATACAATTCA
Found at i:55267827 original size:21 final size:21
Alignment explanation
Indices: 55267765--55267828 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
55267755 TACAATTTGA
55267765 ACATTAAATCATACAATTCAT
1 ACATTAAATCATACAATTCAT
* * *
55267786 --ATT-ACT-ATAGAATTTGA-
1 ACATTAAATCATACAA-TTCAT
55267803 ACATTAAATCATACAATTCAT
1 ACATTAAATCATACAATTCAT
55267824 ACATT
1 ACATT
55267829 GACATAACAT
Statistics
Matches: 31, Mismatches: 6, Indels: 12
0.63 0.12 0.24
Matches are distributed among these distances:
17 5 0.16
18 5 0.16
19 6 0.19
20 5 0.16
21 10 0.32
ACGTcount: A:0.45, C:0.16, G:0.03, T:0.36
Consensus pattern (21 bp):
ACATTAAATCATACAATTCAT
Found at i:55277644 original size:38 final size:38
Alignment explanation
Indices: 55277593--55277668 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
55277583 GTTTCAATCT
55277593 ACTTACTGTTTTGGTGTTCTTGGCAGATTCGGCTTGTG
1 ACTTACTGTTTTGGTGTTCTTGGCAGATTCGGCTTGTG
*
55277631 ACTTACTGTTTTGGTGTTCTTGGTAGATTCGGCTTGTG
1 ACTTACTGTTTTGGTGTTCTTGGCAGATTCGGCTTGTG
55277669 GGATTTCACT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.11, C:0.14, G:0.29, T:0.46
Consensus pattern (38 bp):
ACTTACTGTTTTGGTGTTCTTGGCAGATTCGGCTTGTG
Found at i:55282843 original size:2 final size:2
Alignment explanation
Indices: 55282836--55282867 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
55282826 ATAAAGAAAA
55282836 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 A
55282868 ACATATGTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:55283241 original size:17 final size:17
Alignment explanation
Indices: 55283210--55283254 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
55283200 ACATAATAGT
* *
55283210 ATTAATAATATTAAAATA
1 ATTAA-AATAATAAAAAA
55283228 ATTAAAATAATAAAAAA
1 ATTAAAATAATAAAAAA
*
55283245 ACTAAAATAA
1 ATTAAAATAA
55283255 CAAATAGAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 19 0.79
18 5 0.21
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (17 bp):
ATTAAAATAATAAAAAA
Found at i:55283680 original size:19 final size:19
Alignment explanation
Indices: 55283656--55283728 Score: 128
Period size: 19 Copynumber: 3.8 Consensus size: 19
55283646 AATCATATCT
55283656 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
55283675 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
*
55283694 TCTAAAATTGCATATCATA
1 TCTAAGATTGCATATCATA
55283713 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
55283729 CTTGAAGATT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 50 1.00
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:55283706 original size:38 final size:39
Alignment explanation
Indices: 55283633--55283728 Score: 131
Period size: 38 Copynumber: 2.4 Consensus size: 39
55283623 AAATTAAATC
* *
55283633 TCTAAGATTACAAAATCATATCTTCTAAGATTGCATATCATA
1 TCTAAGATTAC-ATATCATA--TTCTAAAATTGCATATCATA
55283675 TCTAAGATTACATATCATA-TCTAAAATTGCATATCATA
1 TCTAAGATTACATATCATATTCTAAAATTGCATATCATA
*
55283713 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
55283729 CTTGAAGATT
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
38 33 0.65
41 7 0.14
42 11 0.22
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.36
Consensus pattern (39 bp):
TCTAAGATTACATATCATATTCTAAAATTGCATATCATA
Found at i:55287250 original size:450 final size:449
Alignment explanation
Indices: 55286386--55287284 Score: 1196
Period size: 450 Copynumber: 2.0 Consensus size: 449
55286376 CAAATTTAAC
* * * * * * *
55286386 TTCAGGATTAGGTGGTAAACCTGACAATTCCTCAAGAAATACATCAGTAAATTCATTAATAACTA
1 TTCACGATCAGGTGGCAAACCTGACAATTCCTCAAGAAATACATCAGCAAACTCATTAACAACCA
* ** * * *
55286451 GTAACTATTCTAACTTTAATTTAGAATTTCGAGTATCAAGAAAGTAGGCTAAGAATGCCTCATTA
66 GTAACTATTCTAACTTTAATTTAAAATCCCAAGTATCAAGAAAGTAGGCTAAAAATGCCCCATTA
** * * *
55286516 CCTTTATGCAATAATCTCTGAGCTGGAAAGGTTGAAATAATTCTAACAATGTCTTTTGTATTCCC
131 CCTTTATGCAATAATCTCTGAGCTAAAAAAGCTGAAATAATTCTAACAATGTCTTTTGGATTCCC
* * * *
55286581 AAACTCAACTGAAATTACTTCCCCTGTCTGACATTTTATATCAATCCGTTTTTCTCTACAATTTA
196 AAACTCAACTGAAATTACTTCCCCTGTCTGACATTTCAAATCAATCCATTTCTCTCTACAATTTA
* *
55286646 CTACAGCATCATGCTTTGTTAACCAATCCATTCCCAAAATAACATCAAATTCCCGAAATGGTAGA
261 CTACAGCATCATGCTTCGTTAACCAATCCATTCCCAAAATAACATCAAATTCCCGAAAAGGTAGA
* * * * *
55286711 AACATCAAATCAGTAGGAAATTCACAGTCTTTTACTTTTAGTGGACAATTTCGACACACTAAATT
326 AACATCAAATCAGCAGGAAATTCACAGTCTCTTACTTTCAGTGGACAATATCAACACACTAAATT
* * *
55286776 GACAATTACACTTTGGCGTAATGGATTAGTGACTTGAACATCATAATCAGTAGGTTCAG
391 AACAATTACACTTTGGCCTAATGGATTAGTGACTTGAACATCATAATCAGTAGGGTCAG
** *
55286835 NTTCACGATCAGGTGGCAAACCTGGTAATTCTTC-AGAAAATACATCAGCAAACTCATTAACAAC
1 -TTCACGATCAGGTGGCAAACCTGACAATTCCTCAAG-AAATACATCAGCAAACTCATTAACAAC
* * * * *
55286899 CAGTAACTGTTTTAA-TTTCGATTTAAAATCCCAAGTATCAATAATGTAGGCTAAAAATGCCCCA
64 CAGTAACTATTCTAACTTT-AATTTAAAATCCCAAGTATCAAGAAAGTAGGCTAAAAATGCCCCA
* *
55286963 TTACCTTT-TCGCATTAATCTCTGAGCTAAAAAAGCTGAAATAATTCTAACAATTTCTTTTGGAT
128 TTACCTTTAT-GCAATAATCTCTGAGCTAAAAAAGCTGAAATAATTCTAACAATGTCTTTTGGAT
* * *
55287027 TCTCAGACTCAATTGAAATTACTTCCCCTGTCTGACATTTCAAATCAATCCATTTCTCTCTACAA
192 TCCCAAACTCAACTGAAATTACTTCCCCTGTCTGACATTTCAAATCAATCCATTTCTCTCTACAA
* * * **
55287092 TTTACTACAGCATCATGCTTCGTTAACCAATCCATTCCCAGAATAATATTAAATTCTTGAAAAGG
257 TTTACTACAGCATCATGCTTCGTTAACCAATCCATTCCCAAAATAACATCAAATTCCCGAAAAGG
* * * *
55287157 TAGTAATATTAAATCAGCATGG-AATTCACAGTCTCTTACTTTCAGTGGACAGTCAT-AACACAC
322 TAGAAACATCAAATCAGCA-GGAAATTCACAGTCTCTTACTTTCAGTGGACAAT-ATCAACACAC
* * *
55287220 TAAATTAACTATTACACTTTGGCCTAATGGATTAGTGACTTGTATATCATAATCAGTAGGGTCAG
385 TAAATTAACAATTACACTTTGGCCTAATGGATTAGTGACTTGAACATCATAATCAGTAGGGTCAG
55287285 CAGACAATTT
Statistics
Matches: 387, Mismatches: 57, Indels: 10
0.85 0.13 0.02
Matches are distributed among these distances:
449 6 0.02
450 378 0.98
451 3 0.01
ACGTcount: A:0.34, C:0.20, G:0.13, T:0.33
Consensus pattern (449 bp):
TTCACGATCAGGTGGCAAACCTGACAATTCCTCAAGAAATACATCAGCAAACTCATTAACAACCA
GTAACTATTCTAACTTTAATTTAAAATCCCAAGTATCAAGAAAGTAGGCTAAAAATGCCCCATTA
CCTTTATGCAATAATCTCTGAGCTAAAAAAGCTGAAATAATTCTAACAATGTCTTTTGGATTCCC
AAACTCAACTGAAATTACTTCCCCTGTCTGACATTTCAAATCAATCCATTTCTCTCTACAATTTA
CTACAGCATCATGCTTCGTTAACCAATCCATTCCCAAAATAACATCAAATTCCCGAAAAGGTAGA
AACATCAAATCAGCAGGAAATTCACAGTCTCTTACTTTCAGTGGACAATATCAACACACTAAATT
AACAATTACACTTTGGCCTAATGGATTAGTGACTTGAACATCATAATCAGTAGGGTCAG
Found at i:55293323 original size:42 final size:41
Alignment explanation
Indices: 55293261--55293439 Score: 166
Period size: 42 Copynumber: 4.3 Consensus size: 41
55293251 CGAAGGCTGC
* * * *
55293261 AATGAAGCACATAAGTGCTAAACAGAAACCCGTAAGGGTTA
1 AATGAAGCTCAAAAGAGCTAAACAGAAACCCATAAGGGTTA
* *
55293302 AATGGAAGCTCATAGGAGCTAAAC-GAAAACCCATAAGGGTTA
1 AAT-GAAGCTCAAAAGAGCTAAACAG-AAACCCATAAGGGTTA
* * *
55293344 ATCTGAAGCTCAGAAA-AGCTAAACTGAAACCCATTAGGGTTA
1 A-ATGAAGCTCA-AAAGAGCTAAACAGAAACCCATAAGGGTTA
* *
55293386 AACTGAAGCTCAAAAGAGCTGAACTA-AAACCCAGAAGGGTTA
1 AA-TGAAGCTCAAAAGAGCTAAAC-AGAAACCCATAAGGGTTA
*
55293428 AACTGAAACTCA
1 AA-TGAAGCTCA
55293440 TATGAGTTAA
Statistics
Matches: 116, Mismatches: 14, Indels: 15
0.80 0.10 0.10
Matches are distributed among these distances:
41 7 0.06
42 106 0.91
43 3 0.03
ACGTcount: A:0.44, C:0.18, G:0.21, T:0.17
Consensus pattern (41 bp):
AATGAAGCTCAAAAGAGCTAAACAGAAACCCATAAGGGTTA
Found at i:55293405 original size:84 final size:84
Alignment explanation
Indices: 55293277--55293439 Score: 220
Period size: 84 Copynumber: 1.9 Consensus size: 84
55293267 GCACATAAGT
* * * *
55293277 GCTAAACAGAAACCCGTAAGGGTTAAATGGAAGCTCATAGGAGCTAAACGAAAACCCATAAGGGT
1 GCTAAACAGAAACCCATAAGGGTTAAATGGAAGCTCAAAAGAGCTAAACGAAAACCCAGAAGGGT
* *
55293342 TAATCTGAAGCTCAGAAAA
66 TAAACTGAAACTCAGAAAA
* * * *
55293361 GCTAAACTGAAACCCATTAGGGTTAAACT-GAAGCTCAAAAGAGCTGAACTAAAACCCAGAAGGG
1 GCTAAACAGAAACCCATAAGGGTTAAA-TGGAAGCTCAAAAGAGCTAAACGAAAACCCAGAAGGG
55293425 TTAAACTGAAACTCA
65 TTAAACTGAAACTCA
55293440 TATGAGTTAA
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
84 67 0.99
85 1 0.01
ACGTcount: A:0.43, C:0.19, G:0.21, T:0.17
Consensus pattern (84 bp):
GCTAAACAGAAACCCATAAGGGTTAAATGGAAGCTCAAAAGAGCTAAACGAAAACCCAGAAGGGT
TAAACTGAAACTCAGAAAA
Found at i:55293410 original size:21 final size:21
Alignment explanation
Indices: 55293270--55293472 Score: 97
Period size: 21 Copynumber: 9.7 Consensus size: 21
55293260 CAATGAAGCA
* * *
55293270 CATAAGTGCTAAACAGAAACC
1 CATAAGAGCTAAACTGAAACT
* * * *
55293291 CGTAAGGGTTAAA-TGGAAGCT
1 CATAAGAGCTAAACT-GAAACT
* *
55293312 CATAGGAGCTAAAC-GAAAACC
1 CATAAGAGCTAAACTG-AAACT
* * * *
55293333 CATAAGGGTTAATCTGAAGCT
1 CATAAGAGCTAAACTGAAACT
* * *
55293354 CAGAAAAGCTAAACTGAAACC
1 CATAAGAGCTAAACTGAAACT
* * * *
55293375 CATTAGGGTTAAACTGAAGCT
1 CATAAGAGCTAAACTGAAACT
* * * *
55293396 CAAAAGAGCTGAACTAAAACC
1 CATAAGAGCTAAACTGAAACT
* * *
55293417 CAGAAGGGTTAAACTGAAACT
1 CATAAGAGCTAAACTGAAACT
* * *
55293438 CATATGAG-TTAACTGAAGCT
1 CATAAGAGCTAAACTGAAACT
55293458 CATAAGAGCTAAACT
1 CATAAGAGCTAAACT
55293473 AAAAGCAAGC
Statistics
Matches: 124, Mismatches: 53, Indels: 10
0.66 0.28 0.05
Matches are distributed among these distances:
20 18 0.15
21 105 0.85
22 1 0.01
ACGTcount: A:0.42, C:0.18, G:0.20, T:0.19
Consensus pattern (21 bp):
CATAAGAGCTAAACTGAAACT
Found at i:55300086 original size:22 final size:22
Alignment explanation
Indices: 55300058--55300102 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
55300048 TATTATAACT
*
55300058 TTTTTTTATTTATTAAAATATA
1 TTTTTTTATTTACTAAAATATA
55300080 TTTTTTTATTTACTAAAATATA
1 TTTTTTTATTTACTAAAATATA
55300102 T
1 T
55300103 CAAAAAAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (22 bp):
TTTTTTTATTTACTAAAATATA
Found at i:55300191 original size:27 final size:27
Alignment explanation
Indices: 55300161--55300227 Score: 116
Period size: 27 Copynumber: 2.5 Consensus size: 27
55300151 CGCCAATGGG
55300161 ATTGGCGGCACCAAAGGTGCCAAAACC
1 ATTGGCGGCACCAAAGGTGCCAAAACC
* *
55300188 ATTGGCGGCACCAATGGTGCCAATACC
1 ATTGGCGGCACCAAAGGTGCCAAAACC
55300215 ATTGGCGGCACCA
1 ATTGGCGGCACCA
55300228 GTTAATAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.28, C:0.30, G:0.27, T:0.15
Consensus pattern (27 bp):
ATTGGCGGCACCAAAGGTGCCAAAACC
Found at i:55300279 original size:4 final size:4
Alignment explanation
Indices: 55300270--55300399 Score: 81
Period size: 4 Copynumber: 31.8 Consensus size: 4
55300260 GAAGGAGAGG
* * * *
55300270 GAAA GAAA GAAA GAGA GAAA GAAA GGAGAG GGAA GAAA G-AA -AAA GAAG
1 GAAA GAAA GAAA GAAA GAAA GAAA -GA-AA GAAA GAAA GAAA GAAA GAAA
* *
55300318 GAAA GAAA GGGAAA G-GA GAAGA GAAA AAAA GAAA GAAA G-AA GAAGA
1 GAAA GAAA --GAAA GAAA GAA-A GAAA GAAA GAAA GAAA GAAA GAA-A
* *
55300364 GAAG GAAA GGAGAA GAAA -AAA GAAA GAAT GAAA GAA
1 GAAA GAAA -GA-AA GAAA GAAA GAAA GAAA GAAA GAA
55300400 GAAGAAGAAG
Statistics
Matches: 97, Mismatches: 16, Indels: 26
0.70 0.12 0.19
Matches are distributed among these distances:
3 12 0.12
4 63 0.65
5 15 0.15
6 7 0.07
ACGTcount: A:0.66, C:0.00, G:0.33, T:0.01
Consensus pattern (4 bp):
GAAA
Found at i:55300285 original size:18 final size:18
Alignment explanation
Indices: 55300259--55300326 Score: 67
Period size: 18 Copynumber: 4.1 Consensus size: 18
55300249 GGTGGGGGGC
*
55300259 AGAAGGAGAGGGAAAGAA
1 AGAAAGAGAGGGAAAGAA
55300277 AGAAAGAGA--GAAAGAA
1 AGAAAGAGAGGGAAAGAA
55300293 AG---GAGAGGG-AAGAA
1 AGAAAGAGAGGGAAAGAA
* *
55300307 AGAAAAAGAAGGAAAGAA
1 AGAAAGAGAGGGAAAGAA
55300325 AG
1 AG
55300327 GGAAAGGAGA
Statistics
Matches: 41, Mismatches: 3, Indels: 12
0.73 0.05 0.21
Matches are distributed among these distances:
13 4 0.10
14 7 0.17
15 1 0.02
16 9 0.22
17 5 0.12
18 15 0.37
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (18 bp):
AGAAAGAGAGGGAAAGAA
Found at i:55300349 original size:40 final size:41
Alignment explanation
Indices: 55300272--55300440 Score: 128
Period size: 40 Copynumber: 4.3 Consensus size: 41
55300262 AGGAGAGGGA
* * * *
55300272 AAGAAAGAAAGAGAGAAA--GAAAGGAG-AG-GGAAGAAAG
1 AAGAAAGAAGGAAAGAAAGGGAAAGGAGAAGAGAAAAAAAG
55300309 AA-AAAGAAGGAAAGAAAGGGAAAGGAGAAGAGAAAAAAAG
1 AAGAAAGAAGGAAAGAAAGGGAAAGGAGAAGAGAAAAAAAG
*
55300349 AAAGAAAGAA-G-AAGAGAA-GGAAAGGAGAAGAAAAAAGAAAG
1 -AAGAAAGAAGGAAAGA-AAGGGAAAGGAGAAGAGAAAA-AAAG
*
55300390 AATGAAAGAAGAAGAAGAAGAGGG-AA-G-GAAG-GAAAAAAAG
1 AA-GAAAGAAGGA-AAGAA-AGGGAAAGGAGAAGAGAAAAAAAG
* *
55300430 AAAAAAAAAGG
1 AAGAAAGAAGG
55300441 TAATTTTATT
Statistics
Matches: 108, Mismatches: 10, Indels: 26
0.75 0.07 0.18
Matches are distributed among these distances:
36 13 0.12
37 2 0.02
38 8 0.07
39 8 0.07
40 36 0.33
41 20 0.19
42 10 0.09
43 2 0.02
44 7 0.06
45 2 0.02
ACGTcount: A:0.66, C:0.00, G:0.33, T:0.01
Consensus pattern (41 bp):
AAGAAAGAAGGAAAGAAAGGGAAAGGAGAAGAGAAAAAAAG
Found at i:55300350 original size:44 final size:42
Alignment explanation
Indices: 55300302--55300439 Score: 146
Period size: 40 Copynumber: 3.3 Consensus size: 42
55300292 AAGGAGAGGG
55300302 AAGAAAGAAAAAGAAGGAAAGAAAGGGAAAGGAGAAGAGAAAAA
1 AAGAAAGAAAAAGAA-G-AAGAAAGGGAAAGGAGAAGAGAAAAA
*
55300346 AAGAAAG--AAAGAAGAAGAGAA-GGAAAGGAGAAGAAAAAAGA
1 AAGAAAGAAAAAGAAGAAGA-AAGGGAAAGGAGAAGAGAAAA-A
*
55300387 AAGAATGAAAGAAGAAGAAGAAGAGGG-AA-G-GAAG-GAAAAA
1 AAGAAAGAAA-AAGAAGAAGAA-AGGGAAAGGAGAAGAGAAAAA
*
55300427 AAGAAAAAAAAAG
1 AAGAAAGAAAAAG
55300440 GTAATTTTAT
Statistics
Matches: 82, Mismatches: 5, Indels: 19
0.77 0.05 0.18
Matches are distributed among these distances:
39 3 0.04
40 30 0.37
41 14 0.17
42 10 0.12
43 3 0.04
44 20 0.24
45 2 0.02
ACGTcount: A:0.68, C:0.00, G:0.31, T:0.01
Consensus pattern (42 bp):
AAGAAAGAAAAAGAAGAAGAAAGGGAAAGGAGAAGAGAAAAA
Found at i:55300388 original size:45 final size:45
Alignment explanation
Indices: 55300302--55300436 Score: 129
Period size: 44 Copynumber: 3.0 Consensus size: 45
55300292 AAGGAGAGGG
* * *
55300302 AAGAAAGAAA-AAGAAG-GAAAGAAAGG-GAAAGGAGAAGAGAAAAA
1 AAGAAAGAAAGAAGAAGAGAAGGAAAGGAG-AA-GAAAAAAGAAAAA
*
55300346 AAGAAAGAAAGAAGAAGAGAAGGAAAGGAGAAGAAAAAAGAAAGA
1 AAGAAAGAAAGAAGAAGAGAAGGAAAGGAGAAGAAAAAAGAAAAA
* * *
55300391 ATGAAAG-AAGAAGAAGA-AGAGGGAAGGA-AGGAAAAAAAGAAAAA
1 AAGAAAGAAAGAAGAAGAGA-AGGAAAGGAGAAG-AAAAAAGAAAAA
55300435 AA
1 AA
55300437 AAGGTAATTT
Statistics
Matches: 77, Mismatches: 9, Indels: 10
0.80 0.09 0.10
Matches are distributed among these distances:
43 3 0.04
44 40 0.52
45 22 0.29
46 11 0.14
47 1 0.01
ACGTcount: A:0.68, C:0.00, G:0.31, T:0.01
Consensus pattern (45 bp):
AAGAAAGAAAGAAGAAGAGAAGGAAAGGAGAAGAAAAAAGAAAAA
Found at i:55300397 original size:25 final size:26
Alignment explanation
Indices: 55300272--55300435 Score: 85
Period size: 26 Copynumber: 6.3 Consensus size: 26
55300262 AGGAGAGGGA
* *
55300272 AAGAAAGAAAG-AGAGAAAGAAAGGAG
1 AAGAAA-AAAGAAGAGAAGGAAAGAAG
* * *
55300298 AGGGAAGAAAGAAAAAGAAGGAAAGAA-
1 A-AGAAAAAAG-AAGAGAAGGAAAGAAG
* **
55300325 AGGGAAAGGAGAAGAGAA--AAA-AAG
1 A-AGAAAAAAGAAGAGAAGGAAAGAAG
* *
55300349 AAAGAAAGAAGAAGAGAAGGAAAGGAG
1 -AAGAAAAAAGAAGAGAAGGAAAGAAG
*
55300376 AAGAAAAAAGAA-AGAATGAAAGAAG
1 AAGAAAAAAGAAGAGAAGGAAAGAAG
*
55300401 AAGAAGAAGAGGGAAG-GAAGGAAA-AA-
1 AAGAA-AA-A-AGAAGAGAAGGAAAGAAG
55300427 AAGAAAAAA
1 AAGAAAAAA
55300436 AAAGGTAATT
Statistics
Matches: 108, Mismatches: 18, Indels: 27
0.71 0.12 0.18
Matches are distributed among these distances:
23 2 0.02
24 18 0.17
25 19 0.18
26 32 0.30
27 16 0.15
28 21 0.19
ACGTcount: A:0.66, C:0.00, G:0.33, T:0.01
Consensus pattern (26 bp):
AAGAAAAAAGAAGAGAAGGAAAGAAG
Found at i:55300402 original size:41 final size:40
Alignment explanation
Indices: 55300272--55300409 Score: 135
Period size: 40 Copynumber: 3.5 Consensus size: 40
55300262 AGGAGAGGGA
* * *
55300272 AAGAAAGAA-AGAGAGAAAGAAAGGAGAGGGAAGAAAGAAA-
1 AAGAAAGAAGA-AGAGAAGGAAAGGAGA-AGAAAAAAGAAAG
* *
55300312 AAG-AAGGA-AAGA-AAGGGAAAGGAGAAGAGAAAA-AAAG
1 AAGAAAGAAGAAGAGAA-GGAAAGGAGAAGAAAAAAGAAAG
55300349 AAAGAAAGAAGAAGAGAAGGAAAGGAGAAGAAAAAAGAAAG
1 -AAGAAAGAAGAAGAGAAGGAAAGGAGAAGAAAAAAGAAAG
55300390 AATGAAAGAAGAAGAAGAAG
1 AA-GAAAGAAGAAG-AGAAG
55300410 AGGGAAGGAA
Statistics
Matches: 82, Mismatches: 7, Indels: 16
0.78 0.07 0.15
Matches are distributed among these distances:
36 3 0.04
37 7 0.09
38 15 0.18
39 9 0.11
40 26 0.32
41 17 0.21
42 5 0.06
ACGTcount: A:0.66, C:0.00, G:0.33, T:0.01
Consensus pattern (40 bp):
AAGAAAGAAGAAGAGAAGGAAAGGAGAAGAAAAAAGAAAG
Found at i:55301668 original size:159 final size:156
Alignment explanation
Indices: 55301234--55301680 Score: 396
Period size: 159 Copynumber: 2.8 Consensus size: 156
55301224 TTCCCCCTTA
* * * *
55301234 ACACTAAATTAATAAATTTCAAACATGATGCACTGAAATAATATAAAATTATAAAAGACTAAGTT
1 ACACTAAA-TAATAAATTTCAAACATAATGCACTGAAATAATATAAAATTATAAAATA-GAA-AT
55301299 TATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAATGGCAGAAGTAAGAGT
63 TATGATATTTTTTAAAGTAATAAAATGC-GAG-AAAAAATACGAACAAATGGCAGAAGTAAGAGT
* * *
55301364 GTATTACTAACTTTTATAAAATTCAGAAATAATT
126 GTATTA-T-A-TTTTACAAAATTAAGAAATAATC
* * * **
55301398 A-A-TACAA-AAT--ATTTCAAAGAAAATGTACTGAAATAATATAAAACAATAAAATACGAGAAT
1 ACACTA-AATAATAAATTTCAAACATAATGCACTGAAATAATATAAAATTATAAAATA-GA-AAT
* * **
55301458 AAT-ATAATTTTATTTAAAGTAATAAAAAT-CGAGAAAATAATACGAGCAAATGGCAGGGGTAAG
63 TATGAT-A-TTT-TTTAAAGTAAT-AAAATGCGAGAAAA-AATACGAACAAATGGCAGAAGTAAG
* *
55301521 GGT-TATT-T-TTTTACACCAAATTAATTTAAATAA-C
123 AGTGTATTATATTTTACA--AAATTAA--GAAATAATC
* *
55301555 ACACTAGAGTAATAAATTTCAAACATTATGCACTGAAATAATGA-AAAATTATAAAATTAGAAAT
1 ACACTA-AATAATAAATTTCAAACATAATGCACTGAAATAAT-ATAAAATTATAAAA-TAGAAAT
* *
55301619 TATGATATTTTTTAAAGTAATAAAATGCGAAGAAAAAATACGAATAAATGGCTGAAGTAAGA
63 TATGATATTTTTTAAAGTAATAAAATGCG-AGAAAAAATACGAACAAATGGCAGAAGTAAGA
55301681 TTTATTTACT
Statistics
Matches: 229, Mismatches: 33, Indels: 47
0.74 0.11 0.15
Matches are distributed among these distances:
154 6 0.03
156 6 0.03
157 2 0.01
158 14 0.06
159 86 0.38
160 43 0.19
161 21 0.09
162 44 0.19
163 6 0.03
164 1 0.00
ACGTcount: A:0.51, C:0.08, G:0.13, T:0.29
Consensus pattern (156 bp):
ACACTAAATAATAAATTTCAAACATAATGCACTGAAATAATATAAAATTATAAAATAGAAATTAT
GATATTTTTTAAAGTAATAAAATGCGAGAAAAAATACGAACAAATGGCAGAAGTAAGAGTGTATT
ATATTTTACAAAATTAAGAAATAATC
Found at i:55307506 original size:15 final size:12
Alignment explanation
Indices: 55307469--55307499 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
55307459 AAAAAAATTT
*
55307469 ATACTCAAAATA
1 ATACACAAAATA
55307481 ATACACAAAATA
1 ATACACAAAATA
55307493 ATACACA
1 ATACACA
55307500 CTAAAATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.61, C:0.19, G:0.00, T:0.19
Consensus pattern (12 bp):
ATACACAAAATA
Done.