Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 18 of 213
Found at i:4878161 original size:21 final size:21
Alignment explanation
Indices: 4878137--4878199 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
4878127 TATTTACAAA
4878137 TTATCACACCTTTTGGCCAAT
1 TTATCACACCTTTTGGCCAAT
* * *
4878158 TTATTACCCCATTTT----TA-
1 TTATCACACC-TTTTGGCCAAT
4878175 TTATCACACCTTTTGGCCAAT
1 TTATCACACCTTTTGGCCAAT
4878196 TTAT
1 TTAT
4878200 TACCCCATTT
Statistics
Matches: 30, Mismatches: 6, Indels: 12
0.62 0.12 0.25
Matches are distributed among these distances:
16 4 0.13
17 8 0.27
18 1 0.03
20 1 0.03
21 12 0.40
22 4 0.13
ACGTcount: A:0.24, C:0.25, G:0.06, T:0.44
Consensus pattern (21 bp):
TTATCACACCTTTTGGCCAAT
Found at i:4878187 original size:38 final size:38
Alignment explanation
Indices: 4878136--4878212 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
4878126 GTATTTACAA
4878136 ATTATCACACCTTTTGGCCAATTTATTACCCCATTTTT
1 ATTATCACACCTTTTGGCCAATTTATTACCCCATTTTT
4878174 ATTATCACACCTTTTGGCCAATTTATTACCCCATTTTT
1 ATTATCACACCTTTTGGCCAATTTATTACCCCATTTTT
4878212 A
1 A
4878213 CTTGTTTTGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.25, C:0.26, G:0.05, T:0.44
Consensus pattern (38 bp):
ATTATCACACCTTTTGGCCAATTTATTACCCCATTTTT
Found at i:4881611 original size:21 final size:22
Alignment explanation
Indices: 4881568--4881616 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
4881558 TGATACATTA
**
4881568 ATTATTATA-TATGTTTTGTTT
1 ATTATTATATTATGTAATGTTT
4881589 ATTATTATATTATGTAATGTTAT
1 ATTATTATATTATGTAATGTT-T
4881612 ATTAT
1 ATTAT
4881617 ATCATATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 9 0.38
22 9 0.38
23 6 0.25
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.61
Consensus pattern (22 bp):
ATTATTATATTATGTAATGTTT
Found at i:4886701 original size:18 final size:18
Alignment explanation
Indices: 4886678--4886714 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
4886668 TCACAAACTT
* *
4886678 AAGTATGTTTATGTCACA
1 AAGTATGCTTACGTCACA
4886696 AAGTATGCTTACGTCACA
1 AAGTATGCTTACGTCACA
4886714 A
1 A
4886715 CCTAAATCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.32
Consensus pattern (18 bp):
AAGTATGCTTACGTCACA
Found at i:4889223 original size:40 final size:37
Alignment explanation
Indices: 4889129--4889236 Score: 110
Period size: 40 Copynumber: 2.8 Consensus size: 37
4889119 CTGACCTTGC
* *
4889129 CCGAATTATATATAAAATATATATTTTTGTTTTTAAT
1 CCGAATTATATATTAAATATATATTTTTGCTTTTAAT
* *
4889166 -CAAATATACTTTTTATTAAATATATATATTTTGAACTTTTAAT
1 CCGAAT-TA---TATATTAAATATATAT-TTTTG--CTTTTAAT
4889209 CCGAATTATATATTAAATATATATTTTT
1 CCGAATTATATATTAAATATATATTTTT
4889237 TCATTTTTAA
Statistics
Matches: 57, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
36 4 0.07
37 2 0.04
39 4 0.07
40 29 0.51
41 5 0.09
43 9 0.16
44 4 0.07
ACGTcount: A:0.39, C:0.06, G:0.04, T:0.51
Consensus pattern (37 bp):
CCGAATTATATATTAAATATATATTTTTGCTTTTAAT
Found at i:4889793 original size:18 final size:18
Alignment explanation
Indices: 4889770--4889806 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
4889760 TCACAAACTT
4889770 AAGTATGTTTATGTCACA
1 AAGTATGTTTATGTCACA
4889788 AAGTATGTTTATGTCACA
1 AAGTATGTTTATGTCACA
4889806 A
1 A
4889807 CCTAAATCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.38
Consensus pattern (18 bp):
AAGTATGTTTATGTCACA
Found at i:4889826 original size:32 final size:32
Alignment explanation
Indices: 4889790--4889851 Score: 124
Period size: 32 Copynumber: 1.9 Consensus size: 32
4889780 ATGTCACAAA
4889790 GTATGTTTATGTCACAACCTAAATCATCATAT
1 GTATGTTTATGTCACAACCTAAATCATCATAT
4889822 GTATGTTTATGTCACAACCTAAATCATCAT
1 GTATGTTTATGTCACAACCTAAATCATCAT
4889852 TTTAAATAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.34, C:0.19, G:0.10, T:0.37
Consensus pattern (32 bp):
GTATGTTTATGTCACAACCTAAATCATCATAT
Found at i:4902478 original size:23 final size:23
Alignment explanation
Indices: 4902452--4902496 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
4902442 TTATATTATC
4902452 TTAA-ATAGTATTAAAAATTAATA
1 TTAATATA-TATTAAAAATTAATA
* *
4902475 TTAATTTATCTTAAAAATTAAT
1 TTAATATATATTAAAAATTAAT
4902497 GATACATCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 17 0.89
24 2 0.11
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (23 bp):
TTAATATATATTAAAAATTAATA
Found at i:4902787 original size:23 final size:21
Alignment explanation
Indices: 4902749--4902797 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
4902739 ACAATAATTA
*
4902749 TTATATATTTTTTAAAAATAAT
1 TTATATAGTTTTT-AAAATAAT
4902771 TTATGATAGTTTTTAAAATAA-
1 TTAT-ATAGTTTTTAAAATAAT
4902792 TTATAT
1 TTATAT
4902798 TTTAAATTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 2 0.08
21 4 0.16
22 11 0.44
23 8 0.32
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (21 bp):
TTATATAGTTTTTAAAATAAT
Found at i:4902807 original size:21 final size:21
Alignment explanation
Indices: 4902783--4902830 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
4902773 ATGATAGTTT
*
4902783 TTAAAATAATTATAT-TTTAAA
1 TTAAAATAATT-TATCTATAAA
*
4902804 TT-AAATAATTTATCTATGAA
1 TTAAAATAATTTATCTATAAA
4902824 TTAAAAT
1 TTAAAAT
4902831 TTAATATTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.13
20 14 0.61
21 6 0.26
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (21 bp):
TTAAAATAATTTATCTATAAA
Found at i:4907514 original size:18 final size:18
Alignment explanation
Indices: 4907468--4907516 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 18
4907458 AGTTTATTAA
4907468 TATT-TTAATTTGATTTTT
1 TATTATTAATTT-ATTTTT
*
4907486 TATGA-T-A-TTATTTTT
1 TATTATTAATTTATTTTT
4907501 TATTATTAATTTATTT
1 TATTATTAATTTATTT
4907517 AGTATATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 8
0.71 0.06 0.23
Matches are distributed among these distances:
15 10 0.40
16 3 0.12
17 2 0.08
18 10 0.40
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (18 bp):
TATTATTAATTTATTTTT
Found at i:4912048 original size:16 final size:16
Alignment explanation
Indices: 4912027--4912094 Score: 102
Period size: 16 Copynumber: 4.2 Consensus size: 16
4912017 TTTGGTTCGC
4912027 TGTATTGGATTAGAGA
1 TGTATTGGATTAGAGA
4912043 TGTATTGGATTAGA-A
1 TGTATTGGATTAGAGA
*
4912058 GTGTATTGGATTAGAGG
1 -TGTATTGGATTAGAGA
*
4912075 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGA
4912091 TGTA
1 TGTA
4912095 ATAGCAAATC
Statistics
Matches: 49, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
15 1 0.02
16 48 0.98
ACGTcount: A:0.28, C:0.00, G:0.34, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGA
Found at i:4912068 original size:32 final size:32
Alignment explanation
Indices: 4912027--4912094 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 32
4912017 TTTGGTTCGC
4912027 TGTATTGGATTAGAGATGTATTGGATTAGAAG
1 TGTATTGGATTAGAGATGTATTGGATTAGAAG
* *
4912059 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGATGTATTGGATTAGAAG
4912091 TGTA
1 TGTA
4912095 ATAGCAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.28, C:0.00, G:0.34, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGATGTATTGGATTAGAAG
Found at i:4912418 original size:157 final size:157
Alignment explanation
Indices: 4912224--4912533 Score: 523
Period size: 157 Copynumber: 2.0 Consensus size: 157
4912214 CCCTTAGCAT
*
4912224 AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAG-TTAATTATTATCA
1 AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATT-ATTAATATCA
* *
4912288 ATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAACATATTTTAATTAAAATATATA
65 ATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATATTATAATTAAAATATATA
4912353 ATTTAATAAAATTCTTAATAATTACCAG
130 ATTTAATAAAATTCTTAATAATTACCAG
* * * *
4912381 AAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTGATAAGATTATTAATATGAA
1 AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
* *
4912446 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATACTTAAAATATATAA
66 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATATTATAATTAAAATATATAA
4912511 TTTAATAAAATTCTTAATAATTA
131 TTTAATAAAATTCTTAATAATTA
4912534 ATATTCTTAT
Statistics
Matches: 143, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
157 141 0.99
158 2 0.01
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.47
Consensus pattern (157 bp):
AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATATTATAATTAAAATATATAA
TTTAATAAAATTCTTAATAATTACCAG
Found at i:4912530 original size:82 final size:81
Alignment explanation
Indices: 4912287--4912536 Score: 186
Period size: 76 Copynumber: 3.1 Consensus size: 81
4912277 AATTATTATC
* * *
4912287 AATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAACATATTTTAATTAAAATATAT
1 AATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTAT-ATTAAAATATAT
4912352 AATTTAATAAAATTCTT
65 AATTTAATAAAATTCTT
* * * * *
4912369 AATAATTACCAGA-AATTT-GT--T-TTGGT-AA-ATTATTATTGTT--AT-TGTTAT-TTAAAT
1 AATAA-TA--A-ATAATTTAATCATATT--TAAACATAATTATTATTAAATATATTATATTAAAA
* * * * *
4912423 TTTGATAAGATT-AT-TAA-TATG
60 TAT-ATAA-TTTAATAAAATTCTT
4912444 AATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATACTTAAAATATAT
1 AATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATA-TTAAAATATAT
4912509 AATTTAATAAAATTCTT
65 AATTTAATAAAATTCTT
*
4912526 AATAATTAATA
1 AATAATAAATA
4912537 TTCTTATATG
Statistics
Matches: 121, Mismatches: 24, Indels: 46
0.63 0.13 0.24
Matches are distributed among these distances:
71 1 0.01
72 6 0.05
73 1 0.01
74 3 0.02
75 10 0.08
76 21 0.17
77 6 0.05
78 8 0.07
79 8 0.07
80 6 0.05
81 21 0.17
82 20 0.17
83 3 0.02
84 1 0.01
85 5 0.04
86 1 0.01
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.46
Consensus pattern (81 bp):
AATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATATTAAAATATATA
ATTTAATAAAATTCTT
Found at i:4912607 original size:157 final size:155
Alignment explanation
Indices: 4912287--4912591 Score: 342
Period size: 157 Copynumber: 1.9 Consensus size: 155
4912277 AATTATTATC
* *
4912287 AATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAACATATTTTAATTAAAATATAT
1 AATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATATTATAATTAAAATATAT
* * * * ** * * * *
4912352 AATTTAATAAAATTCTTAATAATTACCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTAT
66 AATTTAATAAAATTCTTAATAATTAACACAAATATGATTTACTAAATCATAATTATTATTGATAT
* * *
4912417 TTAAATTTTGATAAGATTATTAATATG
131 ATAAA--TAGATAAGATTATGAATATG
* *
4912444 AATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATACTTAAAATATAT
1 AATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATATTATAATTAAAATATAT
* **
4912509 AATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATTATA
66 AATTTAATAAAATTCTTAATAATTAACA--CAAATATG-ATTTACT-AAATCATAAT-TATTAT-
4912574 TGATACTATAAA-AGATAA
125 TGATA-TATAAATAGATAA
4912592 TTTGAAATAA
Statistics
Matches: 122, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
157 87 0.71
159 4 0.03
160 4 0.03
161 13 0.11
162 5 0.04
163 4 0.03
164 5 0.04
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.45
Consensus pattern (155 bp):
AATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATATTATAATTAAAATATAT
AATTTAATAAAATTCTTAATAATTAACACAAATATGATTTACTAAATCATAATTATTATTGATAT
ATAAATAGATAAGATTATGAATATG
Found at i:4913431 original size:13 final size:13
Alignment explanation
Indices: 4913413--4913442 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
4913403 CAATCAGCTA
4913413 AATTCAGAAAAAC
1 AATTCAGAAAAAC
4913426 AATTCAGAAAAAC
1 AATTCAGAAAAAC
4913439 AATT
1 AATT
4913443 ACATGACAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.60, C:0.13, G:0.07, T:0.20
Consensus pattern (13 bp):
AATTCAGAAAAAC
Found at i:4924088 original size:27 final size:27
Alignment explanation
Indices: 4924058--4924111 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
4924048 TAACCGTTAT
* *
4924058 TTGGTGGATTCAGCACTTAGCAACCCC
1 TTGGGGGAATCAGCACTTAGCAACCCC
4924085 TTGGGGGAATCAGCACTTAGCAACCCC
1 TTGGGGGAATCAGCACTTAGCAACCCC
4924112 CCTTTTGCAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.22
Consensus pattern (27 bp):
TTGGGGGAATCAGCACTTAGCAACCCC
Found at i:4924179 original size:33 final size:33
Alignment explanation
Indices: 4924137--4924263 Score: 130
Period size: 33 Copynumber: 3.6 Consensus size: 33
4924127 AAAATATGGT
4924137 GGAATCAGCACTTAGCAACCACCAATGATTCGG
1 GGAATCAGCACTTAGCAACCACCAATGATTCGG
*
4924170 GGAATCAGCACTTAGCAACCCCTTATACAATCCG-TTACGG
1 GGAATCAGCACTTAGCAA--CC--A-CCAAT--GATT-CGG
* *
4924210 TGGAATCAGCACTTAGCAACCACCGATGATTTGG
1 -GGAATCAGCACTTAGCAACCACCAATGATTCGG
*
4924244 GGAATCAACACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
4924264 CCCCTTTTGC
Statistics
Matches: 79, Mismatches: 5, Indels: 20
0.76 0.05 0.19
Matches are distributed among these distances:
33 37 0.47
34 3 0.04
35 4 0.05
36 3 0.04
37 2 0.03
38 4 0.05
39 4 0.05
40 4 0.05
41 18 0.23
ACGTcount: A:0.32, C:0.28, G:0.20, T:0.20
Consensus pattern (33 bp):
GGAATCAGCACTTAGCAACCACCAATGATTCGG
Found at i:4924190 original size:80 final size:80
Alignment explanation
Indices: 4924088--4924345 Score: 357
Period size: 80 Copynumber: 3.3 Consensus size: 80
4924078 CAACCCCTTG
4924088 GGGGAATCAGCACTTAGCAACCCCCCTTTTGCACATTAAAAAATATGGTGGAATCAGCACTTAGC
1 GGGGAATCAGCACTTAGCAACCCCCCTTTTGCACATTAAAAAATATGGTGGAATCAGCACTTAGC
* *
4924153 AACCACCAATGATTC
66 AACCACCGATGATTT
* ***** *
4924168 GGGGAATCAGCACTTAGCAA--CCCCTTAT--ACA--ATCCGTTACGGTGGAATCAGCACTTAGC
1 GGGGAATCAGCACTTAGCAACCCCCCTTTTGCACATTAAAAAATATGGTGGAATCAGCACTTAGC
4924227 AACCACCGATGATTT
66 AACCACCGATGATTT
* * *
4924242 GGGGAATCAACACTTAGCAACCCCCCTTTTGCACATTCAAAAATATGGTGGAATCAACACTTAGC
1 GGGGAATCAGCACTTAGCAACCCCCCTTTTGCACATTAAAAAATATGGTGGAATCAGCACTTAGC
*
4924307 AACCACCGATAATTT
66 AACCACCGATGATTT
4924322 GGGGAATCAGCACTTAGCAACCCC
1 GGGGAATCAGCACTTAGCAACCCC
4924346 TTGGGGGAAT
Statistics
Matches: 151, Mismatches: 21, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
74 54 0.36
76 10 0.07
78 10 0.07
80 77 0.51
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (80 bp):
GGGGAATCAGCACTTAGCAACCCCCCTTTTGCACATTAAAAAATATGGTGGAATCAGCACTTAGC
AACCACCGATGATTT
Found at i:4929565 original size:13 final size:13
Alignment explanation
Indices: 4929535--4929593 Score: 52
Period size: 13 Copynumber: 4.6 Consensus size: 13
4929525 AAATAATACG
*
4929535 AAAAATCTTAA-T
1 AAAAATATTAATT
4929547 -AAAATATTAATT
1 AAAAATATTAATT
*
4929559 AAAAATATTTATCT
1 AAAAATATTAAT-T
*
4929573 -AAATTAATTAATT
1 AAAAAT-ATTAATT
4929586 AAAAATAT
1 AAAAATAT
4929594 CACCAACATC
Statistics
Matches: 37, Mismatches: 5, Indels: 9
0.73 0.10 0.18
Matches are distributed among these distances:
11 9 0.24
12 1 0.03
13 17 0.46
14 10 0.27
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (13 bp):
AAAAATATTAATT
Found at i:4932921 original size:21 final size:21
Alignment explanation
Indices: 4932897--4932943 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
4932887 CAAAATAATT
4932897 AAAATAATTT-TCAAAAATTCA
1 AAAATAATTTAT-AAAAATTCA
*
4932918 AAAAT-ATTTATAAAAATTCC
1 AAAATAATTTATAAAAATTCA
4932938 AAAATA
1 AAAATA
4932944 TAAAGAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 17 0.74
21 6 0.26
ACGTcount: A:0.60, C:0.09, G:0.00, T:0.32
Consensus pattern (21 bp):
AAAATAATTTATAAAAATTCA
Found at i:4937159 original size:96 final size:96
Alignment explanation
Indices: 4936995--4937190 Score: 383
Period size: 96 Copynumber: 2.0 Consensus size: 96
4936985 CATATCTCTC
4936995 AAAACACCTAGACAACTTGCACTATCCTCATTTGCTATCCCACATACATTGAACTTTAATCCTGT
1 AAAACACCTAGACAACTTGCACTATCCTCATTTGCTATCCCACATACATTGAACTTTAATCCTGT
*
4937060 TTTGATGAGTTTGAGGATAATACTCGTCCTT
66 TTTGATAAGTTTGAGGATAATACTCGTCCTT
4937091 AAAACACCTAGACAACTTGCACTATCCTCATTTGCTATCCCACATACATTGAACTTTAATCCTGT
1 AAAACACCTAGACAACTTGCACTATCCTCATTTGCTATCCCACATACATTGAACTTTAATCCTGT
4937156 TTTGATAAGTTTGAGGATAATACTCGTCCTT
66 TTTGATAAGTTTGAGGATAATACTCGTCCTT
4937187 AAAA
1 AAAA
4937191 TTTTTGGGAT
Statistics
Matches: 99, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
96 99 1.00
ACGTcount: A:0.31, C:0.23, G:0.12, T:0.34
Consensus pattern (96 bp):
AAAACACCTAGACAACTTGCACTATCCTCATTTGCTATCCCACATACATTGAACTTTAATCCTGT
TTTGATAAGTTTGAGGATAATACTCGTCCTT
Found at i:4943190 original size:21 final size:24
Alignment explanation
Indices: 4943164--4943211 Score: 66
Period size: 21 Copynumber: 2.1 Consensus size: 24
4943154 ATAAAAATTA
*
4943164 AATTGAATT-TTT-AGTTAA-TCG
1 AATTGAATTATTTGAGTCAATTCG
4943185 AATTGAATTATTTGAGTCAATTCG
1 AATTGAATTATTTGAGTCAATTCG
4943209 AAT
1 AAT
4943212 AAGTAATTCG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 9 0.39
22 3 0.13
23 5 0.22
24 6 0.26
ACGTcount: A:0.35, C:0.06, G:0.15, T:0.44
Consensus pattern (24 bp):
AATTGAATTATTTGAGTCAATTCG
Found at i:4946470 original size:31 final size:31
Alignment explanation
Indices: 4946377--4946472 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
4946367 GGCAAATTAC
*
4946377 AAGAGTAATTGAATCCTAATAAAACTCTTTC
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
4946408 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
4946440 AAGAGTAATTGAATCCTAATAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
4946471 AA
1 AA
4946473 ATTATCTAAG
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.46, C:0.14, G:0.09, T:0.31
Consensus pattern (31 bp):
AAGAGTAATTGAATCCTAATAAAACTCTTTA
Found at i:4952731 original size:31 final size:31
Alignment explanation
Indices: 4952638--4952733 Score: 165
Period size: 31 Copynumber: 3.1 Consensus size: 31
4952628 GGCAAATTAC
*
4952638 AAGAGTAATTGAATCCTAATAAAACTCTTTC
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
*
4952669 AAGAGTAATTGAATCATAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
4952701 AAGAGTAATTGAATCCTAATAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
4952732 AA
1 AA
4952734 ATTATCTAAG
Statistics
Matches: 61, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
31 32 0.52
32 29 0.48
ACGTcount: A:0.47, C:0.12, G:0.09, T:0.31
Consensus pattern (31 bp):
AAGAGTAATTGAATCCTAATAAAACTCTTTA
Found at i:4971689 original size:51 final size:51
Alignment explanation
Indices: 4971614--4971830 Score: 303
Period size: 51 Copynumber: 4.0 Consensus size: 51
4971604 TATACGTAAA
4971614 AATTAT-CATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAAC
1 AATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAAC
4971664 AATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACAATTAAACCAAC
1 AATTATACATACACCAACAATGTTTTTTAGGG----TAA-A-T-----AAC-ATTAAACCAAC
4971727 AATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAAC
1 AATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAAC
4971778 AATTATACATACACCAACAATGTTTTTTAGGG-ACAATAACATTAAACCAAC
1 AATTATACATACACCAACAATGTTTTTTAGGGTA-AATAACATTAAACCAAC
4971829 AA
1 AA
4971831 GTAATTTTAG
Statistics
Matches: 153, Mismatches: 0, Indels: 27
0.85 0.00 0.15
Matches are distributed among these distances:
50 7 0.05
51 87 0.57
52 3 0.02
55 3 0.02
56 1 0.01
57 2 0.01
58 1 0.01
59 3 0.02
62 3 0.02
63 43 0.28
ACGTcount: A:0.46, C:0.18, G:0.07, T:0.28
Consensus pattern (51 bp):
AATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAAC
Found at i:4971721 original size:12 final size:12
Alignment explanation
Indices: 4971704--4971731 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
4971694 GGTAAATAAC
4971704 ATTAAACCAACA
1 ATTAAACCAACA
4971716 ATTAAACCAACA
1 ATTAAACCAACA
4971728 ATTA
1 ATTA
4971732 TACATACACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.57, C:0.21, G:0.00, T:0.21
Consensus pattern (12 bp):
ATTAAACCAACA
Found at i:4971731 original size:63 final size:63
Alignment explanation
Indices: 4971653--4971782 Score: 260
Period size: 63 Copynumber: 2.1 Consensus size: 63
4971643 GGTAAATAAC
4971653 ATTAAACCAACAATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
1 ATTAAACCAACAATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
4971716 ATTAAACCAACAATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
1 ATTAAACCAACAATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
4971779 ATTA
1 ATTA
4971783 TACATACACC
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 67 1.00
ACGTcount: A:0.48, C:0.18, G:0.06, T:0.28
Consensus pattern (63 bp):
ATTAAACCAACAATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
Found at i:4971755 original size:114 final size:113
Alignment explanation
Indices: 4971614--4971830 Score: 409
Period size: 114 Copynumber: 1.9 Consensus size: 113
4971604 TATACGTAAA
4971614 AATTATCATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACAATTATACATACACC
1 AATTATCATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACAATTATACATACACC
4971679 AACAATGTTTTTTAGGGTA-AATAACATTAAACCAACAATTAAACCAAC
66 AACAATGTTTTTTAGGG-ACAATAACATTAAACCAACAATTAAACCAAC
4971727 AATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACAATTATACATACAC
1 AATTAT-CATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACAATTATACATACAC
4971792 CAACAATGTTTTTTAGGGACAATAACATTAAACCAACAA
65 CAACAATGTTTTTTAGGGACAATAACATTAAACCAACAA
4971831 GTAATTTTAG
Statistics
Matches: 102, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
113 7 0.07
114 95 0.93
ACGTcount: A:0.46, C:0.18, G:0.07, T:0.28
Consensus pattern (113 bp):
AATTATCATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACAATTATACATACACC
AACAATGTTTTTTAGGGACAATAACATTAAACCAACAATTAAACCAAC
Found at i:4971839 original size:33 final size:34
Alignment explanation
Indices: 4971776--4971886 Score: 115
Period size: 33 Copynumber: 3.4 Consensus size: 34
4971766 CATTAAACCA
* *
4971776 ACAATTATACATACACCAACAATGT-TTTTTAGGG
1 ACAATTATACATAAACCAACAA-GTAATTTTAGGG
4971810 ACAA-TA-ACATTAAACCAACAAGTAATTTTA-GG
1 ACAATTATACA-TAAACCAACAAGTAATTTTAGGG
* * *
4971842 TCAATTATACATACACCAACAATTAATTTTA-GG
1 ACAATTATACATAAACCAACAAGTAATTTTAGGG
*
4971875 TCAATTATACAT
1 ACAATTATACAT
4971887 GCTTTATAAT
Statistics
Matches: 68, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
32 10 0.15
33 51 0.75
34 7 0.10
ACGTcount: A:0.43, C:0.17, G:0.08, T:0.32
Consensus pattern (34 bp):
ACAATTATACATAAACCAACAAGTAATTTTAGGG
Found at i:4975216 original size:120 final size:120
Alignment explanation
Indices: 4974911--4975533 Score: 1142
Period size: 120 Copynumber: 5.2 Consensus size: 120
4974901 TTTTCAAGTT
4974911 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
4974976 TAATATAAGAATATTAATTATTAAGAATTTT-TTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
4975030 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
* *
4975095 TAATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
*
4975150 ATATATTTAATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
4975215 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
*
4975270 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
* *
4975335 TAATATAAGAATATT-ATCCAATTAAGAATTTCATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAAT--TATTAAGAATTTTATTAAATTATATATTTTAATTAAA
*
4975391 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
4975456 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
4975511 ATATATTTAATAATAATTATGTT
1 ATATATTTAATAATAATTATGTT
4975534 TAAATATGAT
Statistics
Matches: 491, Mismatches: 9, Indels: 7
0.97 0.02 0.01
Matches are distributed among these distances:
119 98 0.20
120 276 0.56
121 115 0.23
122 2 0.00
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (120 bp):
ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
Found at i:4975269 original size:18 final size:17
Alignment explanation
Indices: 4975241--4975275 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
4975231 ATTATTAAGA
*
4975241 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
4975258 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
4975276 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:4975461 original size:241 final size:240
Alignment explanation
Indices: 4974911--4975533 Score: 1142
Period size: 241 Copynumber: 2.6 Consensus size: 240
4974901 TTTTCAAGTT
4974911 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
4974976 TAATATAAGAATATTAATTATTAAGAATTTT-TTAAATTATATAGTTTAATTAAAATATATTTAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAA
*
4975040 TAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAATATAAGA
131 TAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGA
* **
4975105 ATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAA
196 ATATTAATAATTAAGAATTTCATTAAATTATATAGTTTAATTAAA
*
4975150 ATATATTTAATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
4975215 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAA
4975280 TAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGA
131 TAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGA
*
4975345 ATATT-ATCCAATTAAGAATTTCATTAAATTATATATTTTAATTAAA
196 ATATTAAT--AATTAAGAATTTCATTAAATTATATAGTTTAATTAAA
*
4975391 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
4975456 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAA
4975521 TAATAATTATGTT
131 TAATAATTATGTT
4975534 TAAATATGAT
Statistics
Matches: 372, Mismatches: 9, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
239 97 0.26
240 101 0.27
241 174 0.47
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (240 bp):
ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAA
TAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGA
ATATTAATAATTAAGAATTTCATTAAATTATATAGTTTAATTAAA
Found at i:4975510 original size:18 final size:17
Alignment explanation
Indices: 4975482--4975516 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
4975472 ATTATTAAGA
*
4975482 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
4975499 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
4975517 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:4975730 original size:44 final size:45
Alignment explanation
Indices: 4975681--4975771 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
4975671 ACCTCTATTC
* * *
4975681 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
4975725 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
4975770 CA
1 CA
4975772 CCTTTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:4975773 original size:16 final size:16
Alignment explanation
Indices: 4975752--4975820 Score: 111
Period size: 16 Copynumber: 4.2 Consensus size: 16
4975742 GATTAGCTAT
4975752 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
4975768 TACACCTTTAATCCCAA
1 TACACCTCTAAT-CCAA
4975785 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
4975801 TACGCCTCTAATCCAA
1 TACACCTCTAATCCAA
4975817 TACA
1 TACA
4975821 GCGAACCAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
16 33 0.69
17 15 0.31
ACGTcount: A:0.36, C:0.36, G:0.01, T:0.26
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:4975794 original size:33 final size:32
Alignment explanation
Indices: 4975752--4975820 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 32
4975742 GATTAGCTAT
*
4975752 TACACCTCTAATCCAATACACCTTTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
*
4975785 TACACCTCTAATCCAATACGCCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
4975817 TACA
1 TACA
4975821 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
32 8 0.24
33 26 0.76
ACGTcount: A:0.36, C:0.36, G:0.01, T:0.26
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:4985826 original size:20 final size:20
Alignment explanation
Indices: 4985801--4985844 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
4985791 AATAAAAAAC
4985801 TATATATATATATTGCAAAG
1 TATATATATATATTGCAAAG
4985821 TATATATATATATTGCAAAG
1 TATATATATATATTGCAAAG
4985841 TATA
1 TATA
4985845 AATCCTGGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.41
Consensus pattern (20 bp):
TATATATATATATTGCAAAG
Found at i:4986478 original size:17 final size:16
Alignment explanation
Indices: 4986452--4986484 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
4986442 TTAGTATTAA
4986452 AAAAATTATAAAAAAT
1 AAAAATTATAAAAAAT
4986468 AAAAATATATAAAAAAT
1 AAAAAT-TATAAAAAAT
4986485 TGATCAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (16 bp):
AAAAATTATAAAAAAT
Found at i:4987996 original size:29 final size:28
Alignment explanation
Indices: 4987956--4988029 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 28
4987946 TCTAAGAATT
*
4987956 AAAATTACATTTTTAAATA-AAAAAGTAA
1 AAAATTAAATTTTTAAATATAAAAA-TAA
4987984 ATAAATTAAATTTCTTAAA-ATAAAAATAA
1 A-AAATTAAATTT-TTAAATATAAAAATAA
4988013 AAAATTAAA-TTTTAAAT
1 AAAATTAAATTTTTAAAT
4988030 GCACAAATAG
Statistics
Matches: 41, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
26 5 0.12
27 2 0.05
28 9 0.22
29 15 0.37
30 10 0.24
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.35
Consensus pattern (28 bp):
AAAATTAAATTTTTAAATATAAAAATAA
Found at i:4991626 original size:24 final size:22
Alignment explanation
Indices: 4991599--4991653 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 22
4991589 TTGAGAAACA
*
4991599 TTTATTTTAATATTTTTAAGTATT
1 TTTATTTT-ATATTTTTAA-AATT
4991623 TTTATGTATTATATTTTTAAAATT
1 TTTAT-T-TTATATTTTTAAAATT
4991647 TTTATTT
1 TTTATTT
4991654 AAGAAATAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
22 1 0.04
23 1 0.04
24 13 0.46
25 11 0.39
26 2 0.07
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (22 bp):
TTTATTTTATATTTTTAAAATT
Found at i:4994156 original size:80 final size:80
Alignment explanation
Indices: 4994023--4994185 Score: 317
Period size: 80 Copynumber: 2.0 Consensus size: 80
4994013 AGTCTGCTGG
4994023 ATTGCTTGGGAGACCTCAGGTAAACAAACAAATAAAATGAGAATCTTTGACGATAGTTAGGAGCT
1 ATTGCTTGGGAGACCTCAGGTAAACAAACAAATAAAATGAGAATCTTTGACGATAGTTAGGAGCT
4994088 TGAATTATGAATTTA
66 TGAATTATGAATTTA
*
4994103 ATTGCTTGGGAGACCTCAGGTAAACAAACAAATAAAATGAGAATTTTTGACGATAGTTAGGAGCT
1 ATTGCTTGGGAGACCTCAGGTAAACAAACAAATAAAATGAGAATCTTTGACGATAGTTAGGAGCT
4994168 TGAATTATGAATTTA
66 TGAATTATGAATTTA
4994183 ATT
1 ATT
4994186 TTTGTTAAAT
Statistics
Matches: 82, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 82 1.00
ACGTcount: A:0.39, C:0.10, G:0.21, T:0.30
Consensus pattern (80 bp):
ATTGCTTGGGAGACCTCAGGTAAACAAACAAATAAAATGAGAATCTTTGACGATAGTTAGGAGCT
TGAATTATGAATTTA
Found at i:5008856 original size:38 final size:38
Alignment explanation
Indices: 5008796--5008881 Score: 104
Period size: 40 Copynumber: 2.3 Consensus size: 38
5008786 TATTTTGAAA
* *
5008796 ATATTTTTAATTAATATATTTAA-A-ATTTTAAAAAAT
1 ATATTTTTAATTAAAATATTTAACAGAATTTAAAAAAT
*
5008832 ATATTTTGTACATTAAAATTTTTAACAGAATTTAAAAAAT
1 ATATTTT-TA-ATTAAAATATTTAACAGAATTTAAAAAAT
*
5008872 ATTTTTTTAA
1 ATATTTTTAA
5008882 CAGACGTGTT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
36 7 0.17
37 2 0.05
38 13 0.31
39 3 0.07
40 17 0.40
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (38 bp):
ATATTTTTAATTAAAATATTTAACAGAATTTAAAAAAT
Found at i:5012513 original size:15 final size:16
Alignment explanation
Indices: 5012493--5012523 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
5012483 GTAAGGACAG
5012493 CATACATT-ACATATA
1 CATACATTCACATATA
5012508 CATACATTCACATATA
1 CATACATTCACATATA
5012524 TGTTTTTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.45, C:0.23, G:0.00, T:0.32
Consensus pattern (16 bp):
CATACATTCACATATA
Found at i:5016152 original size:17 final size:17
Alignment explanation
Indices: 5016121--5016154 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
5016111 CATGGTAAAT
* *
5016121 AATAAAAAGTCAACAAA
1 AATAAAAAATAAACAAA
5016138 AATAAAAAATAAACAAA
1 AATAAAAAATAAACAAA
5016155 CAAGAATAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.76, C:0.09, G:0.03, T:0.12
Consensus pattern (17 bp):
AATAAAAAATAAACAAA
Found at i:5016626 original size:24 final size:24
Alignment explanation
Indices: 5016581--5016626 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
5016571 ATAATTTTAG
* *
5016581 ACATATATATTATAGTATATAAGC
1 ACATATATATAATAATATATAAGC
5016605 ACATATATATAAATAATA-ATAA
1 ACATATATAT-AATAATATATAA
5016627 TATAATAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 14 0.74
25 5 0.26
ACGTcount: A:0.54, C:0.07, G:0.04, T:0.35
Consensus pattern (24 bp):
ACATATATATAATAATATATAAGC
Found at i:5016633 original size:11 final size:11
Alignment explanation
Indices: 5016613--5016644 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
5016603 GCACATATAT
5016613 ATAA-ATAATA
1 ATAATATAATA
5016623 ATAATATAATA
1 ATAATATAATA
5016634 ATAATA-AATA
1 ATAATATAATA
5016644 A
1 A
5016645 ATAAATGAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (11 bp):
ATAATATAATA
Found at i:5016647 original size:14 final size:13
Alignment explanation
Indices: 5016613--5016648 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 13
5016603 GCACATATAT
5016613 ATAAATAATAATA
1 ATAAATAATAATA
5016626 ATATAATAATAATAA
1 ATA-AATAATAAT-A
5016641 ATAAATAA
1 ATAAATAA
5016649 ATGAGCAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 3 0.14
14 14 0.67
15 4 0.19
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
ATAAATAATAATA
Found at i:5018599 original size:87 final size:87
Alignment explanation
Indices: 5018483--5018644 Score: 218
Period size: 87 Copynumber: 1.9 Consensus size: 87
5018473 AGACTTGATG
* * * * *
5018483 CGATCTACTCTGCTGTAACCTCAGAGAGATAAGATC-CTTTATTTTAATCCGCTCCACTGTAACT
1 CGATCTACTCCGCTGTAACCTCAGAGAGATAAGATCTC-TGACTTCAATCCGCTCCACTGTAACC
5018547 TCAGGGAGATAGGATAGTGTCTT
65 TCAGGGAGATAGGATAGTGTCTT
* * * * *
5018570 CGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCT
1 CGATCTACTCCGCTGTAACCTCAGAGAGATAAGATCTCTGACTTCAATCCGCTCCACTGTAACCT
5018635 CAGGGAGATA
66 CAGGGAGATA
5018645 AGATCTGAAA
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
87 63 0.98
88 1 0.02
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (87 bp):
CGATCTACTCCGCTGTAACCTCAGAGAGATAAGATCTCTGACTTCAATCCGCTCCACTGTAACCT
CAGGGAGATAGGATAGTGTCTT
Found at i:5018834 original size:214 final size:214
Alignment explanation
Indices: 5018444--5018911 Score: 697
Period size: 214 Copynumber: 2.2 Consensus size: 214
5018434 GTTGTTTTCA
* * * * *
5018444 GTCTATTCCACTGCATCTTCAGGGAAATAAGACTTGATGCGATCTACTCTGCTGTAACCTCAGAG
1 GTCTATTCCACTGTAACCTCAGGGAAATAAGACCTGATGCGATCTACTCTACTGTAACCTCAGAG
* * *
5018509 AGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGAT
66 AGATAAGATCC----TTTTAATCCGCTCCACTGTAACTTCAAGGAGATAGGATACTATCTTCGAT
5018574 CTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGG
127 CTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGG
5018639 GAGATAAGATCTGAAATTCTCCG
192 GAGATAAGATCTGAAATTCTCCG
* * * *
5018662 GTCTACTCCACTGTAACCTCAGGGAAATAAGACCTGATGTGATCTTCTCTACTGTAACTTCAGAG
1 GTCTATTCCACTGTAACCTCAGGGAAATAAGACCTGATGCGATCTACTCTACTGTAACCTCAGAG
* *
5018727 AGATAAGATCC-TTTAATCCGCTCCATTGTAA-TCTCAAGGAGATAGGATTACTATCTTTGATCT
66 AGATAAGATCCTTTTAATCCGCTCCACTGTAACT-TCAAGGAGATAGGA-TACTATCTTCGATCT
5018790 GCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGA
129 GCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGA
**
5018855 GATAAGATCTGAAATTCTTTG
194 GATAAGATCTGAAATTCTCCG
* * *
5018876 GTCTGTTCCACTGTAATCTCAGGGAGATAAGACCTG
1 GTCTATTCCACTGTAACCTCAGGGAAATAAGACCTG
5018912 TATAATAAAC
Statistics
Matches: 228, Mismatches: 20, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
212 1 0.00
213 32 0.14
214 128 0.56
218 67 0.29
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (214 bp):
GTCTATTCCACTGTAACCTCAGGGAAATAAGACCTGATGCGATCTACTCTACTGTAACCTCAGAG
AGATAAGATCCTTTTAATCCGCTCCACTGTAACTTCAAGGAGATAGGATACTATCTTCGATCTGC
TCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGA
TAAGATCTGAAATTCTCCG
Found at i:5018903 original size:46 final size:44
Alignment explanation
Indices: 5018495--5018907 Score: 257
Period size: 44 Copynumber: 9.5 Consensus size: 44
5018485 ATCTACTCTG
* * * * * *
5018495 CTGTAACCTCAGAGAGATAAGATCCTTTAT-TTTAATCCGCTCCA
1 CTGTAATCTCAGGGAGATAAGAT-CTATGTCTTTGATCTGCTCCA
* * *
5018539 CTGTAA-CTTCAGGGAGATAGGA--TAGTGTCTTCGATCTGCTCCG
1 CTGTAATC-TCAGGGAGATAAGATCTA-TGTCTTTGATCTGCTCCA
* * **
5018582 CTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCA
1 CTGTAATCTCAGGGAGATAAGATCTATGTCTTTGATCTGCTCCA
* ** * *
5018626 CTGTAACCTCAGGGAGATAAGATCTGAAAT-TCTCCGGTCTACTCCA
1 CTGTAATCTCAGGGAGATAAGATCT---ATGTCTTTGATCTGCTCCA
* * * * *
5018672 CTGTAACCTCAGGGAAATAAGACCTGATG----TGATCTTCTCTA
1 CTGTAATCTCAGGGAGATAAGATCT-ATGTCTTTGATCTGCTCCA
* * *
5018713 CTGTAA-CTTCAGAGAGATAAGATC-----CTTTAATCCGCTCCA
1 CTGTAATC-TCAGGGAGATAAGATCTATGTCTTTGATCTGCTCCA
* * * * *
5018752 TTGTAATCTCAAGGAGATAGGAT-TACTATCTTTGATCTGCTCCG
1 CTGTAATCTCAGGGAGATAAGATCTA-TGTCTTTGATCTGCTCCA
* * **
5018796 CTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCA
1 CTGTAATCTCAGGGAGATAAGATCTATGTCTTTGATCTGCTCCA
* * *
5018840 CTGTAACCTCAGGGAGATAAGATCTGAAAT-TCTTTGGTCTGTTCCA
1 CTGTAATCTCAGGGAGATAAGATCT---ATGTCTTTGATCTGCTCCA
5018886 CTGTAATCTCAGGGAGATAAGA
1 CTGTAATCTCAGGGAGATAAGA
5018908 CCTGTATAAT
Statistics
Matches: 286, Mismatches: 58, Indels: 48
0.73 0.15 0.12
Matches are distributed among these distances:
39 25 0.09
40 2 0.01
41 28 0.10
42 2 0.01
43 30 0.10
44 129 0.45
45 2 0.01
46 66 0.23
47 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (44 bp):
CTGTAATCTCAGGGAGATAAGATCTATGTCTTTGATCTGCTCCA
Found at i:5034410 original size:26 final size:25
Alignment explanation
Indices: 5034348--5034412 Score: 66
Period size: 26 Copynumber: 2.6 Consensus size: 25
5034338 TATGCTATTT
5034348 TAACCTTTTTGAA-TATATTTTGGA
1 TAACCTTTTTGAATTATATTTTGGA
5034372 TATA--TTTTATGAATTATTATTTAT-GA
1 TA-ACCTTTT-TGAATTA-TATTT-TGGA
5034398 TAACCTTTTTGAATT
1 TAACCTTTTTGAATT
5034413 TGTCAAGGTT
Statistics
Matches: 34, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
23 4 0.12
24 6 0.18
25 4 0.12
26 15 0.44
27 5 0.15
ACGTcount: A:0.31, C:0.06, G:0.09, T:0.54
Consensus pattern (25 bp):
TAACCTTTTTGAATTATATTTTGGA
Found at i:5037183 original size:19 final size:19
Alignment explanation
Indices: 5037159--5037199 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
5037149 TAACTGAACT
5037159 ATGAACACGCCTAGTTCCC
1 ATGAACACGCCTAGTTCCC
5037178 ATGAACACGCCTAGTTCCC
1 ATGAACACGCCTAGTTCCC
5037197 ATG
1 ATG
5037200 TGTGAAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.27, C:0.34, G:0.17, T:0.22
Consensus pattern (19 bp):
ATGAACACGCCTAGTTCCC
Found at i:5038561 original size:31 final size:31
Alignment explanation
Indices: 5038468--5038563 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
5038458 GGCAAATTAC
*
5038468 AAGAGTAATTGAATCCTAATAAAACTCTTTC
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
5038499 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
5038531 AAGAGTAATTGAATCCTAATAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
5038562 AA
1 AA
5038564 ATTATCTAAG
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.46, C:0.14, G:0.09, T:0.31
Consensus pattern (31 bp):
AAGAGTAATTGAATCCTAATAAAACTCTTTA
Found at i:5040946 original size:21 final size:22
Alignment explanation
Indices: 5040922--5040970 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
5040912 ATAATTACGT
5040922 TTATTTTCTTTAAATT-AAGAG
1 TTATTTTCTTTAAATTCAAGAG
* * *
5040943 TTATTTTTTTTAACTTCATGAG
1 TTATTTTCTTTAAATTCAAGAG
5040965 TTATTT
1 TTATTT
5040971 AGTATTTTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 14 0.58
22 10 0.42
ACGTcount: A:0.27, C:0.06, G:0.08, T:0.59
Consensus pattern (22 bp):
TTATTTTCTTTAAATTCAAGAG
Found at i:5044438 original size:17 final size:17
Alignment explanation
Indices: 5044418--5044454 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
5044408 AATTTTTGAA
5044418 TTAGTGAATTCTGTGAT
1 TTAGTGAATTCTGTGAT
* *
5044435 TTAGTGAATTTTGTGGT
1 TTAGTGAATTCTGTGAT
5044452 TTA
1 TTA
5044455 AAAAGAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.22, C:0.03, G:0.24, T:0.51
Consensus pattern (17 bp):
TTAGTGAATTCTGTGAT
Found at i:5045125 original size:26 final size:26
Alignment explanation
Indices: 5045096--5045149 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
5045086 AATTACAAAT
5045096 AATT-TAATAAATAAAAATAAAAATAA
1 AATTCTAA-AAATAAAAATAAAAATAA
* * *
5045122 AATTCTAAAACTAAAACTAAAACTAA
1 AATTCTAAAAATAAAAATAAAAATAA
5045148 AA
1 AA
5045150 CTAAAGTCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 21 0.88
27 3 0.12
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (26 bp):
AATTCTAAAAATAAAAATAAAAATAA
Found at i:5045135 original size:6 final size:6
Alignment explanation
Indices: 5045107--5045154 Score: 60
Period size: 6 Copynumber: 7.7 Consensus size: 6
5045097 ATTTAATAAA
* *
5045107 TAAAAA TAAAAA TAAAATTC TAAAAC TAAAAC TAAAAC TAAAAC TAAA
1 TAAAAC TAAAAC TAAAA--C TAAAAC TAAAAC TAAAAC TAAAAC TAAA
5045155 GTCTAAAAGT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
6 34 0.87
8 5 0.13
ACGTcount: A:0.69, C:0.10, G:0.00, T:0.21
Consensus pattern (6 bp):
TAAAAC
Found at i:5045149 original size:18 final size:19
Alignment explanation
Indices: 5045107--5045154 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
5045097 ATTTAATAAA
*
5045107 TAAAAATAAAAATAAAATTC
1 TAAAACTAAAAATAAAA-TC
*
5045127 TAAAACTAAAACTAAAA-C
1 TAAAACTAAAAATAAAATC
5045145 TAAAACTAAA
1 TAAAACTAAA
5045155 GTCTAAAAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 11 0.42
20 15 0.58
ACGTcount: A:0.69, C:0.10, G:0.00, T:0.21
Consensus pattern (19 bp):
TAAAACTAAAAATAAAATC
Found at i:5045208 original size:9 final size:9
Alignment explanation
Indices: 5045194--5045269 Score: 125
Period size: 9 Copynumber: 8.4 Consensus size: 9
5045184 GTAGTGATTC
5045194 AATTCGGTT
1 AATTCGGTT
5045203 AATTCGGTT
1 AATTCGGTT
*
5045212 AATTCGGGT
1 AATTCGGTT
*
5045221 AATCCGGTT
1 AATTCGGTT
5045230 AATTCGGTT
1 AATTCGGTT
*
5045239 AATTCGGGT
1 AATTCGGTT
5045248 AATTCGGTT
1 AATTCGGTT
5045257 AATTCGGTT
1 AATTCGGTT
5045266 AATT
1 AATT
5045270 TTTAACCAAA
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 61 1.00
ACGTcount: A:0.24, C:0.12, G:0.24, T:0.41
Consensus pattern (9 bp):
AATTCGGTT
Found at i:5045447 original size:12 final size:12
Alignment explanation
Indices: 5045430--5045454 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
5045420 TGTTATTTCG
5045430 GGTCGGTTAACC
1 GGTCGGTTAACC
5045442 GGTCGGTTAACC
1 GGTCGGTTAACC
5045454 G
1 G
5045455 AATGAACACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:5045896 original size:46 final size:45
Alignment explanation
Indices: 5045820--5046050 Score: 291
Period size: 46 Copynumber: 5.0 Consensus size: 45
5045810 TGGCAAAGTG
* * *
5045820 TGAAAATTAGGTATGGTATTTCGATAAAGAAAACTATATTGAGTTA
1 TGAAAAGTAGGTATGGTATTTCG-TGAAGAAAACCATATTGAGTTA
* *
5045866 TGAAAAGTAGGTATGGTATTCCAGTGAAGAAAACCATATTGAGTTG
1 TGAAAAGTAGGTATGGTATTTC-GTGAAGAAAACCATATTGAGTTA
* * * * *
5045912 TAAAAAGTAGGTATGGTATTTCGGTAAAGAAAACCATACTAAGTTG
1 TGAAAAGTAGGTATGGTATTTC-GTGAAGAAAACCATATTGAGTTA
* *
5045958 TGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATATTGAGTTC
1 TGAAAAGTAGGTATGGTATTTC-GTGAAGAAAACCATATTGAGTTA
* *
5046004 TGAAAAGTAGGTATGGTAATTCCGTGAAGAAAACCATACTGAGTTA
1 TGAAAAGTAGGTATGGT-ATTTCGTGAAGAAAACCATATTGAGTTA
5046050 T
1 T
5046051 AGCCTTGTGA
Statistics
Matches: 161, Mismatches: 22, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
46 157 0.98
47 4 0.02
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.30
Consensus pattern (45 bp):
TGAAAAGTAGGTATGGTATTTCGTGAAGAAAACCATATTGAGTTA
Found at i:5045944 original size:92 final size:92
Alignment explanation
Indices: 5045822--5046050 Score: 341
Period size: 92 Copynumber: 2.5 Consensus size: 92
5045812 GCAAAGTGTG
* * * *
5045822 AAAATTAGGTATGGTATTTCGATAAAGAAAACTATATTGAGTTATGAAAAGTAGGTATGGTATTC
1 AAAAGTAGGTATGGTATTTCGGTAAAGAAAACCATACTGAGTTATGAAAAGTAGGTATGGTATTC
*
5045887 CAGTGAAGAAAACCATATTGAGTTGTA
66 CAGTGAAGAAAACCATATTGAGTTCTA
* * * *
5045914 AAAAGTAGGTATGGTATTTCGGTAAAGAAAACCATACTAAGTTGTGAAAAGTAGGTATGGTGTTT
1 AAAAGTAGGTATGGTATTTCGGTAAAGAAAACCATACTGAGTTATGAAAAGTAGGTATGGTATTC
*
5045979 CAGTGAAGAAAACCATATTGAGTTCTG
66 CAGTGAAGAAAACCATATTGAGTTCTA
* * *
5046006 AAAAGTAGGTATGGTAATTCCGTGAAGAAAACCATACTGAGTTAT
1 AAAAGTAGGTATGGTATTTCGGTAAAGAAAACCATACTGAGTTAT
5046051 AGCCTTGTGA
Statistics
Matches: 122, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
92 122 1.00
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.30
Consensus pattern (92 bp):
AAAAGTAGGTATGGTATTTCGGTAAAGAAAACCATACTGAGTTATGAAAAGTAGGTATGGTATTC
CAGTGAAGAAAACCATATTGAGTTCTA
Found at i:5065168 original size:3 final size:3
Alignment explanation
Indices: 5065160--5065184 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
5065150 AATTTTTATC
5065160 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
5065185 TGAAACGGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:5076340 original size:33 final size:33
Alignment explanation
Indices: 5076298--5076384 Score: 129
Period size: 33 Copynumber: 2.6 Consensus size: 33
5076288 GAAGAGGGAT
* *
5076298 TAACAGGTATAGAAGATGAAGGTGAAATAGAGG
1 TAACAGGTATAGAAGGTGAAGGAGAAATAGAGG
* * *
5076331 TAACTGGTATAGAGGGTGAAGGAGATATAGAGG
1 TAACAGGTATAGAAGGTGAAGGAGAAATAGAGG
5076364 TAACAGGTATAGAAGGTGAAG
1 TAACAGGTATAGAAGGTGAAG
5076385 CTACAGGCTC
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 47 1.00
ACGTcount: A:0.41, C:0.03, G:0.36, T:0.20
Consensus pattern (33 bp):
TAACAGGTATAGAAGGTGAAGGAGAAATAGAGG
Found at i:5076344 original size:15 final size:15
Alignment explanation
Indices: 5076324--5076376 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 15
5076314 TGAAGGTGAA
*
5076324 ATAGAGGTAACTGGT
1 ATAGAGGTAACAGGT
* *
5076339 ATAGAGGGTGAAGGAGAT
1 ATAGA-GGT-AA-CAGGT
5076357 ATAGAGGTAACAGGT
1 ATAGAGGTAACAGGT
5076372 ATAGA
1 ATAGA
5076377 AGGTGAAGCT
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
15 13 0.43
16 5 0.17
17 5 0.17
18 7 0.23
ACGTcount: A:0.40, C:0.04, G:0.36, T:0.21
Consensus pattern (15 bp):
ATAGAGGTAACAGGT
Found at i:5081319 original size:11 final size:12
Alignment explanation
Indices: 5081296--5081324 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
5081286 TATTTGATTG
5081296 TAATATCAATAA
1 TAATATCAATAA
5081308 TAATAT-AATAA
1 TAATATCAATAA
5081319 TAATAT
1 TAATAT
5081325 TATTAATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (12 bp):
TAATATCAATAA
Found at i:5081331 original size:23 final size:23
Alignment explanation
Indices: 5081296--5081344 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
5081286 TATTTGATTG
*
5081296 TAATATCAATAA-TAATATAATAA
1 TAATATCAATAATTAAT-TAAAAA
* *
5081319 TAATATTATTAATTAATTAAAAA
1 TAATATCAATAATTAATTAAAAA
5081342 TAA
1 TAA
5081345 AATAGCAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 18 0.82
24 4 0.18
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (23 bp):
TAATATCAATAATTAATTAAAAA
Found at i:5083147 original size:21 final size:20
Alignment explanation
Indices: 5083118--5083156 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
5083108 TTAACAAGAT
5083118 TGTTGATATAATATCATTTTA
1 TGTTGATATAATAT-ATTTTA
* *
5083139 TGTTTATATATTATATTT
1 TGTTGATATAATATATTT
5083157 ATTCAATATA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.31, C:0.03, G:0.08, T:0.59
Consensus pattern (20 bp):
TGTTGATATAATATATTTTA
Found at i:5083316 original size:29 final size:27
Alignment explanation
Indices: 5083250--5083316 Score: 62
Period size: 31 Copynumber: 2.3 Consensus size: 27
5083240 GTGTTTCACG
* *
5083250 TGTATAATTGCATCAAATTAAAGTTCA
1 TGTATAATTGCATCAAATCAAAATTCA
* *
5083277 TGTATACAATTGTACATTAAATCAAAATTTA
1 TGTAT--AATTG--CATCAAATCAAAATTCA
5083308 TGTATAATT
1 TGTATAATT
5083317 TTAAGATTTG
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
27 5 0.16
29 9 0.28
31 18 0.56
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (27 bp):
TGTATAATTGCATCAAATCAAAATTCA
Found at i:5084962 original size:11 final size:11
Alignment explanation
Indices: 5084948--5084980 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
5084938 TTTCTTTTTT
5084948 TTTGTTATATA
1 TTTGTTATATA
5084959 TTTGTTATATA
1 TTTGTTATATA
*
5084970 TATG-TATATA
1 TTTGTTATATA
5084980 T
1 T
5084981 AGTTTTTAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
10 7 0.33
11 14 0.67
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.61
Consensus pattern (11 bp):
TTTGTTATATA
Found at i:5088997 original size:17 final size:17
Alignment explanation
Indices: 5088975--5089010 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
5088965 TGGCCATTAA
5088975 AATTATAATT-ATAGATT
1 AATTATAATTGATA-ATT
5088992 AATTATAATTGATAATT
1 AATTATAATTGATAATT
5089009 AA
1 AA
5089011 GTGAATTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 15 0.83
18 3 0.17
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
AATTATAATTGATAATT
Found at i:5092508 original size:25 final size:25
Alignment explanation
Indices: 5092447--5092508 Score: 63
Period size: 25 Copynumber: 2.4 Consensus size: 25
5092437 TATAAAAAAT
* * *
5092447 ATATCAAATAAAAATTTTAAGTATCA
1 ATATTAAA-AAAAATGTTAAGTATAA
*
5092473 A-ATTAAGAAAAAATGTTAAGTTTAA
1 ATATTAA-AAAAAATGTTAAGTATAA
5092498 ATATTAAAAAA
1 ATATTAAAAAA
5092509 TATTATCGGT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
25 23 0.77
26 7 0.23
ACGTcount: A:0.58, C:0.03, G:0.06, T:0.32
Consensus pattern (25 bp):
ATATTAAAAAAAATGTTAAGTATAA
Found at i:5094129 original size:19 final size:18
Alignment explanation
Indices: 5094099--5094136 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
5094089 TGAGGGAAAG
5094099 AGAAAAATAAAGA-TAAA
1 AGAAAAATAAAGAGTAAA
5094116 AGAATAAATAAAAGAGTAAA
1 AGAA-AAAT-AAAGAGTAAA
5094136 A
1 A
5094137 TAACTATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.22
18 4 0.22
19 5 0.28
20 5 0.28
ACGTcount: A:0.74, C:0.00, G:0.13, T:0.13
Consensus pattern (18 bp):
AGAAAAATAAAGAGTAAA
Found at i:5096119 original size:6 final size:6
Alignment explanation
Indices: 5096110--5096143 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
5096100 CAAAAAAAAA
*
5096110 AACAAG AACATG AACATG AACATG AACATG AACA
1 AACATG AACATG AACATG AACATG AACATG AACA
5096144 AACATGGCCT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.56, C:0.18, G:0.15, T:0.12
Consensus pattern (6 bp):
AACATG
Found at i:5096390 original size:19 final size:20
Alignment explanation
Indices: 5096351--5096390 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
5096341 AAATCAGAAT
*
5096351 TAAATTATTATTTTTTAGAC
1 TAAATTATTAATTTTTAGAC
*
5096371 TAAATTA-TAATTTTTGGAC
1 TAAATTATTAATTTTTAGAC
5096390 T
1 T
5096391 TACGCAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.35, C:0.05, G:0.07, T:0.53
Consensus pattern (20 bp):
TAAATTATTAATTTTTAGAC
Found at i:5100721 original size:17 final size:17
Alignment explanation
Indices: 5100699--5100734 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
5100689 CGGCCATTAA
5100699 AATTATAATT-ATAGATT
1 AATTATAATTGATA-ATT
5100716 AATTATAATTGATAATT
1 AATTATAATTGATAATT
5100733 AA
1 AA
5100735 GTGAATTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 15 0.83
18 3 0.17
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
AATTATAATTGATAATT
Found at i:5103860 original size:40 final size:40
Alignment explanation
Indices: 5103805--5103886 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
5103795 GGTAGTCCAA
5103805 TTAAGTTCACTCAATAAAAAGTGACCCAAATTCAATTTTT
1 TTAAGTTCACTCAATAAAAAGTGACCCAAATTCAATTTTT
5103845 TTAAGTTCACTCAATAAAAAGTGACCCAAATTCAATTTTT
1 TTAAGTTCACTCAATAAAAAGTGACCCAAATTCAATTTTT
5103885 TT
1 TT
5103887 TTCTAAATAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.39, C:0.17, G:0.07, T:0.37
Consensus pattern (40 bp):
TTAAGTTCACTCAATAAAAAGTGACCCAAATTCAATTTTT
Found at i:5104207 original size:27 final size:26
Alignment explanation
Indices: 5104172--5104256 Score: 91
Period size: 31 Copynumber: 3.1 Consensus size: 26
5104162 TTGATATATA
5104172 TTTTTAATTTGATACTTAATTTGTTT
1 TTTTTAATTTGATACTTAATTTGTTT
*
5104198 TTTTTCAATTTGAAACTTAAATTTGACTCTT
1 TTTTT-AATTTGATACTT-AATTTG--T-TT
*
5104229 TTTCTTAATTTGATACCTAATTT-TTT
1 TTT-TTAATTTGATACTTAATTTGTTT
5104255 TT
1 TT
5104257 AACAAAAATA
Statistics
Matches: 50, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
26 9 0.18
27 12 0.24
28 6 0.12
30 6 0.12
31 15 0.30
32 2 0.04
ACGTcount: A:0.25, C:0.09, G:0.06, T:0.60
Consensus pattern (26 bp):
TTTTTAATTTGATACTTAATTTGTTT
Found at i:5108381 original size:15 final size:15
Alignment explanation
Indices: 5108361--5108438 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
5108351 TTTATGGAAA
5108361 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* **
5108376 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
5108390 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
5108406 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
5108420 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
5108436 ATC
1 ATC
5108439 GAGATATTGG
Statistics
Matches: 47, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
14 8 0.17
15 31 0.66
16 8 0.17
ACGTcount: A:0.42, C:0.08, G:0.23, T:0.27
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:5108389 original size:30 final size:30
Alignment explanation
Indices: 5108355--5108448 Score: 161
Period size: 30 Copynumber: 3.1 Consensus size: 30
5108345 TCCATATTTA
*
5108355 TGGAAAATCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
5108385 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
5108415 TGGAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATC-AAATAT
5108446 TGG
1 TGG
5108449 CATAATAAAA
Statistics
Matches: 61, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
30 53 0.87
31 8 0.13
ACGTcount: A:0.41, C:0.06, G:0.26, T:0.27
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGGGTATCAAATAT
Found at i:5113047 original size:15 final size:15
Alignment explanation
Indices: 5113027--5113104 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
5113017 TTTATGGAAA
5113027 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* **
5113042 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
5113056 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
5113072 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
5113086 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
5113102 ATC
1 ATC
5113105 GAGATATTGG
Statistics
Matches: 47, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
14 8 0.17
15 31 0.66
16 8 0.17
ACGTcount: A:0.42, C:0.08, G:0.23, T:0.27
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:5113055 original size:30 final size:30
Alignment explanation
Indices: 5113021--5113114 Score: 161
Period size: 30 Copynumber: 3.1 Consensus size: 30
5113011 TCCATATTTA
*
5113021 TGGAAAATCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
5113051 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
5113081 TGGAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATC-AAATAT
5113112 TGG
1 TGG
5113115 CATAATAAAA
Statistics
Matches: 61, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
30 53 0.87
31 8 0.13
ACGTcount: A:0.41, C:0.06, G:0.26, T:0.27
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGGGTATCAAATAT
Found at i:5120548 original size:24 final size:24
Alignment explanation
Indices: 5120510--5120557 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
5120500 TATTTATTAG
*
5120510 TATTTATTAGTATAATATATTTAA
1 TATTTATTAGTATAAAATATTTAA
*
5120534 TATTTATTA-TCATAAAATCTTTAA
1 TATTTATTAGT-ATAAAATATTTAA
5120558 AGCTTTAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (24 bp):
TATTTATTAGTATAAAATATTTAA
Found at i:5122708 original size:24 final size:24
Alignment explanation
Indices: 5122681--5122811 Score: 172
Period size: 24 Copynumber: 5.5 Consensus size: 24
5122671 AAAGACTGCT
*
5122681 GGGATGCCTCCCAACAACATGGGA
1 GGGATGCCACCCAACAACATGGGA
**
5122705 GGGATGCCACCCCGCAACATGGGA
1 GGGATGCCACCCAACAACATGGGA
* * *
5122729 GGGATGCCTCCCCAGAACATGGGA
1 GGGATGCCACCCAACAACATGGGA
5122753 GGGATGCCACCCAACAACATGGGA
1 GGGATGCCACCCAACAACATGGGA
* *
5122777 AGGATGCCACCCAACAATATGGGA
1 GGGATGCCACCCAACAACATGGGA
* *
5122801 GGAATGACACC
1 GGGATGCCACC
5122812 GAATCAAGGA
Statistics
Matches: 93, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 93 1.00
ACGTcount: A:0.31, C:0.29, G:0.30, T:0.11
Consensus pattern (24 bp):
GGGATGCCACCCAACAACATGGGA
Found at i:5133818 original size:25 final size:26
Alignment explanation
Indices: 5133788--5133838 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
5133778 TATTTTTATT
*
5133788 TTTTTA-TAATTAAATCTGAATATAA
1 TTTTTATTAATTAAATCTAAATATAA
* *
5133813 TTTTTATTATTTAAATTTAAATATAA
1 TTTTTATTAATTAAATCTAAATATAA
5133839 AATTAACTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 6 0.27
26 16 0.73
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (26 bp):
TTTTTATTAATTAAATCTAAATATAA
Found at i:5133833 original size:32 final size:32
Alignment explanation
Indices: 5133767--5133834 Score: 79
Period size: 32 Copynumber: 2.1 Consensus size: 32
5133757 AAAGTATTAA
*
5133767 AAATCTAATTATATTTTTATTTTTTTATAATT
1 AAATCTAATTATATTTTTATTTATTTATAATT
5133799 AAATCTGAA-TATAATTTTTA-TTATTTA-AATTT
1 AAATCT-AATTAT-ATTTTTATTTATTTATAA-TT
5133831 AAAT
1 AAAT
5133835 ATAAAATTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
31 2 0.06
32 21 0.66
33 9 0.28
ACGTcount: A:0.40, C:0.03, G:0.01, T:0.56
Consensus pattern (32 bp):
AAATCTAATTATATTTTTATTTATTTATAATT
Found at i:5136984 original size:159 final size:159
Alignment explanation
Indices: 5136695--5137041 Score: 624
Period size: 159 Copynumber: 2.2 Consensus size: 159
5136685 AGTATCCGTG
* *
5136695 ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATGCACCAAGCTGTTACTCTGCACTGAGTTCGTTA
1 ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATGCACCAAGCTGTCACTCGGCACTGAGTTCGTTA
* *
5136760 GATCTGTTTGATTCTGACCTGGTACACTTGATTGAAATTGCCCAGTATGCTGAGAGTTCGAGTGA
66 GATCTGTTTGACTCTGACCTGCTACACTTGATTGAAATTGCCCAGTATGCTGAGAGTTCGAGTGA
5136825 TGAATCAGAGTCTGGTACTGACGTGTTTC
131 TGAATCAGAGTCTGGTACTGACGTGTTTC
5136854 ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATGCACCAAGCTGTCACTCGGCACTGAGTTCGTTA
1 ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATGCACCAAGCTGTCACTCGGCACTGAGTTCGTTA
*
5136919 GATCTGTTTGACTCTGACCTGCTACA-TTCGATTGAAATTGCCCAGTATGCTGAGAGTTTGAGTG
66 GATCTGTTTGACTCTGACCTGCTACACTT-GATTGAAATTGCCCAGTATGCTGAGAGTTCGAGTG
*
5136983 ATGAATCAGAGTCTGGTTCTGACGTGTTTC
130 ATGAATCAGAGTCTGGTACTGACGTGTTTC
5137013 ATTCAATTGAGGTTGGCTTGTTGGTTGAG
1 ATTCAATTGAGGTTGGCTTGTTGGTTGAG
5137042 TATGTTCCCT
Statistics
Matches: 181, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
158 2 0.01
159 179 0.99
ACGTcount: A:0.21, C:0.17, G:0.28, T:0.35
Consensus pattern (159 bp):
ATTCAATTGAGGTTGGCTTGTTGGTTGAGGATGCACCAAGCTGTCACTCGGCACTGAGTTCGTTA
GATCTGTTTGACTCTGACCTGCTACACTTGATTGAAATTGCCCAGTATGCTGAGAGTTCGAGTGA
TGAATCAGAGTCTGGTACTGACGTGTTTC
Found at i:5142586 original size:21 final size:22
Alignment explanation
Indices: 5142562--5142608 Score: 87
Period size: 21 Copynumber: 2.2 Consensus size: 22
5142552 AGCTTTTGGT
5142562 TTTTAGCTCACTTTCCAAGTC-
1 TTTTAGCTCACTTTCCAAGTCG
5142583 TTTTAGCTCACTTTCCAAGTCG
1 TTTTAGCTCACTTTCCAAGTCG
5142605 TTTT
1 TTTT
5142609 TTCCCCCAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 21 0.84
22 4 0.16
ACGTcount: A:0.17, C:0.26, G:0.11, T:0.47
Consensus pattern (22 bp):
TTTTAGCTCACTTTCCAAGTCG
Found at i:5152085 original size:24 final size:24
Alignment explanation
Indices: 5152040--5152119 Score: 97
Period size: 24 Copynumber: 3.3 Consensus size: 24
5152030 ACCAGTCAAC
** *
5152040 CCACCATAAACAGTTGAACCTGGT
1 CCACCATAGCCAGCTGAACCTGGT
* *
5152064 CCGCCATAGCCAGCTGATCCTGGT
1 CCACCATAGCCAGCTGAACCTGGT
* *
5152088 CCACCATAGCCAGTTGAACCTTGT
1 CCACCATAGCCAGCTGAACCTGGT
5152112 CCACCATA
1 CCACCATA
5152120 CCCACCATAC
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.26, C:0.35, G:0.17, T:0.21
Consensus pattern (24 bp):
CCACCATAGCCAGCTGAACCTGGT
Found at i:5153563 original size:25 final size:25
Alignment explanation
Indices: 5153499--5153563 Score: 62
Period size: 25 Copynumber: 2.6 Consensus size: 25
5153489 TAAAGAAATA
* *
5153499 AATATATCAATTTATTTTTATATTG
1 AATATATAAATTTATTTATATATTG
* *
5153524 AATAAATATAA-TTATTTATGTATCT-
1 AATATATA-AATTTATTTATATAT-TG
5153549 AATATATAAATTTAT
1 AATATATAAATTTAT
5153564 AATGATGTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
24 2 0.06
25 27 0.84
26 3 0.09
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (25 bp):
AATATATAAATTTATTTATATATTG
Found at i:5158346 original size:22 final size:22
Alignment explanation
Indices: 5158321--5158365 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
5158311 AAAAAAATAA
5158321 GAAAATAACAGCAAAACAGTGG
1 GAAAATAACAGCAAAACAGTGG
* *
5158343 GAAAATAGCAGCAAAGCAGTGG
1 GAAAATAACAGCAAAACAGTGG
5158365 G
1 G
5158366 TTTTTTTTGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.13, G:0.29, T:0.09
Consensus pattern (22 bp):
GAAAATAACAGCAAAACAGTGG
Found at i:5164944 original size:17 final size:17
Alignment explanation
Indices: 5164908--5164940 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
5164898 ATTTAAATGA
5164908 AACTGCATACATATTAC
1 AACTGCATACATATTAC
*
5164925 AACT-CATACGTATTAC
1 AACTGCATACATATTAC
5164941 CAACAACAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.39, C:0.24, G:0.06, T:0.30
Consensus pattern (17 bp):
AACTGCATACATATTAC
Found at i:5169691 original size:40 final size:40
Alignment explanation
Indices: 5169647--5169725 Score: 158
Period size: 40 Copynumber: 2.0 Consensus size: 40
5169637 CTAATTTATA
5169647 CTCTATTTTCTGAGCAAGAAGACTATCCTTTTATCTTGAT
1 CTCTATTTTCTGAGCAAGAAGACTATCCTTTTATCTTGAT
5169687 CTCTATTTTCTGAGCAAGAAGACTATCCTTTTATCTTGA
1 CTCTATTTTCTGAGCAAGAAGACTATCCTTTTATCTTGA
5169726 CCTTTATTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.25, C:0.20, G:0.13, T:0.42
Consensus pattern (40 bp):
CTCTATTTTCTGAGCAAGAAGACTATCCTTTTATCTTGAT
Found at i:5169940 original size:15 final size:16
Alignment explanation
Indices: 5169920--5169951 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
5169910 TACTAGATAG
5169920 ATATGAAATAA-TATA
1 ATATGAAATAAGTATA
5169935 ATATGAAATAAGTATA
1 ATATGAAATAAGTATA
5169951 A
1 A
5169952 AGTTTAAGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.31
Consensus pattern (16 bp):
ATATGAAATAAGTATA
Found at i:5174151 original size:21 final size:22
Alignment explanation
Indices: 5174118--5174159 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
5174108 GATGAGGGTA
*
5174118 AAAAAATTGTATAAT-AAAATTT
1 AAAAAATTATAT-ATGAAAATTT
5174140 AAAAAA-TATATATGAAAATT
1 AAAAAATTATATATGAAAATT
5174160 AAATGTAGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
20 2 0.11
21 10 0.56
22 6 0.33
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (22 bp):
AAAAAATTATATATGAAAATTT
Found at i:5174412 original size:9 final size:9
Alignment explanation
Indices: 5174400--5174436 Score: 51
Period size: 8 Copynumber: 4.3 Consensus size: 9
5174390 TAATATATTC
5174400 TTTTATAAT
1 TTTTATAAT
5174409 TTTTA-AAT
1 TTTTATAAT
*
5174417 TTTTTTAAT
1 TTTTATAAT
5174426 TTTT-TAAT
1 TTTTATAAT
5174434 TTT
1 TTT
5174437 AGATTGTGCT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
8 14 0.54
9 12 0.46
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (9 bp):
TTTTATAAT
Found at i:5174425 original size:17 final size:17
Alignment explanation
Indices: 5174400--5174436 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
5174390 TAATATATTC
5174400 TTTTATAATTTTTAAAT
1 TTTTATAATTTTTAAAT
* *
5174417 TTTTTTAATTTTTTAAT
1 TTTTATAATTTTTAAAT
5174434 TTT
1 TTT
5174437 AGATTGTGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTTATAATTTTTAAAT
Found at i:5174732 original size:21 final size:22
Alignment explanation
Indices: 5174693--5174733 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
5174683 CAATTTTTTT
*
5174693 CATTTTTAATTATTGATTTAAG
1 CATTTTAAATTATTGATTTAAG
*
5174715 CATTTTAAATT-TTTATTTA
1 CATTTTAAATTATTGATTTA
5174734 TGTTTTTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.59
Consensus pattern (22 bp):
CATTTTAAATTATTGATTTAAG
Found at i:5176985 original size:13 final size:14
Alignment explanation
Indices: 5176964--5176992 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
5176954 GTTGATTAAA
5176964 AATTAAAATTAACT
1 AATTAAAATTAACT
5176978 AATT-AAATTAACT
1 AATTAAAATTAACT
5176991 AA
1 AA
5176993 AGAAAGAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAAATTAACT
Found at i:5177825 original size:15 final size:15
Alignment explanation
Indices: 5177805--5177834 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
5177795 AAATCTACAC
5177805 AGTCTAGCACATGGT
1 AGTCTAGCACATGGT
5177820 AGTCTAGCACATGGT
1 AGTCTAGCACATGGT
5177835 CATGTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (15 bp):
AGTCTAGCACATGGT
Found at i:5194881 original size:26 final size:27
Alignment explanation
Indices: 5194831--5194881 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
5194821 AACCATTTTT
**
5194831 TAAAAAGAATAAAAATTAGTTGTCGAC
1 TAAAAAGAATAAAAATTAGGAGTCGAC
*
5194858 TAAAAA-AATAAAAATTGGGAGTCG
1 TAAAAAGAATAAAAATTAGGAGTCG
5194882 CCACCAATCT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 15 0.71
27 6 0.29
ACGTcount: A:0.53, C:0.06, G:0.18, T:0.24
Consensus pattern (27 bp):
TAAAAAGAATAAAAATTAGGAGTCGAC
Found at i:5197888 original size:30 final size:33
Alignment explanation
Indices: 5197854--5197914 Score: 92
Period size: 30 Copynumber: 1.9 Consensus size: 33
5197844 ATAGCTACAC
5197854 ATAAATATT-AAAAACTT-AATTAAA-AATTAT
1 ATAAATATTCAAAAACTTAAATTAAACAATTAT
*
5197884 ATAAATATTCAAAAAGTTAAATTAAACAATT
1 ATAAATATTCAAAAACTTAAATTAAACAATT
5197915 CCAATAGTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 9 0.33
31 7 0.26
32 7 0.26
33 4 0.15
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (33 bp):
ATAAATATTCAAAAACTTAAATTAAACAATTAT
Found at i:5199494 original size:59 final size:57
Alignment explanation
Indices: 5199389--5199545 Score: 138
Period size: 58 Copynumber: 2.7 Consensus size: 57
5199379 ATCAAAGTTT
* * * * * * *
5199389 ACCTCCAAAGTTTATACATTTTATTAATTTGATTCAAAATCTAAAAATTGAATAAATTTA
1 ACCT-CAAAGTTTATAAAATTTA-TCATTTAATTCTAATTCTAAAAA-TCAATAAATTTA
*
5199449 GCC-CTAAAGTTTATAAAATTTATCATTTAATTCTAATTCTAAAAAATCAATAAATTTA
1 ACCTC-AAAGTTTATAAAATTTATCATTTAATTCTAATTCT-AAAAATCAATAAATTTA
* * *
5199507 ATCTCAACA-TTTACAAAATTTGTCAATTTAATTCTAATT
1 ACCTCAA-AGTTTATAAAATTTATC-ATTTAATTCTAATT
5199546 TTATTGGTAT
Statistics
Matches: 80, Mismatches: 12, Indels: 11
0.78 0.12 0.11
Matches are distributed among these distances:
58 42 0.52
59 36 0.45
60 2 0.03
ACGTcount: A:0.43, C:0.13, G:0.04, T:0.41
Consensus pattern (57 bp):
ACCTCAAAGTTTATAAAATTTATCATTTAATTCTAATTCTAAAAATCAATAAATTTA
Found at i:5222973 original size:16 final size:16
Alignment explanation
Indices: 5222954--5223012 Score: 59
Period size: 16 Copynumber: 3.8 Consensus size: 16
5222944 AGTGAAATAA
5222954 AATTCGAGTTAAGTCG
1 AATTCGAGTTAAGTCG
* * *
5222970 AATT-GAGTGAA-ACC
1 AATTCGAGTTAAGTCG
*
5222984 ATATTCGAGTTAAGTTG
1 A-ATTCGAGTTAAGTCG
5223001 AATTCGAGTTAA
1 AATTCGAGTTAA
5223013 ATTAAAAAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
14 2 0.06
15 9 0.27
16 21 0.64
17 1 0.03
ACGTcount: A:0.36, C:0.10, G:0.22, T:0.32
Consensus pattern (16 bp):
AATTCGAGTTAAGTCG
Found at i:5222976 original size:31 final size:31
Alignment explanation
Indices: 5222936--5223019 Score: 96
Period size: 31 Copynumber: 2.6 Consensus size: 31
5222926 TTTTTTCAAA
*
5222936 TCGATTTGAGTGAAATAAAATTCGAGTTAAG
1 TCGAATTGAGTGAAATAAAATTCGAGTTAAG
** *
5222967 TCGAATTGAGTGAAACCATATTCGAGTTAAG
1 TCGAATTGAGTGAAATAAAATTCGAGTTAAG
* *
5222998 TTGAATTCGAGTTAAATTAAAA
1 TCGAATT-GAGTGAAA-TAAAA
5223020 AAAATTAAAC
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
31 33 0.79
32 7 0.17
33 2 0.05
ACGTcount: A:0.39, C:0.08, G:0.20, T:0.32
Consensus pattern (31 bp):
TCGAATTGAGTGAAATAAAATTCGAGTTAAG
Found at i:5223276 original size:46 final size:45
Alignment explanation
Indices: 5223193--5223286 Score: 120
Period size: 47 Copynumber: 2.1 Consensus size: 45
5223183 AAGATTATTA
* * *
5223193 TTTTAGAATATTTTAAAATTTAAACTTTTTTATATATTTTTAGAATT
1 TTTTAGAATATTTTAAAATATAAACTTTTGTAAATA-TTTT-GAATT
5223240 TTTTAGAAT-TTTTAAAAATATAAA-TTTTGTAAATATTTTGAATT
1 TTTTAGAATATTTT-AAAATATAAACTTTTGTAAATATTTTGAATT
5223284 TTT
1 TTT
5223287 AAAATTATTT
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
44 8 0.19
45 4 0.09
46 13 0.30
47 18 0.42
ACGTcount: A:0.37, C:0.01, G:0.05, T:0.56
Consensus pattern (45 bp):
TTTTAGAATATTTTAAAATATAAACTTTTGTAAATATTTTGAATT
Found at i:5223287 original size:34 final size:35
Alignment explanation
Indices: 5223223--5223290 Score: 95
Period size: 35 Copynumber: 2.0 Consensus size: 35
5223213 TAAACTTTTT
* *
5223223 TATATATTTTTAGAATTTTTTAGAATTTTTAAAAA
1 TATAAATTTTTAGAATATTTTAGAATTTTTAAAAA
5223258 TATAAATTTTGTA-AATATTTT-GAATTTTTAAAA
1 TATAAATTTT-TAGAATATTTTAGAATTTTTAAAA
5223291 TTATTTTGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
34 12 0.40
35 16 0.53
36 2 0.07
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (35 bp):
TATAAATTTTTAGAATATTTTAGAATTTTTAAAAA
Found at i:5223295 original size:19 final size:18
Alignment explanation
Indices: 5223228--5223305 Score: 72
Period size: 19 Copynumber: 4.3 Consensus size: 18
5223218 TTTTTTATAT
* *
5223228 ATTTTTAGAATTTTTTAGA
1 ATTTTTAAAATATTTT-GA
* *
5223247 ATTTTTAAAA-A-TATAA
1 ATTTTTAAAATATTTTGA
5223263 ATTTTGT-AAATATTTTGA
1 ATTTT-TAAAATATTTTGA
5223281 ATTTTTAAAATTATTTTGA
1 ATTTTTAAAA-TATTTTGA
5223300 ATTTTT
1 ATTTTT
5223306 TGTTGAGAGA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
16 9 0.19
17 5 0.10
18 11 0.23
19 23 0.48
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.56
Consensus pattern (18 bp):
ATTTTTAAAATATTTTGA
Found at i:5223761 original size:59 final size:59
Alignment explanation
Indices: 5223685--5223798 Score: 201
Period size: 59 Copynumber: 1.9 Consensus size: 59
5223675 AACTTCAAGC
*
5223685 AAGCTCTTGTAAACTAATTTAGGTTAACTATACAATAAAAATAGGATATTTTGAGGTTG
1 AAGCTCTTGTAAACTAATGTAGGTTAACTATACAATAAAAATAGGATATTTTGAGGTTG
* *
5223744 AAGCTCTTGTAACCTAATGTAGGTTAACTATACAATATAAATAGGATATTTTGAG
1 AAGCTCTTGTAAACTAATGTAGGTTAACTATACAATAAAAATAGGATATTTTGAG
5223799 AGAGACTGAG
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 52 1.00
ACGTcount: A:0.39, C:0.10, G:0.17, T:0.35
Consensus pattern (59 bp):
AAGCTCTTGTAAACTAATGTAGGTTAACTATACAATAAAAATAGGATATTTTGAGGTTG
Found at i:5228649 original size:7 final size:7
Alignment explanation
Indices: 5228639--5228688 Score: 54
Period size: 7 Copynumber: 7.4 Consensus size: 7
5228629 AAAAAAAAAC
5228639 AAAATGA
1 AAAATGA
5228646 AAAATGAA
1 AAAATG-A
5228654 AAAAT-A
1 AAAATGA
5228660 AAAA--A
1 AAAATGA
5228665 ATAAATGA
1 A-AAATGA
5228673 AAAATGA
1 AAAATGA
5228680 AAAA-GA
1 AAAATGA
5228686 AAA
1 AAA
5228689 GAGAAAAAGG
Statistics
Matches: 39, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
5 2 0.05
6 13 0.33
7 16 0.41
8 8 0.21
ACGTcount: A:0.78, C:0.00, G:0.10, T:0.12
Consensus pattern (7 bp):
AAAATGA
Found at i:5228657 original size:20 final size:20
Alignment explanation
Indices: 5228632--5228676 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
5228622 TCACTTGAAA
*
5228632 AAAAAACAAAATGAA-AAATG
1 AAAAAACAAAA-AAATAAATG
*
5228652 AAAAAATAAAAAAATAAATG
1 AAAAAACAAAAAAATAAATG
5228672 AAAAA
1 AAAAA
5228677 TGAAAAAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 2 0.09
20 20 0.91
ACGTcount: A:0.80, C:0.02, G:0.07, T:0.11
Consensus pattern (20 bp):
AAAAAACAAAAAAATAAATG
Found at i:5228670 original size:27 final size:28
Alignment explanation
Indices: 5228631--5228683 Score: 90
Period size: 27 Copynumber: 1.9 Consensus size: 28
5228621 TTCACTTGAA
5228631 AAAAAAACAAAATGAAAAATGAAAAAAT
1 AAAAAAACAAAATGAAAAATGAAAAAAT
*
5228659 AAAAAAA-TAAATGAAAAATGAAAAA
1 AAAAAAACAAAATGAAAAATGAAAAA
5228684 GAAAAGAGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
27 17 0.71
28 7 0.29
ACGTcount: A:0.79, C:0.02, G:0.08, T:0.11
Consensus pattern (28 bp):
AAAAAAACAAAATGAAAAATGAAAAAAT
Found at i:5229224 original size:108 final size:108
Alignment explanation
Indices: 5229035--5229230 Score: 313
Period size: 108 Copynumber: 1.8 Consensus size: 108
5229025 TTTGTATTCT
5229035 AGCAAAATTTGCTATCTTGATTAATTTGTTCATTTAGAGCTTTGCTCTCAACAAATTTCCATTTT
1 AGCAAAATTTGCTATCTTGATTAATTTGTTCATTTAGAGCTTTGCTCTCAACAAATTTCCATTTT
5229100 ATCCATTGTGATAATCTTTTTCATCTTATACATCTCGTATCTC
66 ATCCATTGTGATAATCTTTTTCATCTTATACATCTCGTATCTC
* * **
5229143 AGCAAAATTTGCTGTCTTGATTAATTTTTTTGTTTAGAGCTTTGCTCTCAACAAAATTT-CATTT
1 AGCAAAATTTGCTATCTTGATTAATTTGTTCATTTAGAGCTTTGCTCTCAAC-AAATTTCCATTT
* * *
5229207 TGTCTATTTTGATAATCTTTTTCA
65 TATCCATTGTGATAATCTTTTTCA
5229231 AGCATTTTTC
Statistics
Matches: 80, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
108 74 0.93
109 6 0.08
ACGTcount: A:0.26, C:0.17, G:0.10, T:0.47
Consensus pattern (108 bp):
AGCAAAATTTGCTATCTTGATTAATTTGTTCATTTAGAGCTTTGCTCTCAACAAATTTCCATTTT
ATCCATTGTGATAATCTTTTTCATCTTATACATCTCGTATCTC
Found at i:5229814 original size:87 final size:87
Alignment explanation
Indices: 5229687--5230535 Score: 1038
Period size: 87 Copynumber: 9.7 Consensus size: 87
5229677 ACCTCCATCA
* * ** *
5229687 GTTGCAGTAGAGCTGGTCAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGA
1 GTTGTAGTGGAGCTGGTTGAAGACAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGA
*
5229752 AAACAAAACCTTGCCTCCCTCG
66 AAACAAAACCTTGCCTCTCTCG
* * *
5229774 TTTGTAGTGGAGCCGATTGAAGACAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGA
1 GTTGTAGTGGAGCTGGTTGAAGACAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGA
*
5229839 AAACAAAACCTTGCCTCCCTCG
66 AAACAAAACCTTGCCTCTCTCG
* * * *
5229861 TTTGTAGTGGAACCGGTTGAAGACAGCAGATCTTGCCTTCCTGCATTAACAACGAAGCAGATCGA
1 GTTGTAGTGGAGCTGGTTGAAGACAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGA
*
5229926 AAACACAAACCTTGCCTCTCTTG
66 AAACA-AAACCTTGCCTCTCTCG
* ** * * *
5229949 GGTGTAGCAGAGCTGGTTGAAGACAGCAGATCTTGCCTTCCTACATTAACAGTGAAACAGATCGA
1 GTTGTAGTGGAGCTGGTTGAAGACAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGA
* *
5230014 AAACAAAACCTTGTCTTTCTCG
66 AAACAAAACCTTGCCTCTCTCG
* ** * *
5230036 GGTGTAGCAGAGCTGGTTGAAGACAGCAGATCTTGTCTTCCTGCATTAACAGTGAAGCAGATCGA
1 GTTGTAGTGGAGCTGGTTGAAGACAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGA
*
5230101 AGACACAAACCTTGCCTCTCTCG
66 AAACA-AAACCTTGCCTCTCTCG
* ** * *
5230124 GGTGTAGCAGAGCTGG-TGAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATTGA
1 GTTGTAGTGGAGCTGGTTGAAGACAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGA
* * *
5230188 AGACACAAACCTTGTCTCTCTCA
66 AAACA-AAACCTTGCCTCTCTCG
* * * * *
5230211 GTTGTGGTGGAGCTGGTTAAAGACAACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGA
1 GTTGTAGTGGAGCTGGTTGAAGACAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGA
*
5230276 AGACACAAACCTTGCCTCTCTCG
66 AAACA-AAACCTTGCCTCTCTCG
* * * *
5230299 GTTGTAGTGGAGCTGGTTGAAGATAACAGATCTTGCCTTCTTGTATTAACAGCGAAGCAGATCGA
1 GTTGTAGTGGAGCTGGTTGAAGACAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGA
* *
5230364 AAACAAAACATTGCCTC-CATCA
66 AAACAAAACCTTGCCTCTC-TCG
* * * * * * * *
5230386 GTTGCAGTGGAGCTGGTTAAAAATAGCAGATTTTGCATTCCTGCGTTAACAGAGAAGCAGATCGA
1 GTTGTAGTGGAGCTGGTTGAAGACAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGA
*
5230451 AAACAAAACCTTACCTC-CATCG
66 AAACAAAACCTTGCCTCTC-TCG
* * * * * * *
5230473 GTTGCAGTGGAGCTGGTTGAAGATATCAGATCTTGCCTTCCTGTAGTAACGGCGAAGCGGATC
1 GTTGTAGTGGAGCTGGTTGAAGACAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATC
5230536 AAAGAATCCA
Statistics
Matches: 674, Mismatches: 84, Indels: 8
0.88 0.11 0.01
Matches are distributed among these distances:
86 1 0.00
87 442 0.66
88 231 0.34
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.24
Consensus pattern (87 bp):
GTTGTAGTGGAGCTGGTTGAAGACAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGA
AAACAAAACCTTGCCTCTCTCG
Found at i:5229940 original size:44 final size:44
Alignment explanation
Indices: 5229718--5230117 Score: 167
Period size: 44 Copynumber: 9.2 Consensus size: 44
5229708 GATAGCAGAT
5229718 CTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACA-AAAC
1 CTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACACAAAC
* * *** * * * * * * *
5229761 CTTGCCTCCCT-CGTTTGTAGTGGAGCCGATTGAAGACAGCAGAT
1 CTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACA-CAAAC
5229805 CTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACA-AAAC
1 CTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACACAAAC
* * *** * * * * * * *
5229848 CTTGCCTCCCT-CGTTTGTAGTGGAA-CCGGTTGAAGACAGCAGAT
1 CTTGCCTTCCTGCATTAACAG-CGAAGCAGATCGAAAACA-CAAAC
*
5229892 CTTGCCTTCCTGCATTAACAACGAAGCAGATCGAAAACACAAAC
1 CTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACACAAAC
* ** * * * * * * *
5229936 CTTGCCTCTCTTGGGTGTAGCA--G-AGCTGGTTGAAGACAGCAGAT
1 CTTGCCT-TCCTGCAT-TAACAGCGAAGCAGATCGAAAACA-CAAAC
* * *
5229980 CTTGCCTTCCTACATTAACAGTGAAACAGATCGAAAACA-AAAC
1 CTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACACAAAC
* * ** * * * * * * *
5230023 CTTGTCTTTCTCGGGTGTAGCA--G-AGCTGGTTGAAGACAGCAGAT
1 CTTGCCTTCCT-GCAT-TAACAGCGAAGCAGATCGAAAACA-CAAAC
* * *
5230067 CTTGTCTTCCTGCATTAACAGTGAAGCAGATCGAAGACACAAAC
1 CTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACACAAAC
5230111 CTTGCCT
1 CTTGCCT
5230118 CTCTCGGGTG
Statistics
Matches: 242, Mismatches: 94, Indels: 41
0.64 0.25 0.11
Matches are distributed among these distances:
42 50 0.21
43 54 0.22
44 72 0.30
45 62 0.26
46 4 0.02
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.24
Consensus pattern (44 bp):
CTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACACAAAC
Found at i:5230012 original size:175 final size:175
Alignment explanation
Indices: 5229673--5230535 Score: 1079
Period size: 175 Copynumber: 4.9 Consensus size: 175
5229663 AGAAACAGAT
* * * * * *
5229673 CCTTACCTCCATCAGTTGCAGTAGAGCTGGTCAAAGATAGCAGATCTTGCCTTCCTGCATTAACA
1 CCTTGCCTCCCTCAGTTGTAGTGGAGCTGGTTAAAGACAGCAGATCTTGCCTTCCTGCATTAACA
* * * * *
5229738 GCGAAGCAGATCGAAAACA-AAACCTTGCCTCCCTCGTTTGTAGTGGAGCCGATTGAAGACAGCA
66 GCGAAGCAGATCGAAAACACAAACCTTGCCTCTCTCGGTTGTAGTGGAGCTGGTTGAAGATAGCA
5229802 GATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAA
131 GATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAA
* * *
5229847 CCTTGCCTCCCTC-GTTTGTAGTGGAACCGGTTGAAGACAGCAGATCTTGCCTTCCTGCATTAAC
1 CCTTGCCTCCCTCAG-TTGTAGTGGAGCTGGTTAAAGACAGCAGATCTTGCCTTCCTGCATTAAC
* * * ** *
5229911 AACGAAGCAGATCGAAAACACAAACCTTGCCTCTCTTGGGTGTAGCAGAGCTGGTTGAAGACAGC
65 AGCGAAGCAGATCGAAAACACAAACCTTGCCTCTCTCGGTTGTAGTGGAGCTGGTTGAAGATAGC
* * *
5229976 AGATCTTGCCTTCCTACATTAACAGTGAAACAGATCGAAAACAAAA
130 AGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAA
* ** * * ** * *
5230022 CCTTGTCTTTCTCGGGTGTAGCAGAGCTGGTTGAAGACAGCAGATCTTGTCTTCCTGCATTAACA
1 CCTTGCCTCCCTCAGTTGTAGTGGAGCTGGTTAAAGACAGCAGATCTTGCCTTCCTGCATTAACA
* * * **
5230087 GTGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGGTGTAGCAGAGCTGG-TGAAGATAGCA
66 GCGAAGCAGATCGAAAACACAAACCTTGCCTCTCTCGGTTGTAGTGGAGCTGGTTGAAGATAGCA
* *
5230151 GATCTTGCCTTCCTGCATTAACAGCGAAGCAGATTGAAGACACAAA
131 GATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACA-AAA
* * * * *
5230197 CCTTGTCTCTCTCAGTTGTGGTGGAGCTGGTTAAAGACAACAGATCTTGCCTTCCTGCATTGACA
1 CCTTGCCTCCCTCAGTTGTAGTGGAGCTGGTTAAAGACAGCAGATCTTGCCTTCCTGCATTAACA
* * *
5230262 GCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTGTAGTGGAGCTGGTTGAAGATAACA
66 GCGAAGCAGATCGAAAACACAAACCTTGCCTCTCTCGGTTGTAGTGGAGCTGGTTGAAGATAGCA
* *
5230327 GATCTTGCCTTCTTGTATTAACAGCGAAGCAGATCGAAAACAAAA
131 GATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAA
* * * * * * * *
5230372 CATTGCCTCCATCAGTTGCAGTGGAGCTGGTTAAAAATAGCAGATTTTGCATTCCTGCGTTAACA
1 CCTTGCCTCCCTCAGTTGTAGTGGAGCTGGTTAAAGACAGCAGATCTTGCCTTCCTGCATTAACA
* * * *
5230437 GAGAAGCAGATCGAAAACA-AAACCTTACCTC-CATCGGTTGCAGTGGAGCTGGTTGAAGATATC
66 GCGAAGCAGATCGAAAACACAAACCTTGCCTCTC-TCGGTTGTAGTGGAGCTGGTTGAAGATAGC
* * * *
5230500 AGATCTTGCCTTCCTGTAGTAACGGCGAAGCGGATC
130 AGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATC
5230536 AAAGAATCCA
Statistics
Matches: 600, Mismatches: 83, Indels: 12
0.86 0.12 0.02
Matches are distributed among these distances:
173 2 0.00
174 190 0.32
175 359 0.60
176 49 0.08
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.24
Consensus pattern (175 bp):
CCTTGCCTCCCTCAGTTGTAGTGGAGCTGGTTAAAGACAGCAGATCTTGCCTTCCTGCATTAACA
GCGAAGCAGATCGAAAACACAAACCTTGCCTCTCTCGGTTGTAGTGGAGCTGGTTGAAGATAGCA
GATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAA
Found at i:5230160 original size:262 final size:261
Alignment explanation
Indices: 5229687--5230535 Score: 1049
Period size: 262 Copynumber: 3.2 Consensus size: 261
5229677 ACCTCCATCA
* * *
5229687 GTTGCAGTAGAGCTGGTCAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGA
1 GTTGTAGTAGAGCTGGTTAAAGACAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGA
* * * *
5229752 AAACAAAACCTTGCCTCCCTCGTTTGTAGTGGAGCCGATTGAAGACAGCAGATCTTGCCTTCCTG
66 AAACAAAACCTTGCCTCTCTCGGTTGTAGTGGAGCTGGTTGAAGACAGCAGATCTTGCCTTCCTG
* * *
5229817 CATTAACAGCGAAGCAGATCGAAAACAAAACCTTGCCTCCCTCGTTTGTAGTGGAACCGGTTGAA
131 CATTAACAGCGAAGCAGATCGAAAACAAAACCTTGCCT-CCTCGGTTGTAGTGGAGCTGGTTGAA
*
5229882 GACAGCAGATCTTGCCTTCCTGCATTAACAACGAAGCAGATCGAAAACACAAACCTTGCCTCTCT
195 GATAGCAGATCTTGCCTTCCTGCATTAACAACGAAGCAGATCGAAAACACAAACCTTGCCTCTCT
*
5229947 TG
260 CG
* * * * * *
5229949 GGTGTAGCAGAGCTGGTTGAAGACAGCAGATCTTGCCTTCCTACATTAACAGTGAAACAGATCGA
1 GTTGTAGTAGAGCTGGTTAAAGACAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGA
* * * ** *
5230014 AAACAAAACCTTGTCTTTCTCGGGTGTAGCAGAGCTGGTTGAAGACAGCAGATCTTGTCTTCCTG
66 AAACAAAACCTTGCCTCTCTCGGTTGTAGTGGAGCTGGTTGAAGACAGCAGATCTTGCCTTCCTG
* * * **
5230079 CATTAACAGTGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGGTGTAGCAGAGCTGG-TGA
131 CATTAACAGCGAAGCAGATCGAAAACA-AAACCTTGCCTC-CTCGGTTGTAGTGGAGCTGGTTGA
* * * *
5230143 AGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATTGAAGACACAAACCTTGTCTCTC
194 AGATAGCAGATCTTGCCTTCCTGCATTAACAACGAAGCAGATCGAAAACACAAACCTTGCCTCTC
*
5230208 TCA
259 TCG
* * * * *
5230211 GTTGTGGTGGAGCTGGTTAAAGACAACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGA
1 GTTGTAGTAGAGCTGGTTAAAGACAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGA
* * * *
5230276 AGACACAAACCTTGCCTCTCTCGGTTGTAGTGGAGCTGGTTGAAGATAACAGATCTTGCCTTCTT
66 AAACA-AAACCTTGCCTCTCTCGGTTGTAGTGGAGCTGGTTGAAGACAGCAGATCTTGCCTTCCT
* * * * *
5230341 GTATTAACAGCGAAGCAGATCGAAAACAAAACATTGCCTCCATCAGTTGCAGTGGAGCTGGTTAA
130 GCATTAACAGCGAAGCAGATCGAAAACAAAACCTTGCCTCC-TCGGTTGTAGTGGAGCTGGTTGA
* * * * *
5230406 AAATAGCAGATTTTGCATTCCTGCGTTAACAGA-GAAGCAGATCGAAAACA-AAACCTTACCTC-
194 AGATAGCAGATCTTGCCTTCCTGCATTAACA-ACGAAGCAGATCGAAAACACAAACCTTGCCTCT
5230468 CATCG
258 C-TCG
* * * * * * * * *
5230473 GTTGCAGTGGAGCTGGTTGAAGATATCAGATCTTGCCTTCCTGTAGTAACGGCGAAGCGGATC
1 GTTGTAGTAGAGCTGGTTAAAGACAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATC
5230536 AAAGAATCCA
Statistics
Matches: 494, Mismatches: 86, Indels: 14
0.83 0.14 0.02
Matches are distributed among these distances:
261 2 0.00
262 348 0.70
263 144 0.29
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.24
Consensus pattern (261 bp):
GTTGTAGTAGAGCTGGTTAAAGACAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGA
AAACAAAACCTTGCCTCTCTCGGTTGTAGTGGAGCTGGTTGAAGACAGCAGATCTTGCCTTCCTG
CATTAACAGCGAAGCAGATCGAAAACAAAACCTTGCCTCCTCGGTTGTAGTGGAGCTGGTTGAAG
ATAGCAGATCTTGCCTTCCTGCATTAACAACGAAGCAGATCGAAAACACAAACCTTGCCTCTCTC
G
Found at i:5230334 original size:44 final size:43
Alignment explanation
Indices: 5230184--5230336 Score: 103
Period size: 44 Copynumber: 3.5 Consensus size: 43
5230174 GCGAAGCAGA
* * * * * *
5230184 TTGAAGACACAAACCTTGTCTCTCTCAGTTGTGGTGGAGCTGG
1 TTGAAGAAACAGATCTTGCCTCTCTCGGTTGTAGTGGAGCTGG
* * * * * *
5230227 TTAAAGACAACAGATCTTGCCT-TC-CTGCATTGACAGCGAAGCAGG
1 TTGAAGA-AACAGATCTTGCCTCTCTC-G-GTTG-TAGTGGAGCTGG
* * * *
5230272 TCGAAGACACAAACCTTGCCTCTCTCGGTTGTAGTGGAGCTGG
1 TTGAAGAAACAGATCTTGCCTCTCTCGGTTGTAGTGGAGCTGG
5230315 TTGAAGATAACAGATCTTGCCT
1 TTGAAGA-AACAGATCTTGCCT
5230337 TCTTGTATTA
Statistics
Matches: 77, Mismatches: 26, Indels: 13
0.66 0.22 0.11
Matches are distributed among these distances:
42 1 0.01
43 22 0.29
44 38 0.49
45 15 0.19
46 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (43 bp):
TTGAAGAAACAGATCTTGCCTCTCTCGGTTGTAGTGGAGCTGG
Done.