Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 260 of 292
Found at i:74763247 original size:23 final size:25
Alignment explanation
Indices: 74763189--74763248 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 25
74763179 TAAAATAGTT
*
74763189 AAAAAATAAAAAATGAATTTAAACCT
1 AAAAAATAAAAAAT-AATTTAAACCA
***
74763215 AAATTTTAAAAAAT-ATTT-AACCA
1 AAAAAATAAAAAATAATTTAAACCA
74763238 AAAAAATAAAA
1 AAAAAATAAAA
74763249 TTTAAAATGT
Statistics
Matches: 27, Mismatches: 7, Indels: 3
0.73 0.19 0.08
Matches are distributed among these distances:
23 12 0.44
24 4 0.15
26 11 0.41
ACGTcount: A:0.67, C:0.07, G:0.02, T:0.25
Consensus pattern (25 bp):
AAAAAATAAAAAATAATTTAAACCA
Found at i:74766069 original size:18 final size:19
Alignment explanation
Indices: 74766035--74766076 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
74766025 ACAAAAAAAA
*
74766035 AAAAATCAAAATAATTTTT
1 AAAAATCAAAATAATTTAT
*
74766054 AAAAATTAAAAT-ATTTAT
1 AAAAATCAAAATAATTTAT
74766072 AAAAA
1 AAAAA
74766077 ATCCCAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
AAAAATCAAAATAATTTAT
Found at i:74766118 original size:8 final size:10
Alignment explanation
Indices: 74766095--74766126 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
74766085 TTTTCATATT
74766095 TAAAAAATTA
1 TAAAAAATTA
74766105 TAAAAAATT-
1 TAAAAAATTA
74766114 T-AAAAATTA
1 TAAAAAATTA
74766123 TAAA
1 TAAA
74766127 GGGTATGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
8 7 0.35
9 2 0.10
10 11 0.55
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:74768884 original size:14 final size:14
Alignment explanation
Indices: 74768861--74768894 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
74768851 TTTGGGTAGC
*
74768861 ATTTTGGAATTAAG
1 ATTTTAGAATTAAG
*
74768875 ATTTTAGAATTTAG
1 ATTTTAGAATTAAG
74768889 ATTTTA
1 ATTTTA
74768895 AAAAAATGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (14 bp):
ATTTTAGAATTAAG
Found at i:74769908 original size:10 final size:10
Alignment explanation
Indices: 74769893--74769917 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
74769883 TCCATCAGAA
74769893 AAAAAAAAAG
1 AAAAAAAAAG
74769903 AAAAAAAAAG
1 AAAAAAAAAG
74769913 AAAAA
1 AAAAA
74769918 GGAAAATGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:74769916 original size:16 final size:16
Alignment explanation
Indices: 74769891--74769923 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
74769881 ATTCCATCAG
74769891 AAAAAAAAAAA-GAAA
1 AAAAAAAAAAAGGAAA
74769906 AAAAAAGAAAAAGGAAA
1 AAAAAA-AAAAAGGAAA
74769923 A
1 A
74769924 TGGAAAATGG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 5 0.31
17 5 0.31
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAAGGAAA
Found at i:74775961 original size:15 final size:15
Alignment explanation
Indices: 74775941--74775974 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
74775931 ACCAAGGAAC
* *
74775941 GGAAAGAGAGGAGGA
1 GGAAAGAAAGGAAGA
74775956 GGAAAGAAAGGAAGA
1 GGAAAGAAAGGAAGA
74775971 GGAA
1 GGAA
74775975 TGTGAAAGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (15 bp):
GGAAAGAAAGGAAGA
Found at i:74785409 original size:18 final size:19
Alignment explanation
Indices: 74785388--74785440 Score: 67
Period size: 18 Copynumber: 2.9 Consensus size: 19
74785378 ATGCTTTTAT
74785388 TTATATTATA-ATTATAAA
1 TTATATTATAGATTATAAA
*
74785406 TTATA-AATAGATTATAAA
1 TTATATTATAGATTATAAA
*
74785424 CTATATTATAGA-TATAA
1 TTATATTATAGATTATAA
74785441 CATAACAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 3 0.10
18 22 0.73
19 5 0.17
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.43
Consensus pattern (19 bp):
TTATATTATAGATTATAAA
Found at i:74788483 original size:35 final size:34
Alignment explanation
Indices: 74788431--74788500 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 34
74788421 AAAAGAATGT
*
74788431 TGAGAATATCTATTAAATAAGTTATAATAATATA
1 TGAGAATATATATTAAATAAGTTATAATAATATA
74788465 TGAGAATAGTATATTAAATAAGTTATAATAATATA
1 TGAGAATA-TATATTAAATAAGTTATAATAATATA
74788500 T
1 T
74788501 TAATAGTATA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 8 0.24
35 26 0.76
ACGTcount: A:0.50, C:0.01, G:0.10, T:0.39
Consensus pattern (34 bp):
TGAGAATATATATTAAATAAGTTATAATAATATA
Found at i:74789930 original size:46 final size:47
Alignment explanation
Indices: 74789860--74789948 Score: 135
Period size: 46 Copynumber: 1.9 Consensus size: 47
74789850 ATAGGGAGAC
*
74789860 CAAAATTCGAATCTGCTCCGCTCCTGCTCAGCAAAGATAAGATTCAT
1 CAAAATTCGAATCTGCTCCACTCCTGCTCAGCAAAGATAAGATTCAT
* **
74789907 CAAAATTCG-ATCTGCTTCACTCCTGCTCAGTGAAGATAAGAT
1 CAAAATTCGAATCTGCTCCACTCCTGCTCAGCAAAGATAAGAT
74789949 CTAGTATTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
46 29 0.76
47 9 0.24
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (47 bp):
CAAAATTCGAATCTGCTCCACTCCTGCTCAGCAAAGATAAGATTCAT
Found at i:74790113 original size:132 final size:131
Alignment explanation
Indices: 74789894--74790394 Score: 727
Period size: 132 Copynumber: 3.8 Consensus size: 131
74789884 TGCTCAGCAA
* * *
74789894 AGATAAGATTCATCAAAATTCGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTAGTATTTA
1 AGATAAAATTCATCAAAATTCGATCTGCTCCACTCCTG-TCAGTGAAGATAAGATCTA-TGTTTA
*
74789959 GCCTGCTCTACTCCTGCTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACG
64 GCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACG
74790024 TGG
129 TGG
*
74790027 AGATAAAATTCATCAAAATTCGATCAGCTCCACTCCTGTCAGTGAAGATAAGATCTGATGTTTAG
1 AGATAAAATTCATCAAAATTCGATCTGCTCCACTCCTGTCAGTGAAGATAAGATCT-ATGTTTAG
* * ** * * *
74790092 TCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGGTACAT
65 CCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACGT
74790157 GG
130 GG
* * * * *
74790159 AGATAAGACTT-GTCAAAATTTGATCTGCTTCACTCCTGTCAGTGAAGGTAAGATCTA-GTCTAT
1 AGATAA-AATTCATCAAAATTCGATCTGCTCCACTCCTGTCAGTGAAGATAAGATCTATGT-T-T
* *
74790222 AGCCTGCTCCACTCCTGCTCAGTGAAGATAGGGCTGGTGATTGGAATCTGCTCCATCGCCGGTAC
63 AGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTAC
74790287 GTGG
128 GTGG
* * *
74790291 AGATAATATTCATCAAAATTCGATCTGCTCCACTCCTGTCAGTGAAGATAATATCTGGTGTTTAG
1 AGATAAAATTCATCAAAATTCGATCTGCTCCACTCCTGTCAGTGAAGATAAGATCT-ATGTTTAG
74790356 CCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGAT
65 CCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGAT
74790395 ATCTGTAATC
Statistics
Matches: 326, Mismatches: 35, Indels: 15
0.87 0.09 0.04
Matches are distributed among these distances:
130 2 0.01
131 4 0.01
132 278 0.85
133 40 0.12
134 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (131 bp):
AGATAAAATTCATCAAAATTCGATCTGCTCCACTCCTGTCAGTGAAGATAAGATCTATGTTTAGC
CTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACGTG
G
Found at i:74790244 original size:264 final size:265
Alignment explanation
Indices: 74789906--74790389 Score: 853
Period size: 264 Copynumber: 1.8 Consensus size: 265
74789896 ATAAGATTCA
* *
74789906 TCAAAATTCGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTAGTATTTAGCCTGCTCTACT
1 TCAAAATTCGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTAGTATATAGCCTGCTCCACT
74789971 CCTGCTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACGTGGAGATAAAAT
66 CCTGCTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACGTGGAGATAAAAT
*
74790036 TCATCAAAATTCGATCAGCTCCACTCCTGTCAGTGAAGATAAGATCTGATGTTTAGTCTGCTCCA
131 TCATCAAAATTCGATCAGCTCCACTCCTGTCAGTGAAGATAAGATCTGATGTTTAGCCTGCTCCA
74790101 CTCCTGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGGTACATGGAGATAAG
196 CTCCTGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGGTACATGGAGATAAG
74790166 ACTTG
261 ACTTG
* * *
74790171 TCAAAATTTGATCTGCTTCACTCCTG-TCAGTGAAGGTAAGATCTAGTCTATAGCCTGCTCCACT
1 TCAAAATTCGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTAGTATATAGCCTGCTCCACT
* * *
74790235 CCTGCTCAGTGAAGATAGGGCTGGTGATTGGAATCTGCTCCATCGCCGGTACGTGGAGATAATAT
66 CCTGCTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACGTGGAGATAAAAT
* * *
74790300 TCATCAAAATTCGATCTGCTCCACTCCTGTCAGTGAAGATAATATCTGGTGTTTAGCCTGCTCCA
131 TCATCAAAATTCGATCAGCTCCACTCCTGTCAGTGAAGATAAGATCTGATGTTTAGCCTGCTCCA
74790365 CTCCTGCTCAGTGAAGATAAGGCTG
196 CTCCTGCTCAGTGAAGATAAGGCTG
74790390 ATGATATCTG
Statistics
Matches: 207, Mismatches: 12, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
264 182 0.88
265 25 0.12
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.29
Consensus pattern (265 bp):
TCAAAATTCGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTAGTATATAGCCTGCTCCACT
CCTGCTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACGTGGAGATAAAAT
TCATCAAAATTCGATCAGCTCCACTCCTGTCAGTGAAGATAAGATCTGATGTTTAGCCTGCTCCA
CTCCTGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGGTACATGGAGATAAG
ACTTG
Found at i:74793448 original size:46 final size:46
Alignment explanation
Indices: 74793396--74793787 Score: 440
Period size: 46 Copynumber: 8.5 Consensus size: 46
74793386 TTTCTGAAAT
*
74793396 GAAATGTGTAAGACTATGGTTGAAAGATACCATGGCAACATGATTA
1 GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATTA
* *
74793442 GAAATGTGTAAGACCATGGTTGAAAGACACCATGGCTACATGATATA
1 GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT-TA
* *
74793489 -AAATGTGTAGGACCATGGTTGAAAGATACCATGGCAACAGGATATA
1 GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT-TA
* *
74793535 -AAATGTGTAAGATCATGGTTGAAAGATACAATGGCAACATGA-TA
1 GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATTA
*
74793579 TGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGATATA
1 -GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT-TA
* **
74793627 -AAATGTGTAAAACCATGGTTGAAAGATACCATGGCAACATGA-CG
1 GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATTA
* * ** **
74793671 GGAGTGAATAAGACCATGGTTGAAAGATACCATGGC-A-ATGTAACA
1 GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG-ATTA
*** * * *
74793716 TGAAATGAACAAGACCATTGTTGAAAGATACCATGGCAACCTGA-CA
1 -GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATTA
* *
74793762 GAAAATGAGTAAGACCATAGTTGAAA
1 G-AAATGTGTAAGACCATGGTTGAAA
74793788 AACATTATGG
Statistics
Matches: 302, Mismatches: 32, Indels: 24
0.84 0.09 0.07
Matches are distributed among these distances:
43 3 0.01
44 4 0.01
45 32 0.11
46 255 0.84
47 4 0.01
48 4 0.01
ACGTcount: A:0.41, C:0.13, G:0.24, T:0.22
Consensus pattern (46 bp):
GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATTA
Found at i:74793554 original size:92 final size:92
Alignment explanation
Indices: 74793394--74793787 Score: 490
Period size: 92 Copynumber: 4.3 Consensus size: 92
74793384 GCTTTCTGAA
* *
74793394 ATGAAATGTGTAAGACTATGGTTGAAAGATACCATGGCAACATGAT-TAGAAATGTGTAAGACCA
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGATATA-AAATGTGTAAGACCA
* *
74793458 TGGTTGAAAGACACCATGGCTACATGAT
65 TGGTTGAAAGATACCATGGCAACATGAT
* * *
74793486 ATAAAATGTGTAGGACCATGGTTGAAAGATACCATGGCAACAGGATATAAAATGTGTAAGATCAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGATATAAAATGTGTAAGACCAT
*
74793551 GGTTGAAAGATACAATGGCAACATGAT
66 GGTTGAAAGATACCATGGCAACATGAT
*
74793578 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGATATAAAATGTGTAAAACCAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGATATAAAATGTGTAAGACCAT
74793643 GGTTGAAAGATACCATGGCAACATGA-
66 GGTTGAAAGATACCATGGCAACATGAT
** * * ** * * * * ***
74793669 CGGGAGTGAATAAGACCATGGTTGAAAGATACCATGGCAA-TGTAACATGAAATGAACAAGACCA
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAG-GATATAAAATGTGTAAGACCA
* * *
74793733 TTGTTGAAAGATACCATGGCAACCTGAC
65 TGGTTGAAAGATACCATGGCAACATGAT
* *
74793761 A-GAAAATGAGTAAGACCATAGTTGAAA
1 ATG-AAATGTGTAAGACCATGGTTGAAA
74793788 AACATTATGG
Statistics
Matches: 264, Mismatches: 34, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
90 1 0.00
91 74 0.28
92 187 0.71
93 2 0.01
ACGTcount: A:0.41, C:0.13, G:0.24, T:0.22
Consensus pattern (92 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGATATAAAATGTGTAAGACCAT
GGTTGAAAGATACCATGGCAACATGAT
Found at i:74793645 original size:138 final size:136
Alignment explanation
Indices: 74793397--74793787 Score: 487
Period size: 138 Copynumber: 2.8 Consensus size: 136
74793387 TTCTGAAATG
74793397 AAATGTGTAAGACTATGGTTGAAAGATACCATGGCAACATGAT-TAGAAATGTGTAAGACCATGG
1 AAATGTGTAAGAC-ATGGTTGAAAGATACCATGGCAACATGATAT-GAAATGTGTAAGACCATGG
* * *
74793461 TTGAAAGACACCATGGCTACATGATATAAAATGTGTAGGACCATGGTTGAAAGATACCATGGCAA
64 TTGAAAGATACCATGGCAACATGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
*
74793526 CAGGATATA
129 CAGGA-AGA
*
74793535 AAATGTGTAAGATCATGGTTGAAAGATACAATGGCAACATGATATGAAATGTGTAAGACCATGGT
1 AAATGTGTAAGA-CATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGT
* *
74793600 TGAAAGATACCATGGCAACAGGATATAAAATGTGTAAAACCATGGTTGAAAGATACCATGGCAAC
65 TGAAAGATACCATGGCAACATGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
74793665 ATGACGG
130 AGGAAGA
* * ** ** * * *** *
74793672 GAGTGAATAAGACCATGGTTGAAAGATACCATGGCAATGTAACATGAAATGAACAAGACCATTGT
1 AAATGTGTAAGA-CATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGT
* * * * *
74793737 TGAAAGATACCATGGCAACCTGACAGAAAATGAGTAAGACCATAGTTGAAA
65 TGAAAGATACCATGGCAACATGATATAAAATGTGTAAGACCATGGTTGAAA
74793788 AACATTATGG
Statistics
Matches: 220, Mismatches: 31, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
137 95 0.43
138 123 0.56
139 2 0.01
ACGTcount: A:0.41, C:0.13, G:0.24, T:0.22
Consensus pattern (136 bp):
AAATGTGTAAGACATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTT
GAAAGATACCATGGCAACATGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
GGAAGA
Found at i:74795547 original size:19 final size:17
Alignment explanation
Indices: 74795504--74795550 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 17
74795494 AATTTTAAAA
74795504 AAAAATTT-TAAAATTC
1 AAAAATTTATAAAATTC
74795520 AAAATATTTATAGAAATTCC
1 AAAA-ATTTATA-AAATT-C
*
74795540 TAAAATTTATA
1 AAAAATTTATA
74795551 TTTTTTTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 4 0.15
17 4 0.15
18 2 0.08
19 12 0.46
20 4 0.15
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.38
Consensus pattern (17 bp):
AAAAATTTATAAAATTC
Found at i:74795563 original size:19 final size:19
Alignment explanation
Indices: 74795541--74795578 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
74795531 AGAAATTCCT
*
74795541 AAAATTTATATTTTTTTAA
1 AAAAATTATATTTTTTTAA
74795560 AAAAATTATATTTTTTTAA
1 AAAAATTATATTTTTTTAA
74795579 TATAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
AAAAATTATATTTTTTTAA
Found at i:74796520 original size:10 final size:10
Alignment explanation
Indices: 74796471--74796526 Score: 55
Period size: 9 Copynumber: 5.8 Consensus size: 10
74796461 CTAATATATT
*
74796471 TTAAAAATCA
1 TTAAAAATTA
74796481 -TAAAAATT-
1 TTAAAAATTA
*
74796489 CTAAAAA-TA
1 TTAAAAATTA
*
74796498 TTAAAGGATTA
1 TTAAA-AATTA
74796509 TTAAAAATTA
1 TTAAAAATTA
74796519 TTAAAAAT
1 TTAAAAAT
74796527 GTCAAAATAG
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
8 1 0.03
9 17 0.45
10 13 0.34
11 7 0.18
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.34
Consensus pattern (10 bp):
TTAAAAATTA
Found at i:74804824 original size:21 final size:20
Alignment explanation
Indices: 74804796--74804834 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
74804786 GTGTTCAGTT
*
74804796 AATTTATTGACTTTAATTCA
1 AATTTATTAACTTTAATTCA
*
74804816 AATTGTATTAATTTTAATT
1 AATT-TATTAACTTTAATT
74804835 TATTTGTGAT
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:0.36, C:0.05, G:0.05, T:0.54
Consensus pattern (20 bp):
AATTTATTAACTTTAATTCA
Found at i:74806389 original size:14 final size:15
Alignment explanation
Indices: 74806364--74806396 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
74806354 TAATTGAAAT
*
74806364 AAATAATAATTTTTA
1 AAATAATAATTTTAA
74806379 AAATAAT-ATTTTAA
1 AAATAATAATTTTAA
74806393 AAAT
1 AAAT
74806397 GATGTAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
AAATAATAATTTTAA
Found at i:74808029 original size:42 final size:48
Alignment explanation
Indices: 74807963--74808057 Score: 130
Period size: 42 Copynumber: 2.1 Consensus size: 48
74807953 AAAGTGTATT
*
74807963 TTAATATTTCCTTAAATTTATCTATTTAGA-T-T-ATATAATAT-ATA
1 TTAAAATTTCCTTAAATTTATCTATTTAGATTATAATATAATATAATA
*
74808007 TTAAAATTT-CTT-AATTTCTCTATTTAGATTATAATATAATATAATA
1 TTAAAATTTCCTTAAATTTATCTATTTAGATTATAATATAATATAATA
74808053 TTAAA
1 TTAAA
74808058 TTTATTTTTA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
42 15 0.33
43 4 0.09
44 9 0.20
45 9 0.20
46 8 0.18
ACGTcount: A:0.41, C:0.06, G:0.02, T:0.51
Consensus pattern (48 bp):
TTAAAATTTCCTTAAATTTATCTATTTAGATTATAATATAATATAATA
Found at i:74809067 original size:21 final size:21
Alignment explanation
Indices: 74809028--74809068 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
74809018 ATATTAAAAT
*
74809028 ATATTTTATATTAATATTTAC
1 ATATTTTAAATTAATATTTAC
74809049 ATATTTTACAATTAA-ATTTA
1 ATATTTTA-AATTAATATTTA
74809069 TATTCATCGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (21 bp):
ATATTTTAAATTAATATTTAC
Found at i:74809834 original size:22 final size:23
Alignment explanation
Indices: 74809809--74809861 Score: 65
Period size: 21 Copynumber: 2.4 Consensus size: 23
74809799 TATTTTTATT
74809809 ATTAAATTAAAATTTGA-AAAAA
1 ATTAAATTAAAATTTGAGAAAAA
* *
74809831 ATT-AATTTAAATTTGAGAATAA
1 ATTAAATTAAAATTTGAGAAAAA
*
74809853 CTTAAATTA
1 ATTAAATTA
74809862 GGTTATTCTA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
21 12 0.48
22 9 0.36
23 4 0.16
ACGTcount: A:0.55, C:0.02, G:0.06, T:0.38
Consensus pattern (23 bp):
ATTAAATTAAAATTTGAGAAAAA
Found at i:74810043 original size:21 final size:19
Alignment explanation
Indices: 74810018--74810065 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
74810008 TAAATAATTT
*
74810018 AAAATTAAAAGAAGAGATAAA
1 AAAATGAAAAGAA-AGA-AAA
*
74810039 AAAATGAAAATAAAG-AAA
1 AAAATGAAAAGAAAGAAAA
74810057 AAAATGAAA
1 AAAATGAAA
74810066 CCAACAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 12 0.48
20 2 0.08
21 11 0.44
ACGTcount: A:0.75, C:0.00, G:0.12, T:0.12
Consensus pattern (19 bp):
AAAATGAAAAGAAAGAAAA
Found at i:74810577 original size:62 final size:61
Alignment explanation
Indices: 74810463--74810579 Score: 162
Period size: 63 Copynumber: 1.9 Consensus size: 61
74810453 TTAATATAAC
* * *
74810463 ATTTGGTACCTGAACTTGAAACTTTTTTCTAATTTGGTACCTAAACCTTTTTTTGGGTCCA
1 ATTTGATACCTGAACTTGAAACTTTTTTCTAACTTGGCACCTAAACCTTTTTTTGGGTCCA
** *
74810524 ATTTGATACCTTGAACTTGACATTTTTTTTCTAACTTGGCACCTAAGCCTTTTTTT
1 ATTTGATACC-TGAACTTGA-AACTTTTTTCTAACTTGGCACCTAAACCTTTTTTT
74810580 TAGGTTTAAT
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
61 9 0.19
62 9 0.19
63 30 0.62
ACGTcount: A:0.22, C:0.19, G:0.13, T:0.46
Consensus pattern (61 bp):
ATTTGATACCTGAACTTGAAACTTTTTTCTAACTTGGCACCTAAACCTTTTTTTGGGTCCA
Found at i:74811033 original size:26 final size:27
Alignment explanation
Indices: 74810946--74811061 Score: 101
Period size: 26 Copynumber: 4.1 Consensus size: 27
74810936 CATTTGACAA
* *
74810946 GTACCAAATT-GAACAAAAAAAATATTAA
1 GTACCAAATTAGAA-AAAATAAAT-TTAG
* * *
74810974 ATACCAAATTAGGAAAAAGTGTCAAATTTGG
1 GTACCAAATTA-GAAAAA--AT-AAATTTAG
*
74811005 GTACCAAATTAGACAAAA-AAATTTAG
1 GTACCAAATTAGAAAAAATAAATTTAG
*
74811031 GTACCAAATTAGAAAAAATAAATTCAG
1 GTACCAAATTAGAAAAAATAAATTTAG
74811058 GTAC
1 GTAC
74811062 TAAGTATTAT
Statistics
Matches: 71, Mismatches: 11, Indels: 13
0.75 0.12 0.14
Matches are distributed among these distances:
26 24 0.34
27 11 0.15
28 9 0.13
29 3 0.04
30 8 0.11
31 12 0.17
32 4 0.06
ACGTcount: A:0.53, C:0.11, G:0.13, T:0.23
Consensus pattern (27 bp):
GTACCAAATTAGAAAAAATAAATTTAG
Found at i:74811989 original size:6 final size:6
Alignment explanation
Indices: 74811980--74812016 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
74811970 ATTGGGTTTT
* *
74811980 TTAAAA TTAAAA TTGAAA TTAAAA TTGAAA TTAAAA T
1 TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA T
74812017 ATTTTTAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.35
Consensus pattern (6 bp):
TTAAAA
Found at i:74811998 original size:12 final size:12
Alignment explanation
Indices: 74811983--74812016 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
74811973 GGGTTTTTTA
74811983 AAATTAAAATTG
1 AAATTAAAATTG
74811995 AAATTAAAATTG
1 AAATTAAAATTG
74812007 AAATTAAAAT
1 AAATTAAAAT
74812017 ATTTTTAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (12 bp):
AAATTAAAATTG
Found at i:74826381 original size:47 final size:47
Alignment explanation
Indices: 74826327--74826429 Score: 163
Period size: 47 Copynumber: 2.2 Consensus size: 47
74826317 CACTAATGAA
*
74826327 CAGAGAGCACAAATGTGCTAATCAGAGAGCACTGGCGTGCTAAATA-T
1 CAGAGAGCACAAATGTGCTAATCAGAGAGCACTGACGTG-TAAATATT
* *
74826374 CAGAGAGCACAAATGTGCTAATCAGAGAGCACTGATGTGTTAATATT
1 CAGAGAGCACAAATGTGCTAATCAGAGAGCACTGACGTGTAAATATT
74826421 CAGAGAGCA
1 CAGAGAGCA
74826430 TGCTGAGGTC
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
46 5 0.10
47 47 0.90
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.20
Consensus pattern (47 bp):
CAGAGAGCACAAATGTGCTAATCAGAGAGCACTGACGTGTAAATATT
Found at i:74826428 original size:25 final size:24
Alignment explanation
Indices: 74826327--74826429 Score: 97
Period size: 22 Copynumber: 4.4 Consensus size: 24
74826317 CACTAATGAA
**
74826327 CAGAGAGCACAAATGTGCT-AA-T
1 CAGAGAGCACTGATGTGCTAAATT
**
74826349 CAGAGAGCACTGGCGTGCTAAATAT
1 CAGAGAGCACTGATGTGCTAAAT-T
**
74826374 CAGAGAGCACAAATGTGCT-AA-T
1 CAGAGAGCACTGATGTGCTAAATT
*
74826396 CAGAGAGCACTGATGTGTTAATATT
1 CAGAGAGCACTGATGTGCTAA-ATT
74826421 CAGAGAGCA
1 CAGAGAGCA
74826430 TGCTGAGGTC
Statistics
Matches: 64, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
22 32 0.50
23 3 0.05
24 3 0.05
25 26 0.41
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.20
Consensus pattern (24 bp):
CAGAGAGCACTGATGTGCTAAATT
Found at i:74830819 original size:24 final size:24
Alignment explanation
Indices: 74830792--74830845 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
74830782 TTTCTCCTAG
*
74830792 GGGAGCAAGAGGTGGTCCTTCAAT
1 GGGAGCAAGAGGTGGTCCTCCAAT
* *
74830816 GGGAGCAAGGGGTGGTCCTCCTAT
1 GGGAGCAAGAGGTGGTCCTCCAAT
74830840 GGGAGC
1 GGGAGC
74830846 TTCAAATCGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.20, C:0.19, G:0.43, T:0.19
Consensus pattern (24 bp):
GGGAGCAAGAGGTGGTCCTCCAAT
Found at i:74833161 original size:19 final size:19
Alignment explanation
Indices: 74833114--74833161 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
74833104 GAAAAATAAT
74833114 AAATA-ATAAATTTTAGAA
1 AAATATATAAATTTTAGAA
74833132 AAAT-TATTAAATTTTTA-AA
1 AAATATA-TAAA-TTTTAGAA
74833151 AAATATATAAA
1 AAATATATAAA
74833162 AATATAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
18 5 0.19
19 14 0.54
20 7 0.27
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (19 bp):
AAATATATAAATTTTAGAA
Found at i:74833179 original size:54 final size:51
Alignment explanation
Indices: 74833105--74833225 Score: 122
Period size: 53 Copynumber: 2.3 Consensus size: 51
74833095 GTCTTATTAG
*
74833105 AAAAATAATAAATAATAAATT-TTAGAAAAATT-ATTAAATTTTTA-AAAAATATAT
1 AAAAAT-ATAAAAAATAAATTATTA-AAAAATTGATT---TTTTTATAAAAATAT-T
* *
74833159 AAAAATATAAAAAATAAAATTAATTAAAAATTTGATTTTTTTATAAAAATCTT
1 AAAAATATAAAAAAT-AAATT-ATTAAAAAATTGATTTTTTTATAAAAATATT
74833212 AAAAATATAAAAAA
1 AAAAATATAAAAAA
74833226 ATTGTAAAAT
Statistics
Matches: 59, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
53 29 0.49
54 18 0.31
55 6 0.10
56 6 0.10
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.36
Consensus pattern (51 bp):
AAAAATATAAAAAATAAATTATTAAAAAATTGATTTTTTTATAAAAATATT
Found at i:74833460 original size:9 final size:9
Alignment explanation
Indices: 74833446--74833623 Score: 87
Period size: 9 Copynumber: 19.2 Consensus size: 9
74833436 GACTTTATAA
74833446 AATTTTTAT
1 AATTTTTAT
74833455 AATTTTT-T
1 AATTTTTAT
74833463 ATATTTTTAT
1 A-ATTTTTAT
74833473 -ATATTTTAT
1 AAT-TTTTAT
* *
74833482 AAAATTTTAC
1 -AATTTTTAT
74833492 AATTTTTTAT
1 AA-TTTTTAT
*
74833502 ATTTTTTAT
1 AATTTTTAT
*
74833511 GATTTTTAT
1 AATTTTTAT
* *
74833520 ATTTTTTCT
1 AATTTTTAT
74833529 AATTTTTAAT
1 AATTTTT-AT
*
74833539 AAATATTTAT
1 -AATTTTTAT
* *
74833549 TA-TTTGA-
1 AATTTTTAT
74833556 AATTTTTTATT
1 AA-TTTTTA-T
*
74833567 AAATTTTAAT
1 -AATTTTTAT
*
74833577 AATATTTAT
1 AATTTTTAT
*
74833586 AAATTTTATT
1 AATTTTTA-T
* *
74833596 GATTTTAAT
1 AATTTTTAT
*
74833605 -TTTTTTAT
1 AATTTTTAT
*
74833613 AATTTTAAT
1 AATTTTTAT
74833622 AA
1 AA
74833624 GAGCAGTAAC
Statistics
Matches: 124, Mismatches: 30, Indels: 30
0.67 0.16 0.16
Matches are distributed among these distances:
7 1 0.01
8 13 0.10
9 74 0.60
10 22 0.18
11 12 0.10
12 2 0.02
ACGTcount: A:0.34, C:0.01, G:0.02, T:0.63
Consensus pattern (9 bp):
AATTTTTAT
Found at i:74833463 original size:10 final size:10
Alignment explanation
Indices: 74833448--74833540 Score: 81
Period size: 10 Copynumber: 9.9 Consensus size: 10
74833438 CTTTATAAAA
74833448 TTTTTATAAT
1 TTTTTATAAT
74833458 TTTTTAT-A-
1 TTTTTATAAT
74833466 TTTTTAT-AT
1 TTTTTATAAT
* *
74833475 ATTTTATAAA
1 TTTTTATAAT
* *
74833485 ATTTTACAAT
1 TTTTTATAAT
74833495 TTTTTAT-AT
1 TTTTTATAAT
*
74833504 TTTTTATGA-
1 TTTTTATAAT
74833513 TTTTTAT-AT
1 TTTTTATAAT
*
74833522 TTTTTCTAAT
1 TTTTTATAAT
*
74833532 TTTTAATAA
1 TTTTTATAA
74833541 ATATTTATTA
Statistics
Matches: 69, Mismatches: 9, Indels: 10
0.78 0.10 0.11
Matches are distributed among these distances:
8 9 0.13
9 29 0.42
10 31 0.45
ACGTcount: A:0.30, C:0.02, G:0.01, T:0.67
Consensus pattern (10 bp):
TTTTTATAAT
Found at i:74833499 original size:37 final size:38
Alignment explanation
Indices: 74833432--74833516 Score: 129
Period size: 37 Copynumber: 2.3 Consensus size: 38
74833422 CATAATTTGC
* *
74833432 TTATGACTTTATAAAATTTTTATAATTTTTTATATTTT
1 TTATGATTTTATAAAATTTTTACAATTTTTTATATTTT
74833470 TATAT-ATTTTATAAAA-TTTTACAATTTTTTATATTTT
1 T-TATGATTTTATAAAATTTTTACAATTTTTTATATTTT
74833507 TTATGATTTT
1 TTATGATTTT
74833517 TATATTTTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
36 3 0.07
37 26 0.60
38 11 0.26
39 3 0.07
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (38 bp):
TTATGATTTTATAAAATTTTTACAATTTTTTATATTTT
Found at i:74833548 original size:38 final size:37
Alignment explanation
Indices: 74833514--74833594 Score: 92
Period size: 37 Copynumber: 2.2 Consensus size: 37
74833504 TTTTTATGAT
* *
74833514 TTTTATATTTTTT-CTAATTTTTAATAAATATTTATTA
1 TTTTATATTTTTTACTAAATTTTAAT-AATATTTATAA
* * *
74833551 TTTGAAATTTTTTATTAAATTTTAATAATATTTATAAA
1 TTTTATATTTTTTACTAAATTTTAATAATATTTAT-AA
74833589 TTTTAT
1 TTTTAT
74833595 TGATTTTAAT
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
37 20 0.57
38 15 0.43
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.62
Consensus pattern (37 bp):
TTTTATATTTTTTACTAAATTTTAATAATATTTATAA
Found at i:74833827 original size:90 final size:90
Alignment explanation
Indices: 74833633--74833826 Score: 263
Period size: 90 Copynumber: 2.2 Consensus size: 90
74833623 AGAGCAGTAA
* * * * *
74833633 CTTAATTGC-TTTTGTTGAAAAAGTTTTAGGGTCTTTTTGATGCATTTTGAAAGTTTAAGTATTC
1 CTTAATTGCTTTTTTTTGAAAAAGTTTGAGGGTCTTTTTGATGCATTTTAAAAGTTCAAGTACTC
* *
74833697 AATTGAGTGTAAAAAAAAGTAGGTG
66 AAATGAGTGTAAAAAAAAGTAGGGG
*
74833722 CTTAATTGCTTTTTTTTGAAAAGGTTTGAGGG-CTTTTTTGATGCATTTTAAAAGTTCAAGTAC-
1 CTTAATTGCTTTTTTTTGAAAAAGTTTGAGGGTC-TTTTTGATGCATTTTAAAAGTTCAAGTACT
74833785 CTAAATGAGTGT-AAAAAAA-TAGGGG
65 C-AAATGAGTGTAAAAAAAAGTAGGGG
74833810 CTTAATTGCTTTTTTTT
1 CTTAATTGCTTTTTTTT
74833827 TAATTAAGAG
Statistics
Matches: 94, Mismatches: 8, Indels: 7
0.86 0.07 0.06
Matches are distributed among these distances:
88 22 0.23
89 18 0.19
90 54 0.57
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.43
Consensus pattern (90 bp):
CTTAATTGCTTTTTTTTGAAAAAGTTTGAGGGTCTTTTTGATGCATTTTAAAAGTTCAAGTACTC
AAATGAGTGTAAAAAAAAGTAGGGG
Found at i:74837718 original size:117 final size:117
Alignment explanation
Indices: 74837581--74837818 Score: 476
Period size: 117 Copynumber: 2.0 Consensus size: 117
74837571 TTATTTTAAG
74837581 AAATTTGATCCCTCAACTTTTTAGATTTAAAAATACGAGTCCAATTGTTAAAATAATTAAAATTC
1 AAATTTGATCCCTCAACTTTTTAGATTTAAAAATACGAGTCCAATTGTTAAAATAATTAAAATTC
74837646 TTCTATAAACTTAGATTCGTTACAATGTAATTATTTTAGTTACATGGCTACT
66 TTCTATAAACTTAGATTCGTTACAATGTAATTATTTTAGTTACATGGCTACT
74837698 AAATTTGATCCCTCAACTTTTTAGATTTAAAAATACGAGTCCAATTGTTAAAATAATTAAAATTC
1 AAATTTGATCCCTCAACTTTTTAGATTTAAAAATACGAGTCCAATTGTTAAAATAATTAAAATTC
74837763 TTCTATAAACTTAGATTCGTTACAATGTAATTATTTTAGTTACATGGCTACT
66 TTCTATAAACTTAGATTCGTTACAATGTAATTATTTTAGTTACATGGCTACT
74837815 AAAT
1 AAAT
74837819 AAGTGTTTTT
Statistics
Matches: 121, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
117 121 1.00
ACGTcount: A:0.37, C:0.13, G:0.09, T:0.40
Consensus pattern (117 bp):
AAATTTGATCCCTCAACTTTTTAGATTTAAAAATACGAGTCCAATTGTTAAAATAATTAAAATTC
TTCTATAAACTTAGATTCGTTACAATGTAATTATTTTAGTTACATGGCTACT
Found at i:74844410 original size:19 final size:19
Alignment explanation
Indices: 74844386--74844424 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
74844376 AACGTTTCCT
74844386 TCATTTATTTCTCCCCTTC
1 TCATTTATTTCTCCCCTTC
74844405 TCATTTATTTCTCCCCTTC
1 TCATTTATTTCTCCCCTTC
74844424 T
1 T
74844425 TTCTTGTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.10, C:0.36, G:0.00, T:0.54
Consensus pattern (19 bp):
TCATTTATTTCTCCCCTTC
Found at i:74848086 original size:16 final size:18
Alignment explanation
Indices: 74848057--74848092 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
74848047 TTAATCAATT
74848057 AATTAAATTAA-TTTCTC
1 AATTAAATTAATTTTCTC
74848074 AATTAAA-TAATTTTCTC
1 AATTAAATTAATTTTCTC
74848091 AA
1 AA
74848093 CTCAATATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 3 0.17
17 15 0.83
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (18 bp):
AATTAAATTAATTTTCTC
Found at i:74860615 original size:15 final size:14
Alignment explanation
Indices: 74860595--74860633 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 14
74860585 TTTGAAAAAA
74860595 TAAATTAATAAACCT
1 TAAATTAATAAA-CT
74860610 TAAATTAATAAACT
1 TAAATTAATAAACT
74860624 T--ATTAATAAA
1 TAAATTAATAAA
74860634 TATTTTTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 9 0.38
14 3 0.12
15 12 0.50
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (14 bp):
TAAATTAATAAACT
Found at i:74863985 original size:35 final size:35
Alignment explanation
Indices: 74863958--74864123 Score: 172
Period size: 35 Copynumber: 4.6 Consensus size: 35
74863948 CATGGCAAAG
*
74863958 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
74863993 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
74864028 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGC
** * * * *
74864068 TAAGAAATGTAGGTATGGCAT-TTCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATCAT-CCATACTGAGC
**
74864103 TGAAAAATGTAGGTATGGTAT
1 TGTGAAATGTAGGTATGGTAT
74864124 TTCAATGAGG
Statistics
Matches: 113, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
34 1 0.01
35 79 0.70
37 2 0.02
38 3 0.03
40 28 0.25
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
Found at i:74864077 original size:75 final size:75
Alignment explanation
Indices: 74863958--74864128 Score: 221
Period size: 75 Copynumber: 2.4 Consensus size: 75
74863948 CATGGCAAAG
** *
74863958 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
74864017 CCATACTGAGC
65 CCATACCGAGC
74864028 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
74864093 CATACCGAGT
66 CATACCGAGC
**
74864103 TGAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
74864129 TGAGGAAAAC
Statistics
Matches: 88, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
70 18 0.20
73 4 0.05
74 5 0.06
75 61 0.69
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:74871477 original size:35 final size:35
Alignment explanation
Indices: 74871450--74871615 Score: 172
Period size: 35 Copynumber: 4.6 Consensus size: 35
74871440 CATGGCAAAG
*
74871450 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
74871485 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
74871520 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGC
** * * * *
74871560 TAAGAAATGTAGGTATGGCAT-TTCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATCAT-CCATACTGAGC
**
74871595 TGAAAAATGTAGGTATGGTAT
1 TGTGAAATGTAGGTATGGTAT
74871616 TTCAATGAGG
Statistics
Matches: 113, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
34 1 0.01
35 79 0.70
37 2 0.02
38 3 0.03
40 28 0.25
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
Found at i:74871569 original size:75 final size:75
Alignment explanation
Indices: 74871450--74871620 Score: 221
Period size: 75 Copynumber: 2.4 Consensus size: 75
74871440 CATGGCAAAG
** *
74871450 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
74871509 CCATACTGAGC
65 CCATACCGAGC
74871520 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
74871585 CATACCGAGT
66 CATACCGAGC
**
74871595 TGAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
74871621 TGAGGAAAAC
Statistics
Matches: 88, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
70 18 0.20
73 4 0.05
74 5 0.06
75 61 0.69
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:74882709 original size:4 final size:4
Alignment explanation
Indices: 74882694--74882724 Score: 53
Period size: 4 Copynumber: 7.5 Consensus size: 4
74882684 TAATAATAAT
74882694 AATA ATATA AATA AATA AATA AATA AATA AA
1 AATA A-ATA AATA AATA AATA AATA AATA AA
74882725 AGAGGAAGCT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 22 0.85
5 4 0.15
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
AATA
Found at i:74884332 original size:2 final size:2
Alignment explanation
Indices: 74884320--74884357 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
74884310 ATTCAAATTT
*
74884320 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
74884358 AACCAACATT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:74889441 original size:15 final size:15
Alignment explanation
Indices: 74889421--74889450 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
74889411 AGGATTCTTA
*
74889421 GTATCTACATCATTT
1 GTATCTACATAATTT
74889436 GTATCTACATAATTT
1 GTATCTACATAATTT
74889451 TGATAAATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.17, G:0.07, T:0.47
Consensus pattern (15 bp):
GTATCTACATAATTT
Found at i:74892641 original size:27 final size:29
Alignment explanation
Indices: 74892584--74892644 Score: 74
Period size: 27 Copynumber: 2.2 Consensus size: 29
74892574 TTTAAATTCG
* *
74892584 AAAAATAAATAGACTAAAATTTTGAAAAT
1 AAAAATAAAGAGACTAAAATTCTGAAAAT
74892613 AAAAAT-AAGAGACT-AAATTCT-AAATAT
1 AAAAATAAAGAGACTAAAATTCTGAAA-AT
74892640 AAAAA
1 AAAAA
74892645 ATTATAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 3 0.10
27 13 0.45
28 7 0.24
29 6 0.21
ACGTcount: A:0.64, C:0.05, G:0.07, T:0.25
Consensus pattern (29 bp):
AAAAATAAAGAGACTAAAATTCTGAAAAT
Found at i:74893205 original size:55 final size:55
Alignment explanation
Indices: 74893140--74893262 Score: 169
Period size: 55 Copynumber: 2.2 Consensus size: 55
74893130 ATTTCTCAAA
* * * *
74893140 AATATTGCTTCTTTTGGATTGATTGTTTTTATGTTTAAATCGA-T-TTATATGTTGG
1 AATATTGCTTCTTTTGAATCGATTATTTATATGTTTAAATCGATTGTTAT-TG-TGG
74893195 AATATTGCTTCTTTTGAATCGATTATTTATATGTTTAAATCGATTGTTATTGTGG
1 AATATTGCTTCTTTTGAATCGATTATTTATATGTTTAAATCGATTGTTATTGTGG
*
74893250 AATACTGCTTCTT
1 AATATTGCTTCTT
74893263 CTTATTTTGA
Statistics
Matches: 61, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
55 54 0.89
56 3 0.05
57 4 0.07
ACGTcount: A:0.24, C:0.08, G:0.16, T:0.52
Consensus pattern (55 bp):
AATATTGCTTCTTTTGAATCGATTATTTATATGTTTAAATCGATTGTTATTGTGG
Found at i:74901315 original size:2 final size:2
Alignment explanation
Indices: 74901308--74901340 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
74901298 TGTAAAAGAA
74901308 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
74901341 AAGTGAAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:74905004 original size:22 final size:22
Alignment explanation
Indices: 74904979--74905024 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
74904969 TTATGAACCT
74904979 GTTTATGATTGTAATAGTGAAA
1 GTTTATGATTGTAATAGTGAAA
*
74905001 GTTTATGATTGTAATCGTGAAA
1 GTTTATGATTGTAATAGTGAAA
74905023 GT
1 GT
74905025 ATGTGTGTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.33, C:0.02, G:0.24, T:0.41
Consensus pattern (22 bp):
GTTTATGATTGTAATAGTGAAA
Found at i:74906145 original size:10 final size:10
Alignment explanation
Indices: 74906070--74906186 Score: 62
Period size: 10 Copynumber: 11.6 Consensus size: 10
74906060 TCACTTTAGA
74906070 TTTTTATAAT
1 TTTTTATAAT
* *
74906080 ATTTAATAAT
1 TTTTTATAAT
*
74906090 TTTATATACCAAT
1 TTT-T-TA-TAAT
74906103 TTTTTAATAA-
1 TTTTT-ATAAT
*
74906113 TTTATATAAT
1 TTTTTATAAT
* *
74906123 TTTTTAGATT
1 TTTTTATAAT
74906133 TTTTTATAA-
1 TTTTTATAAT
*
74906142 -TTTTACAAT
1 TTTTTATAAT
*
74906151 ATTTTAATAAT
1 -TTTTTATAAT
* *
74906162 TTCTAATAAT
1 TTTTTATAAT
*
74906172 TTTTTA-ATT
1 TTTTTATAAT
74906181 TTTTTA
1 TTTTTA
74906187 ATGAAAAATT
Statistics
Matches: 80, Mismatches: 19, Indels: 17
0.69 0.16 0.15
Matches are distributed among these distances:
8 7 0.09
9 12 0.15
10 41 0.51
11 11 0.14
12 3 0.04
13 6 0.08
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (10 bp):
TTTTTATAAT
Found at i:74906718 original size:10 final size:10
Alignment explanation
Indices: 74906637--74906718 Score: 58
Period size: 10 Copynumber: 7.8 Consensus size: 10
74906627 AAAATAACAA
74906637 AATTTTTCTAT
1 AATTTTT-TAT
74906648 AATTTTCTTAT
1 AATTTT-TTAT
*
74906659 -ATATATTTAT
1 AAT-TTTTTAT
74906669 AAATTCTTTTAT
1 -AATT-TTTTAT
* *
74906681 AAATTTTTAA
1 AATTTTTTAT
* *
74906691 AACTTTTAAT
1 AATTTTTTAT
*
74906701 AAGTTTTTAT
1 AATTTTTTAT
74906711 AATTTTTT
1 AATTTTTT
74906719 TGAATAACTT
Statistics
Matches: 56, Mismatches: 10, Indels: 11
0.73 0.13 0.14
Matches are distributed among these distances:
10 33 0.59
11 15 0.27
12 8 0.14
ACGTcount: A:0.34, C:0.05, G:0.01, T:0.60
Consensus pattern (10 bp):
AATTTTTTAT
Found at i:74907267 original size:21 final size:22
Alignment explanation
Indices: 74907247--74907286 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
74907237 GTCTCCATAT
74907247 TATATA-TTATAAAA-ATAATA
1 TATATATTTATAAAATATAATA
*
74907267 TATTTATTTATAAAATATAA
1 TATATATTTATAAAATATAA
74907287 CTTTTTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 8 0.47
22 4 0.24
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
TATATATTTATAAAATATAATA
Found at i:74911373 original size:5 final size:5
Alignment explanation
Indices: 74911363--74911388 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
74911353 CTGTCTTAAA
74911363 AATAG AATAG AATAG AATAG AATAG A
1 AATAG AATAG AATAG AATAG AATAG A
74911389 TTTTCAGGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.19, T:0.19
Consensus pattern (5 bp):
AATAG
Found at i:74916639 original size:30 final size:31
Alignment explanation
Indices: 74916602--74916687 Score: 93
Period size: 30 Copynumber: 2.8 Consensus size: 31
74916592 TTGTTTAAAA
74916602 AAAAAATTAATAGGGATATTTTAGATAATAT
1 AAAAAATTAATAGGGATATTTTAGATAATAT
*** * *
74916633 -AAAAATTAATATAAATATTTTAGGTAGTAT
1 AAAAAATTAATAGGGATATTTTAGATAATAT
* * *
74916663 AAAAAATCAATAGGGGTAATTTAGA
1 AAAAAATTAATAGGGATATTTTAGA
74916688 CATTAACCAA
Statistics
Matches: 42, Mismatches: 12, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
30 25 0.60
31 17 0.40
ACGTcount: A:0.51, C:0.01, G:0.14, T:0.34
Consensus pattern (31 bp):
AAAAAATTAATAGGGATATTTTAGATAATAT
Found at i:74923541 original size:14 final size:13
Alignment explanation
Indices: 74923519--74923560 Score: 57
Period size: 14 Copynumber: 3.1 Consensus size: 13
74923509 AATTCCAGTA
74923519 TTCTTTCTTGTTTC
1 TTCTTTCTT-TTTC
*
74923533 TTCTCTCTTTTCTC
1 TTCTTTCTTTT-TC
74923547 TTCTTTCTTTTTC
1 TTCTTTCTTTTTC
74923560 T
1 T
74923561 ATAAATTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 5 0.20
14 20 0.80
ACGTcount: A:0.00, C:0.26, G:0.02, T:0.71
Consensus pattern (13 bp):
TTCTTTCTTTTTC
Found at i:74924694 original size:15 final size:16
Alignment explanation
Indices: 74924674--74924708 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
74924664 ATAAAATTAC
74924674 ATATATTA-ATTTAAA
1 ATATATTATATTTAAA
*
74924689 ATATATTATATTTAAC
1 ATATATTATATTTAAA
74924705 ATAT
1 ATAT
74924709 GATTCTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (16 bp):
ATATATTATATTTAAA
Found at i:74926636 original size:16 final size:15
Alignment explanation
Indices: 74926606--74926649 Score: 61
Period size: 16 Copynumber: 2.9 Consensus size: 15
74926596 TAAATGTTAT
74926606 TATTTTTATTATTAC
1 TATTTTTATTATTAC
*
74926621 TATTTTCTATTTTTAC
1 TATTTT-TATTATTAC
*
74926637 TATTGTTATTATT
1 TATTTTTATTATT
74926650 TGCATTATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.23, C:0.07, G:0.02, T:0.68
Consensus pattern (15 bp):
TATTTTTATTATTAC
Found at i:74927000 original size:3 final size:3
Alignment explanation
Indices: 74926567--74926981 Score: 194
Period size: 3 Copynumber: 138.3 Consensus size: 3
74926557 TTAACTTTAA
* * * * * * * *
74926567 TAT TAT TAT TGT TAT TAC TAG TAT TCT TAT AAA TGT TAT TAT TTT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * *
74926615 TAT TAC TAT TTT CTAT TTT TAC TAT TGT TAT TAT T-T GCAT TAT TAT
1 TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT
* * * * * *
74926661 TCAT ATAC TAT TAT T-T GCTAT T-T TTT GTAT TGT CAT TAT TGT TAA
1 T-AT -TAT TAT TAT TAT --TAT TAT TAT -TAT TAT TAT TAT TAT TAT
*
74926706 CA- TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
74926753 TAT TAT CT-T CTA- TAT TTT TAT TAT TAG TGT TAT T-T CAT TAT TAT
1 TAT TAT -TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * *
74926797 TAT ATGT TAC TAT TA- CAT TCAT T-T T-T TAT TAT TCT TTT TAT TAA
1 TAT -TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * *
74926841 TAT TAT TAT TAC TAT TAT T-T TTT TAC TAT TTT TA- TAC TAT AAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
74926887 TCT TAT TAA TA- TAT TAT TAT TAT TTT CTAT TAT TAT TA- TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT
* * * *
74926931 TAT TAT TCT TAT TAAT GTAT TAT TAT TGT TAT TTT CTAC T-T TAT TAT
1 TAT TAT TAT TAT T-AT -TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT
74926978 TAT T
1 TAT T
74926982 GTATTATCAC
Statistics
Matches: 303, Mismatches: 81, Indels: 56
0.69 0.18 0.13
Matches are distributed among these distances:
2 22 0.07
3 256 0.84
4 22 0.07
5 3 0.01
ACGTcount: A:0.28, C:0.06, G:0.03, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:74929615 original size:23 final size:23
Alignment explanation
Indices: 74929534--74929619 Score: 90
Period size: 21 Copynumber: 3.9 Consensus size: 23
74929524 CTGATCAGAG
*
74929534 TACGACACATAAAGTGCCT-AAA
1 TACGACACACAAAGTGCCTGAAA
* *
74929556 -ACGACACACGAGGTGCCTG--A
1 TACGACACACAAAGTGCCTGAAA
* *
74929576 TACGACACACGAGGTGCCTGAAA
1 TACGACACACAAAGTGCCTGAAA
*
74929599 TACGACACATAAAGTGCCTGA
1 TACGACACACAAAGTGCCTGA
74929620 TCGATAAAGC
Statistics
Matches: 54, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.63
23 19 0.35
ACGTcount: A:0.37, C:0.26, G:0.22, T:0.15
Consensus pattern (23 bp):
TACGACACACAAAGTGCCTGAAA
Found at i:74930016 original size:15 final size:15
Alignment explanation
Indices: 74929991--74930048 Score: 98
Period size: 15 Copynumber: 3.8 Consensus size: 15
74929981 TCATATACAT
74929991 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
74930007 TATAAATTCAATCAA
1 TATAAATTCAATCAA
*
74930022 AATAAATTCAATCAA
1 TATAAATTCAATCAA
74930037 TATAAATTCAAT
1 TATAAATTCAAT
74930049 AAATTCAATA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
15 36 0.90
16 4 0.10
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.34
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:74930052 original size:9 final size:9
Alignment explanation
Indices: 74930022--74930064 Score: 56
Period size: 9 Copynumber: 5.1 Consensus size: 9
74930012 ATTCAATCAA
74930022 AATAAATTC
1 AATAAATTC
*
74930031 AATCAA-T-
1 AATAAATTC
74930038 -ATAAATTC
1 AATAAATTC
74930046 AATAAATTC
1 AATAAATTC
74930055 AATAAATTC
1 AATAAATTC
74930064 A
1 A
74930065 TCGCATACCA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
6 4 0.14
7 1 0.03
8 1 0.03
9 23 0.79
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.33
Consensus pattern (9 bp):
AATAAATTC
Found at i:74931381 original size:8 final size:8
Alignment explanation
Indices: 74931368--74931396 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
74931358 TATCTTTATT
74931368 ATATAATA
1 ATATAATA
74931376 ATATAATA
1 ATATAATA
74931384 ATATAATA
1 ATATAATA
74931392 ATATA
1 ATATA
74931397 TTAAACATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAATA
Found at i:74933027 original size:29 final size:29
Alignment explanation
Indices: 74932993--74933072 Score: 76
Period size: 29 Copynumber: 2.8 Consensus size: 29
74932983 ATTATTTTCC
74932993 ATTATTGTTATCATCAATA-TACTATTATT
1 ATTATTGTTATCATCAATATTA-TATTATT
* * *
74933022 ATTATT-TTCTACATTATTATTATATTATT
1 ATTATTGTTAT-CATCAATATTATATTATT
* *
74933051 ACTATTGCTATCATC-ATATTAT
1 ATTATTGTTATCATCAATATTAT
74933073 TAAACTAATT
Statistics
Matches: 40, Mismatches: 8, Indels: 7
0.73 0.15 0.13
Matches are distributed among these distances:
28 9 0.22
29 27 0.68
30 4 0.10
ACGTcount: A:0.33, C:0.11, G:0.03, T:0.54
Consensus pattern (29 bp):
ATTATTGTTATCATCAATATTATATTATT
Found at i:74933074 original size:3 final size:3
Alignment explanation
Indices: 74932904--74933056 Score: 111
Period size: 3 Copynumber: 51.7 Consensus size: 3
74932894 CTTGTTGTTT
*
74932904 TTA TTA TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
74932952 TTCC TTA GT- TTA TTA TTA TTA TTA -TC TTA TCA TTA TT- TTCCA TTA
1 TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT--A TTA
* * * * * * *
74932997 TTG TTA TCA TCA ATA -TA CTA TTA TTA TTA TT- TTC TACA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
*
74933041 TTA -TA TTA TTA CTA TT
1 TTA TTA TTA TTA TTA TT
74933057 GCTATCATCA
Statistics
Matches: 119, Mismatches: 21, Indels: 20
0.74 0.13 0.12
Matches are distributed among these distances:
2 10 0.08
3 104 0.87
4 3 0.03
5 2 0.02
ACGTcount: A:0.29, C:0.08, G:0.02, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:74933465 original size:3 final size:3
Alignment explanation
Indices: 74933450--74933523 Score: 78
Period size: 3 Copynumber: 25.0 Consensus size: 3
74933440 ATTATTCTAA
* * *
74933450 ATT ATT ATC ATT ATT ATT ATT ATT ATT ATT ATT ATT AAT ATT TTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * *
74933498 TTT ATT TTT ATT TTT ATG A-T ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
74933524 TATTCTAAAC
Statistics
Matches: 56, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
2 1 0.02
3 55 0.98
ACGTcount: A:0.30, C:0.01, G:0.01, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:74933722 original size:13 final size:13
Alignment explanation
Indices: 74933705--74933743 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
74933695 TTATACGCAA
74933705 ATTTTAAATTATT
1 ATTTTAAATTATT
* *
74933718 TTTTTGAATTATT
1 ATTTTAAATTATT
*
74933731 ATTTTAAGTTATT
1 ATTTTAAATTATT
74933744 CTATTTATAG
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (13 bp):
ATTTTAAATTATT
Found at i:74936800 original size:11 final size:11
Alignment explanation
Indices: 74936784--74936834 Score: 50
Period size: 11 Copynumber: 4.7 Consensus size: 11
74936774 TATACTAAAT
74936784 AAATAATAATA
1 AAATAATAATA
*
74936795 AAATAATATTA
1 AAATAATAATA
* * *
74936806 ATAT-CTCATA
1 AAATAATAATA
*
74936816 AAATATTAATA
1 AAATAATAATA
74936827 AAATAATA
1 AAATAATA
74936835 TTTATCTAAT
Statistics
Matches: 30, Mismatches: 9, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
10 6 0.20
11 24 0.80
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:74937670 original size:127 final size:127
Alignment explanation
Indices: 74937524--74937794 Score: 452
Period size: 127 Copynumber: 2.1 Consensus size: 127
74937514 GCCAACTTTA
* * *
74937524 TAAAACAAAGGCGAAGTTTGATGTTTAGAAATTCGAGGGATCGTGCCCTAATGTGTTGGGTTTCG
1 TAAAACAAAGGCGATGTTTGATGTTTAAAAATTCGAGGAATCGTGCCCTAATGTGTTGGGTTTCG
* * *
74937589 ATCTTTTGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTCCGTATTTTTTAAACCT
66 ATCTTTCGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTCCGCATTTTCTAAACCT
74937651 TAAAACAAAGGCGATGTTTGATGTTTAAAAATTCGAGGAATCGTGCCCTAATGTGTTGGGTTTCG
1 TAAAACAAAGGCGATGTTTGATGTTTAAAAATTCGAGGAATCGTGCCCTAATGTGTTGGGTTTCG
* * * *
74937716 ATCTTTCGTTTGTTTAAATAATCAAATTTTCTTTTAAAATTTCGTCTGCGTTTTCTAAACCT
66 ATCTTTCGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTCCGCATTTTCTAAACCT
74937778 TAAAACAAAGGCGATGT
1 TAAAACAAAGGCGATGT
74937795 CCTAATGTGT
Statistics
Matches: 134, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
127 134 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (127 bp):
TAAAACAAAGGCGATGTTTGATGTTTAAAAATTCGAGGAATCGTGCCCTAATGTGTTGGGTTTCG
ATCTTTCGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTCCGCATTTTCTAAACCT
Found at i:74937866 original size:98 final size:98
Alignment explanation
Indices: 74937697--74937892 Score: 365
Period size: 98 Copynumber: 2.0 Consensus size: 98
74937687 GGAATCGTGC
* *
74937697 CCTAATGTGTTGGGTTTCGATCTTTCGTTTGTTTAAATAATCAAATTTTCTTTTAAAATTTCGTC
1 CCTAATGTGTTGGGTTTCGATCTTTCGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTC
74937762 TGCGTTTTCTAAACCTTAAAACAAAGGCGATGT
66 TGCGTTTTCTAAACCTTAAAACAAAGGCGATGT
*
74937795 CCTAATGTGTTGGGTTTCGATCTTTCGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTT
1 CCTAATGTGTTGGGTTTCGATCTTTCGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTC
74937860 TGCGTTTTCTAAACCTTAAAACAAAGGCGATGT
66 TGCGTTTTCTAAACCTTAAAACAAAGGCGATGT
74937893 TTGGTGTTCA
Statistics
Matches: 95, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
98 95 1.00
ACGTcount: A:0.27, C:0.16, G:0.15, T:0.42
Consensus pattern (98 bp):
CCTAATGTGTTGGGTTTCGATCTTTCGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTC
TGCGTTTTCTAAACCTTAAAACAAAGGCGATGT
Found at i:74937961 original size:225 final size:225
Alignment explanation
Indices: 74937570--74938019 Score: 765
Period size: 225 Copynumber: 2.0 Consensus size: 225
74937560 GGGATCGTGC
*
74937570 CCTAATGTGTTGGGTTTCGATCTTTTGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTC
1 CCTAATGTGTTGGGTTTCGATCTTTCGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTC
* * *
74937635 CGTATTTTTTAAACCTTAAAACAAAGGCGATGTTTGATGTTTAAAAATTCGAGGAATCGTGCCCT
66 CGCATTTTCTAAACCTTAAAACAAAGGCGATGTTTGATGTTCAAAAATTCGAGGAATCGTGCCCT
* * * * *
74937700 AATGTGTTGGGTTTCGATCTTTCGTTTGTTTAAATAATCAAATTTTCTTTTAAAATTTCGTCTGC
131 AATGTGTTAGGTTGCGATCTTTCGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTCCGC
74937765 GTTTTCTAAACCTTAAAACAAAGGCGATGT
196 GTTTTCTAAACCTTAAAACAAAGGCGATGT
*
74937795 CCTAATGTGTTGGGTTTCGATCTTTCGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTT
1 CCTAATGTGTTGGGTTTCGATCTTTCGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTC
* * * *
74937860 TGCGTTTTCTAAACCTTAAAACAAAGGCGATGTTTGGTGTTCAAAAATTCGAGGGATCGTGCCCT
66 CGCATTTTCTAAACCTTAAAACAAAGGCGATGTTTGATGTTCAAAAATTCGAGGAATCGTGCCCT
74937925 AATGTGTTAGGTTGCGATCTTTCGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTCCGC
131 AATGTGTTAGGTTGCGATCTTTCGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTCCGC
*
74937990 GTTTTCTAAACCTTAAAACAAAGGTGATGT
196 GTTTTCTAAACCTTAAAACAAAGGCGATGT
74938020 TTGATGTTTA
Statistics
Matches: 210, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
225 210 1.00
ACGTcount: A:0.27, C:0.16, G:0.17, T:0.41
Consensus pattern (225 bp):
CCTAATGTGTTGGGTTTCGATCTTTCGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTC
CGCATTTTCTAAACCTTAAAACAAAGGCGATGTTTGATGTTCAAAAATTCGAGGAATCGTGCCCT
AATGTGTTAGGTTGCGATCTTTCGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTCCGC
GTTTTCTAAACCTTAAAACAAAGGCGATGT
Found at i:74938021 original size:127 final size:127
Alignment explanation
Indices: 74937795--74938114 Score: 487
Period size: 127 Copynumber: 2.5 Consensus size: 127
74937785 AAGGCGATGT
*
74937795 CCTAATGTGTTGGGTTTCGATCTTTCGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTT
1 CCTAATGTGTTGGGTTTCGATCTTTCGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTC
* * *
74937860 TGCGTTTTCTAAACCTTAAAACAAAGGCGATGTTTGGTGTTCAAAAATTCGAGGGATCGTGC
66 CGCGTTTTCTAAACCTTAAAACAAAGGCGATGTTTGATGTTCAAAAATTCGAGGAATCGTGC
* *
74937922 CCTAATGTGTTAGGTTGCGATCTTTCGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTC
1 CCTAATGTGTTGGGTTTCGATCTTTCGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTC
* * * *
74937987 CGCGTTTTCTAAACCTTAAAACAAAGGTGATGTTTGATGTTTAGAAATTTGAGGAATCGTGC
66 CGCGTTTTCTAAACCTTAAAACAAAGGCGATGTTTGATGTTCAAAAATTCGAGGAATCGTGC
** * ** **
74938049 CCTAATGTGCGGGGTTTCGATCTTTCGTTTATCCAAATAATCAAACATCCCTTTAAAATTTCGTC
1 CCTAATGTGTTGGGTTTCGATCTTTCGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTC
74938114 C
66 C
74938115 ATATTTTTCT
Statistics
Matches: 174, Mismatches: 19, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
127 174 1.00
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.39
Consensus pattern (127 bp):
CCTAATGTGTTGGGTTTCGATCTTTCGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTC
CGCGTTTTCTAAACCTTAAAACAAAGGCGATGTTTGATGTTCAAAAATTCGAGGAATCGTGC
Found at i:74945044 original size:29 final size:30
Alignment explanation
Indices: 74945012--74945068 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 30
74945002 TGGTTTAATG
74945012 TGTAATTATATATA-TAAATTTTAATTTTT
1 TGTAATTATATATATTAAATTTTAATTTTT
* *
74945041 TGTAATTTTATATATTAAATTTTTATTT
1 TGTAATTATATATATTAAATTTTAATTT
74945069 GATCTAATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 13 0.52
30 12 0.48
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (30 bp):
TGTAATTATATATATTAAATTTTAATTTTT
Found at i:74945077 original size:30 final size:31
Alignment explanation
Indices: 74945017--74945077 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
74945007 TAATGTGTAA
** *
74945017 TTATATATATAAATTTTAATTTTTTGTAATT
1 TTATATATATAAATTTTAATTTGATCTAATT
*
74945048 TTATATAT-TAAATTTTTATTTGATCTAATT
1 TTATATATATAAATTTTAATTTGATCTAATT
74945078 CTTGATAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 18 0.69
31 8 0.31
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (31 bp):
TTATATATATAAATTTTAATTTGATCTAATT
Found at i:74945295 original size:29 final size:30
Alignment explanation
Indices: 74945263--74945321 Score: 75
Period size: 31 Copynumber: 2.0 Consensus size: 30
74945253 TTATGTGTAT
*
74945263 AATTG-CATCAAATTAAAATTCATGTATAC
1 AATTGACATCAAATCAAAATTCATGTATAC
* *
74945292 AATTGCACATTAAATCAAAGTTCATGTATA
1 AATTG-ACATCAAATCAAAATTCATGTATA
74945322 ATTTTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 5 0.20
31 20 0.80
ACGTcount: A:0.44, C:0.14, G:0.08, T:0.34
Consensus pattern (30 bp):
AATTGACATCAAATCAAAATTCATGTATAC
Found at i:74945324 original size:29 final size:27
Alignment explanation
Indices: 74945258--74945324 Score: 71
Period size: 31 Copynumber: 2.3 Consensus size: 27
74945248 GAGTTTTATG
*
74945258 TGTATAATTGCATCAAATTAAAATTCA
1 TGTATAATTGCATCAAATCAAAATTCA
* *
74945285 TGTATACAATTGCACATTAAATCAAAGTTCA
1 TGTAT--AATTG--CATCAAATCAAAATTCA
74945316 TGTATAATT
1 TGTATAATT
74945325 TTAAAATTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
27 5 0.15
29 9 0.27
31 19 0.58
ACGTcount: A:0.42, C:0.12, G:0.09, T:0.37
Consensus pattern (27 bp):
TGTATAATTGCATCAAATCAAAATTCA
Found at i:74948580 original size:24 final size:24
Alignment explanation
Indices: 74948528--74948591 Score: 78
Period size: 24 Copynumber: 2.7 Consensus size: 24
74948518 CTCTTACTTA
**
74948528 TTCGCACACATAGTG-CAATATTT
1 TTCGCACACATAGTGCCAATATGC
74948551 TCTCGCACACATAGTGCCACATA-GC
1 T-TCGCACACATAGTGCCA-ATATGC
74948576 TTCGCACACATAGTGC
1 TTCGCACACATAGTGC
74948592 TGTATCTTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
23 1 0.03
24 29 0.81
25 3 0.08
26 3 0.08
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.27
Consensus pattern (24 bp):
TTCGCACACATAGTGCCAATATGC
Found at i:74948600 original size:22 final size:22
Alignment explanation
Indices: 74948528--74948600 Score: 74
Period size: 24 Copynumber: 3.1 Consensus size: 22
74948518 CTCTTACTTA
*
74948528 TTCGCACACATAGTGCAATATTT
1 TTCGCACACATAGTGCAATA-TC
*
74948551 TCTCGCACACATAGTGCCACATAGC
1 T-TCGCACACATAGTG-CA-ATATC
**
74948576 TTCGCACACATAGTGCTGTATC
1 TTCGCACACATAGTGCAATATC
74948598 TTC
1 TTC
74948601 TTATCTTTAA
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
22 6 0.14
23 2 0.05
24 28 0.67
25 3 0.07
26 3 0.07
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.30
Consensus pattern (22 bp):
TTCGCACACATAGTGCAATATC
Found at i:74955037 original size:32 final size:32
Alignment explanation
Indices: 74955000--74955106 Score: 117
Period size: 32 Copynumber: 3.4 Consensus size: 32
74954990 TAAAGGAATA
74955000 TTGTTATCATTTAACAAAATTAAAGTTGAAAT
1 TTGTTATCATTTAACAAAATTAAAGTTGAAAT
* * *
74955032 TTGTTATCATTTTACAAAATTGAAGTTGTAAT
1 TTGTTATCATTTAACAAAATTAAAGTTGAAAT
* * * * **
74955064 TTGTTACCGTTTCAC-AAATAAAAGTTGATGT
1 TTGTTATCATTTAACAAAATTAAAGTTGAAAT
*
74955095 TTATTATCATTT
1 TTGTTATCATTT
74955107 CACAGAACTG
Statistics
Matches: 61, Mismatches: 14, Indels: 1
0.80 0.18 0.01
Matches are distributed among these distances:
31 20 0.33
32 41 0.67
ACGTcount: A:0.36, C:0.08, G:0.11, T:0.45
Consensus pattern (32 bp):
TTGTTATCATTTAACAAAATTAAAGTTGAAAT
Found at i:74955426 original size:21 final size:21
Alignment explanation
Indices: 74955379--74955426 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
74955369 TTAATCAATT
*
74955379 TAAATTTTAAAACCCTAAACC
1 TAAACTTTAAAACCCTAAACC
*
74955400 TTAACTTTAAAACCCT-AACC
1 TAAACTTTAAAACCCTAAACC
74955420 ATAAACT
1 -TAAACT
74955427 CTAACACAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.46, C:0.25, G:0.00, T:0.29
Consensus pattern (21 bp):
TAAACTTTAAAACCCTAAACC
Found at i:74955956 original size:12 final size:13
Alignment explanation
Indices: 74955934--74955963 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
74955924 GTTAAATAAT
74955934 TATTATATATTTA
1 TATTATATATTTA
74955947 TATT-TATATTTA
1 TATTATATATTTA
74955959 TATTA
1 TATTA
74955964 AATCACAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
TATTATATATTTA
Found at i:74964697 original size:14 final size:15
Alignment explanation
Indices: 74964673--74964707 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
74964663 ACAAGACTAA
*
74964673 ATTCTTTCTTCTTTC
1 ATTCCTTCTTCTTTC
74964688 -TTCCTTCTTCTTTC
1 ATTCCTTCTTCTTTC
74964702 ATTCCT
1 ATTCCT
74964708 GTACCATGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.06, C:0.31, G:0.00, T:0.63
Consensus pattern (15 bp):
ATTCCTTCTTCTTTC
Found at i:74973642 original size:24 final size:25
Alignment explanation
Indices: 74973598--74973647 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 25
74973588 TCCCTAAACT
*
74973598 AAAAGTCTATCTTGTTGTGGCCAAA
1 AAAAGTCTATCGTGTTGTGGCCAAA
74973623 AAAAGTTCTATCGTG-T-TGGCCAAA
1 AAAAG-TCTATCGTGTTGTGGCCAAA
74973647 A
1 A
74973648 TGAAAAGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 9 0.39
25 6 0.26
26 8 0.35
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (25 bp):
AAAAGTCTATCGTGTTGTGGCCAAA
Found at i:74979110 original size:2 final size:2
Alignment explanation
Indices: 74979105--74979135 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
74979095 AAAATACTGC
74979105 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
74979136 AGTTTCTGCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:74988115 original size:23 final size:22
Alignment explanation
Indices: 74988089--74988134 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 22
74988079 TGTGATGACG
74988089 TTATCTT-ATAAATATGTATGAAT
1 TTATCTTGA-AAATATGT-TGAAT
74988112 TTATCTTGAAAATATGTTGAAT
1 TTATCTTGAAAATATGTTGAAT
74988134 T
1 T
74988135 AGTTTGGTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 6 0.27
23 15 0.68
24 1 0.05
ACGTcount: A:0.37, C:0.04, G:0.11, T:0.48
Consensus pattern (22 bp):
TTATCTTGAAAATATGTTGAAT
Found at i:74989894 original size:18 final size:19
Alignment explanation
Indices: 74989873--74989910 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
74989863 TTATAAAAAT
*
74989873 ATTCAAAA-AAAATTCTAA
1 ATTCAAAACAAAATTATAA
74989891 ATTCAAAACAAAATTATAA
1 ATTCAAAACAAAATTATAA
74989910 A
1 A
74989911 AAAAATTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.63, C:0.11, G:0.00, T:0.26
Consensus pattern (19 bp):
ATTCAAAACAAAATTATAA
Found at i:74993213 original size:30 final size:30
Alignment explanation
Indices: 74993179--74993241 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
74993169 ACTTATTCTA
74993179 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
*
74993209 TTGTTAATTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
74993239 TTG
1 TTG
74993242 CTTGTTAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.27, C:0.03, G:0.13, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:74993315 original size:21 final size:23
Alignment explanation
Indices: 74993283--74993333 Score: 54
Period size: 24 Copynumber: 2.3 Consensus size: 23
74993273 TAAGTATACA
*
74993283 TATTTTATATTT-TT-TAAAATT
1 TATTTTATATTTGTTGGAAAATT
74993304 TATTTTCA-ATTTGTTGGGAAAATT
1 TATTTT-ATATTTGTT-GGAAAATT
74993328 TATTTT
1 TATTTT
74993334 GATGTTTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 10 0.40
22 3 0.12
24 12 0.48
ACGTcount: A:0.29, C:0.02, G:0.08, T:0.61
Consensus pattern (23 bp):
TATTTTATATTTGTTGGAAAATT
Found at i:74993401 original size:12 final size:12
Alignment explanation
Indices: 74993371--74993403 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
74993361 TATATATTTT
74993371 AAAATT-ATATA
1 AAAATTAATATA
74993382 AAAA-TAATATA
1 AAAATTAATATA
74993393 AAAATTAATAT
1 AAAATTAATAT
74993404 GGGCGGGCCG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:74997935 original size:13 final size:13
Alignment explanation
Indices: 74997904--74997936 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
74997894 TAATCTCATT
74997904 ATTTTTTATTAAA
1 ATTTTTTATTAAA
*
74997917 ACTTTTTATT-AA
1 ATTTTTTATTAAA
74997929 ATTTTTTA
1 ATTTTTTA
74997937 GTGTGAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 9 0.50
13 9 0.50
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (13 bp):
ATTTTTTATTAAA
Found at i:75000184 original size:51 final size:51
Alignment explanation
Indices: 75000108--75000209 Score: 195
Period size: 51 Copynumber: 2.0 Consensus size: 51
75000098 TTATTAGGTT
*
75000108 CATATGCACTCATTTTGGACTGTTTATGTCAGCTGTTATACCCGGAGAACA
1 CATATGCACTCATTTTGGACTGTTTATGTCAGCTGTTATACACGGAGAACA
75000159 CATATGCACTCATTTTGGACTGTTTATGTCAGCTGTTATACACGGAGAACA
1 CATATGCACTCATTTTGGACTGTTTATGTCAGCTGTTATACACGGAGAACA
75000210 AGTAAATGGT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (51 bp):
CATATGCACTCATTTTGGACTGTTTATGTCAGCTGTTATACACGGAGAACA
Found at i:75007729 original size:18 final size:18
Alignment explanation
Indices: 75007708--75007755 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
75007698 TAATAAGAAT
*
75007708 TATTAAAATATTATTTCA
1 TATTAAAATATTATATCA
75007726 TATTTAAAATAAATTATATCA
1 TA-TTAAAAT--ATTATATCA
75007747 T-TTAAAATA
1 TATTAAAATA
75007756 AACCACAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
17 1 0.04
18 2 0.08
19 14 0.54
21 9 0.35
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (18 bp):
TATTAAAATATTATATCA
Found at i:75008440 original size:228 final size:227
Alignment explanation
Indices: 75008036--75008698 Score: 776
Period size: 228 Copynumber: 2.9 Consensus size: 227
75008026 CTTTGAAGAA
* * *
75008036 GATGCAGATCTTTGTGAAAACCCTTACCGGCAAGACCATAACACTCGAGGTCGAAAGCTCCGACA
1 GATGCAGATCTTTGTCAAAA-CCTTACCGGCAAGACCATCACCCTCGAGGTCGAAAGCTCCGACA
* * * *
75008101 CCATCGACAACGTCAAGGCCAAGATCCAAGACAAGGAAGGGATCCCACCCGACCAGCAGCGTCTC
65 CCATCGACAACGTTAAGGCCAAGATTCAAGACAAGGAAGGAATCCCACCTGACCAGCAGCGTCTC
* ** * * **
75008166 ATTTTCGCTGGCAAACAGCTCGAAGACGGTCGGACCCTT-GCTGATTATAACATCCAGAAAGAAT
130 ATCTTCGCTGGCAAACAATTGGAAGATGGGAGGA-CCTTGGCTGATTATAACATCCAGAAAGAAT
*
75008230 CCACCCTCCACCTCGTCTT-ACGCCTTCGTGG-GG
194 CCACCCTTCACCTCGTCTTGA-GCCTTCGTGGAGG
* * * *
75008263 GCATGCAAATCTTTGTCAAAACCTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGTTCCGAC
1 G-ATGCAGATCTTTGTCAAAACCTT-ACCGGCAAGACCATCACCCTCGAGGTCGAAAGCTCCGAC
* *
75008328 ACCATCGACAACGTTAAGGCCAAGATTCAAGACAAGGAAGGAATCCCACCTGACCAACAGCGTTT
64 ACCATCGACAACGTTAAGGCCAAGATTCAAGACAAGGAAGGAATCCCACCTGACCAGCAGCGTCT
* *
75008393 GATCTTCGCTGGCAAACAATTGGAAGATGGGAGGACCTTGGCTGATTATAATATCCA-AAAGGAA
129 CATCTTCGCTGGCAAACAATTGGAAGATGGGAGGACCTTGGCTGATTATAACATCCAGAAA-GAA
* * *
75008457 TCCACCCTTCACCTTGTTTTGAGGCTTCGTGGAGG
193 TCCACCCTTCACCTCGTCTTGAGCCTTCGTGGAGG
* * * * * * * * * *
75008492 GATGCAGATTTTTGTCAAGACTTTGACAGGCAAAACAATCACCTTGGAGGTTGAAAGCTCCGATA
1 GATGCAGATCTTTGTCAAAACCTT-ACCGGCAAGACCATCACCCTCGAGGTCGAAAGCTCCGACA
* * * * * * ** *
75008557 CCATTGACAATGTTAAGGCAAAGATTCAGGATAAGGAAGGAATCCCACCTGATCAGCAAAGGCTC
65 CCATCGACAACGTTAAGGCCAAGATTCAAGACAAGGAAGGAATCCCACCTGACCAGCAGCGTCTC
* * * * *
75008622 ATCTTTGCCGGCAAACAATTGGAAGATGGGAGGACTTTGGCTGATTATAACATTCAGAAAGAGTC
130 ATCTTCGCTGGCAAACAATTGGAAGATGGGAGGACCTTGGCTGATTATAACATCCAGAAAGAATC
*
75008687 TACCCTTCACCT
195 CACCCTTCACCT
75008699 TGTTCTTCGT
Statistics
Matches: 369, Mismatches: 60, Indels: 13
0.83 0.14 0.03
Matches are distributed among these distances:
227 12 0.03
228 350 0.95
229 7 0.02
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.21
Consensus pattern (227 bp):
GATGCAGATCTTTGTCAAAACCTTACCGGCAAGACCATCACCCTCGAGGTCGAAAGCTCCGACAC
CATCGACAACGTTAAGGCCAAGATTCAAGACAAGGAAGGAATCCCACCTGACCAGCAGCGTCTCA
TCTTCGCTGGCAAACAATTGGAAGATGGGAGGACCTTGGCTGATTATAACATCCAGAAAGAATCC
ACCCTTCACCTCGTCTTGAGCCTTCGTGGAGG
Found at i:75013549 original size:2 final size:2
Alignment explanation
Indices: 75013542--75013571 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
75013532 AATAAATAAG
*
75013542 AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
75013572 GTATCTGCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:75014490 original size:12 final size:12
Alignment explanation
Indices: 75014458--75014492 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
75014448 TTTTAGATTT
75014458 AAAAAATTAATA
1 AAAAAATTAATA
**
75014470 AAATTATTAATA
1 AAAAAATTAATA
75014482 AAAAAATTAAT
1 AAAAAATTAAT
75014493 TTATTCTTTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
AAAAAATTAATA
Found at i:75017253 original size:3 final size:3
Alignment explanation
Indices: 75017245--75017271 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
75017235 AGTATCTAAA
75017245 GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT
75017272 ATTGAACAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:75018871 original size:34 final size:34
Alignment explanation
Indices: 75018828--75018896 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
75018818 AACTGGAAAG
75018828 TACGAGTTTGTCATGTTTCGATGACCCAAAATGT
1 TACGAGTTTGTCATGTTTCGATGACCCAAAATGT
75018862 TACGAGTTTGTCATGTTTCGATGACCCAAAATGT
1 TACGAGTTTGTCATGTTTCGATGACCCAAAATGT
75018896 T
1 T
75018897 GCAATCGACT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.36
Consensus pattern (34 bp):
TACGAGTTTGTCATGTTTCGATGACCCAAAATGT
Found at i:75025454 original size:50 final size:49
Alignment explanation
Indices: 75025376--75025654 Score: 292
Period size: 50 Copynumber: 5.6 Consensus size: 49
75025366 TTGTGAATAT
* * * *
75025376 ACGTGTGTAGTATTAAGTGCAGGCTACTACGTGTACCATACTGTTAAGTC
1 ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TGTGAGGTC
* * * * ** *
75025426 GCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCA-ATGACTTCGATC
1 ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CAGATG--TGAGGTC
* * *
75025477 ACGTGTGTAGTACTAAGTGTAGGCTGCTACGTGTATCAGATGGTGAGGTC
1 ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-GTGAGGTC
*
75025527 ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTGAGGTC
1 ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-GTGAGGTC
* * *
75025577 ACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGGAT-TGTTGGTC
1 ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGTG-AGGTC
* * *
75025626 GCATGAGTAGTACTAAGTGCAGGCTACTA
1 ACGTGTGTAGTACTAAGTGCAGGCTACTA
75025655 TGCGTATCAG
Statistics
Matches: 195, Mismatches: 28, Indels: 13
0.83 0.12 0.06
Matches are distributed among these distances:
48 2 0.01
49 31 0.16
50 124 0.64
51 37 0.19
52 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (49 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGTGAGGTC
Found at i:75025551 original size:101 final size:98
Alignment explanation
Indices: 75025376--75025666 Score: 359
Period size: 101 Copynumber: 2.9 Consensus size: 98
75025366 TTGTGAATAT
* * * *
75025376 ACGTGTGTAGTATTAAGTGCAGGCTACTACGTGTACCATACTGTTAAGTCGCATGTGTAGTACTA
1 ACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGA-TG-TAGGTCGCATGTGTAGTACTA
**
75025441 AGTGCAGGCTACTATGCGTACTCA-ATGACTTCGATC
64 AGTGCAGGCTACTATGCGTA-TCAGATG-CTGAGATC
* * * *
75025477 ACGTGTGTAGTACTAAGTGTAGGCTGCTACGTGTATCAGATGGTGAGGTCACGTGTGTAGTACTA
1 ACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGAT-GT-AGGTCGCATGTGTAGTACTA
* * * *
75025542 AGTGCAGGCTACTACGTGTATCAGATGGTGAGGTC
64 AGTGCAGGCTACTATGCGTATCAGATGCTGAGATC
* * *
75025577 ACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATTGTTGGTCGCATGAGTAGTACTAA
1 ACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGA-TGTAGGTCGCATGTGTAGTACTAA
75025642 GTGCAGGCTACTATGCGTATCAGAT
65 GTGCAGGCTACTATGCGTATCAGAT
75025667 AGCTTCGGCT
Statistics
Matches: 163, Mismatches: 23, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
99 40 0.25
100 48 0.29
101 75 0.46
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (98 bp):
ACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATGTAGGTCGCATGTGTAGTACTAAG
TGCAGGCTACTATGCGTATCAGATGCTGAGATC
Found at i:75028839 original size:65 final size:65
Alignment explanation
Indices: 75028770--75028982 Score: 300
Period size: 65 Copynumber: 3.3 Consensus size: 65
75028760 TTTCTGAGTG
* * ** *
75028770 GTACACATAAAGTATACCTTTCCTTTTCAAATGATATACACAAAGTATACCTAACCTTTCCAAGT
1 GTACACACAAAGTATACATAACCTTTTCAAATGGTATACACAAAGTATACCTAACCTTTCCAAGT
*
75028835 GTACACACAAAGTGTACATAACCTTTTCAAATGGTATACACAAAGTATACCTAACCTTTCCAAGT
1 GTACACACAAAGTATACATAACCTTTTCAAATGGTATACACAAAGTATACCTAACCTTTCCAAGT
* * ** * *
75028900 GTACACACAAAGTGTACATAACCTTTTCAAATGGTATACACAAAGTATACTTTTCCTTTTCTAGT
1 GTACACACAAAGTATACATAACCTTTTCAAATGGTATACACAAAGTATACCTAACCTTTCCAAGT
*
75028965 GGTATACACAAAGTATAC
1 -GTACACACAAAGTATAC
75028983 TTTTCCTTTT
Statistics
Matches: 134, Mismatches: 13, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
65 119 0.89
66 15 0.11
ACGTcount: A:0.37, C:0.22, G:0.10, T:0.31
Consensus pattern (65 bp):
GTACACACAAAGTATACATAACCTTTTCAAATGGTATACACAAAGTATACCTAACCTTTCCAAGT
Found at i:75028991 original size:98 final size:98
Alignment explanation
Indices: 75028760--75028991 Score: 268
Period size: 98 Copynumber: 2.4 Consensus size: 98
75028750 TGTACGTTTA
* * * * *
75028760 TTTCTGAGTGGTACACATAAAGTATACCTTTCCTTTTCAAATGATATACACAAAGTATACCTAAC
1 TTTCT-AGTGGTATACACAAAGTATACCTTTCCTTTCCAAATGATACACACAAAGTATACATAAC
* *
75028825 CTTTCCAAGTGTACACACAAAGTGTACATAACCT
65 CTTTCCAAATGTACACACAAAGTATACATAACCT
* * ** * *
75028859 TTTCAAATGGTATACACAAAGTATACCTAACCTTTCCAAGTG-TACACACAAAGTGTACATAACC
1 TTTCTAGTGGTATACACAAAGTATACCTTTCCTTTCCAAATGATACACACAAAGTATACATAACC
* * * **
75028923 TTTTCAAATGGTATACACAAAGTATACTTTTCCT
66 TTTCCAAAT-GTACACACAAAGTATACATAACCT
*
75028957 TTTCTAGTGGTATACACAAAGTATACTTTTCCTTT
1 TTTCTAGTGGTATACACAAAGTATACCTTTCCTTT
75028992 TCACATTCGA
Statistics
Matches: 109, Mismatches: 23, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
97 26 0.24
98 79 0.72
99 4 0.04
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.34
Consensus pattern (98 bp):
TTTCTAGTGGTATACACAAAGTATACCTTTCCTTTCCAAATGATACACACAAAGTATACATAACC
TTTCCAAATGTACACACAAAGTATACATAACCT
Found at i:75028993 original size:33 final size:33
Alignment explanation
Indices: 75028766--75028982 Score: 240
Period size: 33 Copynumber: 6.6 Consensus size: 33
75028756 TTTATTTCTG
* * **
75028766 AGTGGTACACATAAAGTATACCTTTCCTTTTCA
1 AGTGGTATACACAAAGTATACCTAACCTTTTCA
* * *
75028799 AATGATATACACAAAGTATACCTAACCTTTCCA
1 AGTGGTATACACAAAGTATACCTAACCTTTTCA
* * *
75028832 AGT-GTACACACAAAGTGTACATAACCTTTTCA
1 AGTGGTATACACAAAGTATACCTAACCTTTTCA
* *
75028864 AATGGTATACACAAAGTATACCTAACCTTTCCA
1 AGTGGTATACACAAAGTATACCTAACCTTTTCA
* * *
75028897 AGT-GTACACACAAAGTGTACATAACCTTTTCA
1 AGTGGTATACACAAAGTATACCTAACCTTTTCA
* * ** *
75028929 AATGGTATACACAAAGTATACTTTTCCTTTTCT
1 AGTGGTATACACAAAGTATACCTAACCTTTTCA
75028962 AGTGGTATACACAAAGTATAC
1 AGTGGTATACACAAAGTATAC
75028983 TTTTCCTTTT
Statistics
Matches: 151, Mismatches: 31, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
32 53 0.35
33 98 0.65
ACGTcount: A:0.37, C:0.21, G:0.11, T:0.31
Consensus pattern (33 bp):
AGTGGTATACACAAAGTATACCTAACCTTTTCA
Found at i:75029029 original size:29 final size:29
Alignment explanation
Indices: 75028987--75029085 Score: 164
Period size: 29 Copynumber: 3.4 Consensus size: 29
75028977 GTATACTTTT
75028987 CCTTTTCACATTCGATAGCCGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
*
75029016 CCTTTTCACATTCGATAGCCAAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
*
75029045 CCTTTTCACATTTC-ATAGCCGAAGATATC
1 CCTTTTCACA-TTCGATAGCCGAAGCTATC
75029074 CCTTTTCACATT
1 CCTTTTCACATT
75029086 GTACACACAA
Statistics
Matches: 66, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
28 2 0.03
29 61 0.92
30 3 0.05
ACGTcount: A:0.25, C:0.30, G:0.10, T:0.34
Consensus pattern (29 bp):
CCTTTTCACATTCGATAGCCGAAGCTATC
Found at i:75032642 original size:4 final size:4
Alignment explanation
Indices: 75032633--75032667 Score: 56
Period size: 4 Copynumber: 9.2 Consensus size: 4
75032623 GAGCAAACGT
75032633 GAAA GAAA G-AA GAAA GAAA GAAA GAAA GAAA -AAA G
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA G
75032668 GGAAATTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 6 0.21
4 23 0.79
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:75036374 original size:46 final size:44
Alignment explanation
Indices: 75036270--75036377 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
75036260 TGTCTTTGAC
** * * *
75036270 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
75036314 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
75036360 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
75036378 TTTCGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:75043761 original size:46 final size:44
Alignment explanation
Indices: 75043657--75043764 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
75043647 TGTCTTTGAC
** * * *
75043657 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
75043701 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
75043747 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
75043765 TTTCGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:75047154 original size:2 final size:2
Alignment explanation
Indices: 75047147--75047172 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
75047137 TATCATGCAC
75047147 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
75047173 CATAATACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:75049202 original size:44 final size:44
Alignment explanation
Indices: 75049153--75049238 Score: 145
Period size: 44 Copynumber: 2.0 Consensus size: 44
75049143 AGATCCAACA
* *
75049153 CAAATATTTTACGTGGAAAAACCCCTCTGAAAATGATAAAAATC
1 CAAATATTTTACGTAGAAAAACCCCTCTGAAAAGGATAAAAATC
*
75049197 CAAATATTTTACGTAGAAAAACCCCTCTGAAGAGGATAAAAA
1 CAAATATTTTACGTAGAAAAACCCCTCTGAAAAGGATAAAAA
75049239 ACCACATGCA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.47, C:0.17, G:0.13, T:0.23
Consensus pattern (44 bp):
CAAATATTTTACGTAGAAAAACCCCTCTGAAAAGGATAAAAATC
Found at i:75050432 original size:39 final size:39
Alignment explanation
Indices: 75050378--75050636 Score: 401
Period size: 39 Copynumber: 6.6 Consensus size: 39
75050368 AACACAAATG
* *
75050378 CCTTCGAGACTTAGCCCGGATATAACACCAGTACGAATA
1 CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATA
75050417 CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATA
1 CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATA
*
75050456 CCTTCGGGACTTAGCCCGGATATAAAACCAGCACGAATA
1 CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATA
* *
75050495 CCTTCGGGACTTAGCCCGGATATGACACCAGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATA
* * *
75050534 CCTTCGGGACTTAGCCCGGACATAACAACAGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATA
** *
75050573 CCTTCGGGACTTAGCCCTAATATAACACCAGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATA
* *
75050612 CCTTCGGGACTTAGCCTGGACATAA
1 CCTTCGGGACTTAGCCCGGATATAA
75050637 ATCTCACACA
Statistics
Matches: 203, Mismatches: 17, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 203 1.00
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.19
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATA
Found at i:75051145 original size:2 final size:2
Alignment explanation
Indices: 75051138--75051172 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
75051128 TTCCAATATG
75051138 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
75051173 TTTTCCTTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:75052322 original size:17 final size:17
Alignment explanation
Indices: 75052297--75052338 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
75052287 CACCAATAAC
*
75052297 ATATATAATTATAATTAT
1 ATATATAA-TATAAATAT
75052315 AT-TATAATATAAATAT
1 ATATATAATATAAATAT
75052331 ATATATAA
1 ATATATAA
75052339 ATACATACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 10 0.45
17 10 0.45
18 2 0.09
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
ATATATAATATAAATAT
Found at i:75057992 original size:2 final size:2
Alignment explanation
Indices: 75057985--75058012 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
75057975 TATCATGCAC
75057985 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
75058013 CATAACACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:75060041 original size:44 final size:44
Alignment explanation
Indices: 75059991--75060076 Score: 154
Period size: 44 Copynumber: 2.0 Consensus size: 44
75059981 AGATCCAACA
*
75059991 CAAATATTTTACGTGGAAAAACCCCTCTGAAAAGGATAAAAATC
1 CAAATATTTTACGTAGAAAAACCCCTCTGAAAAGGATAAAAATC
*
75060035 CAAATATTTTACGTAGAAAAACCCCTCTGAAGAGGATAAAAA
1 CAAATATTTTACGTAGAAAAACCCCTCTGAAAAGGATAAAAA
75060077 ACCACATGCA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.47, C:0.17, G:0.14, T:0.22
Consensus pattern (44 bp):
CAAATATTTTACGTAGAAAAACCCCTCTGAAAAGGATAAAAATC
Found at i:75064268 original size:13 final size:13
Alignment explanation
Indices: 75064250--75064293 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
75064240 ATCAAACAAC
75064250 ATAATTATATTAA
1 ATAATTATATTAA
*
75064263 ATAATTATATTTA
1 ATAATTATATTAA
* *
75064276 CTAATT-TACTAA
1 ATAATTATATTAA
75064288 ATAATT
1 ATAATT
75064294 TTCTTCATAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
12 9 0.35
13 17 0.65
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (13 bp):
ATAATTATATTAA
Found at i:75071043 original size:16 final size:16
Alignment explanation
Indices: 75071022--75071055 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
75071012 CCCATTAGGA
75071022 CACAAAATCGAATTAT
1 CACAAAATCGAATTAT
75071038 CACAAAATCGAATTAT
1 CACAAAATCGAATTAT
75071054 CA
1 CA
75071056 TCGCACATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.50, C:0.21, G:0.06, T:0.24
Consensus pattern (16 bp):
CACAAAATCGAATTAT
Found at i:75077993 original size:58 final size:58
Alignment explanation
Indices: 75077899--75078024 Score: 146
Period size: 58 Copynumber: 2.2 Consensus size: 58
75077889 GGACCCTTCT
* * * * * * *
75077899 GTGAACCTTTTGGGCTCTCAACGGAGGTAAGGCATATCTTCAATATCTCGA-CTCTTTC
1 GTGAACCCTTTGGGATCTCAACGAAGATAAGACATATCTTCAATATCTAGACCTC-TCC
* * *
75077957 GTGAACCCTTTGGGATCTCAGCGAAGATGAGACATATCTTCAATATTTAGACCTCTCC
1 GTGAACCCTTTGGGATCTCAACGAAGATAAGACATATCTTCAATATCTAGACCTCTCC
75078015 GTGAACCCTT
1 GTGAACCCTT
75078025 CGAGCACTAT
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
58 54 0.95
59 3 0.05
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.31
Consensus pattern (58 bp):
GTGAACCCTTTGGGATCTCAACGAAGATAAGACATATCTTCAATATCTAGACCTCTCC
Found at i:75078247 original size:298 final size:298
Alignment explanation
Indices: 75077589--75078481 Score: 1554
Period size: 298 Copynumber: 3.0 Consensus size: 298
75077579 TTTCGTAACA
*
75077589 TTTGGGCCCCTTTGTGAACCTTTTGGGCTCTCAACGGAGGTAAGGCATATCTTCAATATCTCGAC
1 TTTGGGCCCCTCTGTGAACCTTTTGGGCTCTCAACGGAGGTAAGGCATATCTTCAATATCTCGAC
* * * *
75077654 CCTTTCGTGAACCCTTTGGGATCTCAGTGAAGGTGAGACATATCTTCATTATTTAGACATCTCCG
66 CCTTTCGTGAACCCTTTGGGATCTCAGCGAAGATGAGACATATCTTCAATATTTAGACCTCTCCG
75077719 TGAACCCTTCGAGCACTATGAATTTCTAGTGACTAACATATATTACACATTTCTTATGTTTCAAT
131 TGAACCCTTCGAGCACTATGAATTTCTAGTGACTAACATATATTACACATTTCTTATGTTTCAAT
* *
75077784 GAATAGGTTGTAT-TCCTACATTTTATTACCAACAGTCAGCTTAAATCTTTTCTATTTTACATTT
196 GAATAGGTCGTATCTCTTACATTTTATTACCAACAGTCAGCTTAAATCTTTTCTATTTTACATTT
*
75077848 CTAATAATCTAAAAAAGTTTATATCAAGCAAATGACCT
261 CTAATAATCTAAAAAAGTTTATATCAAGCAAACGACCT
* *
75077886 TTTGGACCCTTCTGTGAACCTTTTGGGCTCTCAACGGAGGTAAGGCATATCTTCAATATCTCGAC
1 TTTGGGCCCCTCTGTGAACCTTTTGGGCTCTCAACGGAGGTAAGGCATATCTTCAATATCTCGAC
*
75077951 TCTTTCGTGAACCCTTTGGGATCTCAGCGAAGATGAGACATATCTTCAATATTTAGACCTCTCCG
66 CCTTTCGTGAACCCTTTGGGATCTCAGCGAAGATGAGACATATCTTCAATATTTAGACCTCTCCG
*
75078016 TGAACCCTTCGAGCACTATGAATTTCTAGTGACTAACATATATTACACATTTCTTATATTTCAAT
131 TGAACCCTTCGAGCACTATGAATTTCTAGTGACTAACATATATTACACATTTCTTATGTTTCAAT
* * *
75078081 GAATAGGTCGTATCTCTTATATTTTATTCCCAACAGTCAGCTTAAATATTTTCTATTTTACATTT
196 GAATAGGTCGTATCTCTTACATTTTATTACCAACAGTCAGCTTAAATCTTTTCTATTTTACATTT
75078146 CTAATAATCTAAAAAAGTTTATATCAAGCAAACGACCT
261 CTAATAATCTAAAAAAGTTTATATCAAGCAAACGACCT
* *
75078184 TTTGGGCCCCTCTATGAACCTTTTGGGCTCTCAACTGAGGTAAGGCATATCTTCAATATCTCGAC
1 TTTGGGCCCCTCTGTGAACCTTTTGGGCTCTCAACGGAGGTAAGGCATATCTTCAATATCTCGAC
* * * *
75078249 CCTTTCGTGAACCCTTTGGAATCTCAGCGAAGATGAGACATATCTTTAATATTTAGACCTCTGCA
66 CCTTTCGTGAACCCTTTGGGATCTCAGCGAAGATGAGACATATCTTCAATATTTAGACCTCTCCG
* *
75078314 TGAACCCTTCGAGAACTATGAATTTCTAGTGACTAACATATATTACACATTTTTTATGTTTCAAT
131 TGAACCCTTCGAGCACTATGAATTTCTAGTGACTAACATATATTACACATTTCTTATGTTTCAAT
*
75078379 GAATAGGTCGTGTCTCTTACATTTTATTACCAACAGTCAGCTTAAATCTTTTCTATTTTACATTT
196 GAATAGGTCGTATCTCTTACATTTTATTACCAACAGTCAGCTTAAATCTTTTCTATTTTACATTT
*
75078444 CTAATAATCTAAAAAGGTTTATATCAAGCAAACGACCT
261 CTAATAATCTAAAAAAGTTTATATCAAGCAAACGACCT
75078482 ACCAAAGTGC
Statistics
Matches: 563, Mismatches: 32, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
297 198 0.35
298 365 0.65
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (298 bp):
TTTGGGCCCCTCTGTGAACCTTTTGGGCTCTCAACGGAGGTAAGGCATATCTTCAATATCTCGAC
CCTTTCGTGAACCCTTTGGGATCTCAGCGAAGATGAGACATATCTTCAATATTTAGACCTCTCCG
TGAACCCTTCGAGCACTATGAATTTCTAGTGACTAACATATATTACACATTTCTTATGTTTCAAT
GAATAGGTCGTATCTCTTACATTTTATTACCAACAGTCAGCTTAAATCTTTTCTATTTTACATTT
CTAATAATCTAAAAAAGTTTATATCAAGCAAACGACCT
Done.